Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold234
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 616507
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.32
File 2 of 5
Found at i:133715 original size:16 final size:17
Alignment explanation
Indices: 133694--133745 Score: 56
Period size: 16 Copynumber: 3.1 Consensus size: 17
133684 ATCATAATTT
133694 TATTTAA-AATATTATA
1 TATTTAATAATATTATA
133710 TATTTATATAATTATTGATA
1 TATTTA-ATAA-TATT-ATA
133730 TA-TTAATAAT-TTATA
1 TATTTAATAATATTATA
133745 T
1 T
133746 TATAAAGATT
Statistics
Matches: 32, Mismatches: 0, Indels: 9
0.78 0.00 0.22
Matches are distributed among these distances:
15 4 0.12
16 8 0.25
17 2 0.06
18 6 0.19
19 7 0.22
20 5 0.16
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (17 bp):
TATTTAATAATATTATA
Found at i:135502 original size:16 final size:16
Alignment explanation
Indices: 135416--135502 Score: 54
Period size: 16 Copynumber: 5.4 Consensus size: 16
135406 GTTAATATGC
*
135416 AAATAT-AAAATTTTA
1 AAATATAAAAAATTTA
*
135431 AACTAT-AAAAATTTA
1 AAATATAAAAAATTTA
* * **
135446 ATATCTAAAATTTTTA
1 AAATATAAAAAATTTA
**
135462 AACAT-TAAATAAATAAA
1 AA-ATATAAA-AAATTTA
135479 ATAATATAAAAAATTTA
1 A-AATATAAAAAATTTA
135496 AAATATA
1 AAATATA
135503 TAACAAATGA
Statistics
Matches: 53, Mismatches: 14, Indels: 9
0.70 0.18 0.12
Matches are distributed among these distances:
15 16 0.30
16 18 0.34
17 14 0.26
18 5 0.09
ACGTcount: A:0.61, C:0.03, G:0.00, T:0.36
Consensus pattern (16 bp):
AAATATAAAAAATTTA
Found at i:135503 original size:18 final size:19
Alignment explanation
Indices: 135475--135510 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
135465 ATTAAATAAA
135475 TAAAATAATATAAAAAATT
1 TAAAATAATATAAAAAATT
*
135494 TAAAAT-ATATAACAAAT
1 TAAAATAATATAAAAAAT
135511 GATTATTAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 10 0.62
19 6 0.38
ACGTcount: A:0.67, C:0.03, G:0.00, T:0.31
Consensus pattern (19 bp):
TAAAATAATATAAAAAATT
Found at i:138775 original size:20 final size:20
Alignment explanation
Indices: 138750--138815 Score: 90
Period size: 20 Copynumber: 3.6 Consensus size: 20
138740 TGCCAGTTTC
138750 ATGTATCGATACAATTAAGT
1 ATGTATCGATACAATTAAGT
138770 ATGTATCGATAC---TAA-T
1 ATGTATCGATACAATTAAGT
138786 A--TATCGATACAATTAAGT
1 ATGTATCGATACAATTAAGT
138804 ATGTATCGATAC
1 ATGTATCGATAC
138816 TAATATATCG
Statistics
Matches: 40, Mismatches: 0, Indels: 12
0.77 0.00 0.23
Matches are distributed among these distances:
14 9 0.22
16 2 0.05
17 6 0.15
18 2 0.05
20 21 0.52
ACGTcount: A:0.39, C:0.12, G:0.14, T:0.35
Consensus pattern (20 bp):
ATGTATCGATACAATTAAGT
Found at i:138792 original size:14 final size:14
Alignment explanation
Indices: 138773--138829 Score: 60
Period size: 14 Copynumber: 3.6 Consensus size: 14
138763 ATTAAGTATG
138773 TATCGATACTAATA
1 TATCGATACTAATA
138787 TATCGATACAATTAAGTA
1 TATCGATAC---TAA-TA
138805 TGTATCGATACTAATA
1 --TATCGATACTAATA
138821 TATCGATAC
1 TATCGATAC
138830 ATCTGGATGT
Statistics
Matches: 37, Mismatches: 0, Indels: 12
0.76 0.00 0.24
Matches are distributed among these distances:
14 18 0.49
16 2 0.05
17 6 0.16
18 2 0.05
20 9 0.24
ACGTcount: A:0.40, C:0.14, G:0.11, T:0.35
Consensus pattern (14 bp):
TATCGATACTAATA
Found at i:138796 original size:34 final size:34
Alignment explanation
Indices: 138753--138830 Score: 156
Period size: 34 Copynumber: 2.3 Consensus size: 34
138743 CAGTTTCATG
138753 TATCGATACAATTAAGTATGTATCGATACTAATA
1 TATCGATACAATTAAGTATGTATCGATACTAATA
138787 TATCGATACAATTAAGTATGTATCGATACTAATA
1 TATCGATACAATTAAGTATGTATCGATACTAATA
138821 TATCGATACA
1 TATCGATACA
138831 TCTGGATGTA
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 44 1.00
ACGTcount: A:0.41, C:0.13, G:0.12, T:0.35
Consensus pattern (34 bp):
TATCGATACAATTAAGTATGTATCGATACTAATA
Found at i:140905 original size:154 final size:152
Alignment explanation
Indices: 140728--141171 Score: 470
Period size: 153 Copynumber: 2.9 Consensus size: 152
140718 TGTTATATGA
* * * * *
140728 AAAAAATGC-AAAACTCATCAAATAAATT-GAATTTTCACAAACTGATTCAACATGAATTTACTA
1 AAAAAATTCTAAAACTCATAAAATAAATTAAAATTTTCA-AAACTGATTTAATATGAA-TTA-TA
* * * * * *
140791 AAAATATTTTATGAATTTTAAAAATTTTAAGCTGAGAAAAACCCAACAGAAGAAATTTACGAAGT
63 AAAATATTTTAAGAATTTTAAAAATTATAAACTTAGAAAAATCTAACAGAAGAAATTTACGAAGT
* *
140856 AGAAAAC-TCTATATCTTGGTAACAAG
128 AGAAAACTTC-ACATCTTAGTAA-AAG
* *
140882 -AAAAATTCTAAAACTCATAAAATAAATTAAAATATTCAAAACTGATTTAATATGAATTA-AACA
1 AAAAAATTCTAAAACTCATAAAATAAATTAAAATTTTCAAAACTGATTTAATATGAATTATAAAA
* * * * *
140945 TTAATTTTGAAGAATTTTAGAAATTATAAACTTAGAAAAATCTTACCGGAGAAATTTAC-AGAGT
66 AT-ATTTT-AAGAATTTTAAAAATTATAAACTTAGAAAAATCTAACAGAAGAAATTTACGA-AGT
*
141009 AGAAAACTTCACATCTTAGTAATAG
128 AGAAAACTTCACATCTTAGTAAAAG
* * *
141034 AAAAAATTCTAAAACTCGTAAAATGAATTAAAATTTTCAAAATTGATTTAATATGAATTAGATAA
1 AAAAAATTCTAAAACTCATAAAATAAATTAAAATTTTCAAAACTGATTTAATATGAATT--ATAA
* * * * * *
141099 TAATATTTGAAGAATTTTGAAAATTATAAACTTATAAAAATCTAACTA-AAGAAATTTATGGAGT
64 AAATATTTTAAGAATTTTAAAAATTATAAACTTAGAAAAATCTAAC-AGAAGAAATTTACGAAGT
141163 AGAAAACTT
128 AGAAAACTT
141172 TGTATTTTAA
Statistics
Matches: 242, Mismatches: 36, Indels: 24
0.80 0.12 0.08
Matches are distributed among these distances:
151 4 0.02
152 8 0.03
153 124 0.51
154 90 0.37
155 12 0.05
156 4 0.02
ACGTcount: A:0.49, C:0.10, G:0.10, T:0.31
Consensus pattern (152 bp):
AAAAAATTCTAAAACTCATAAAATAAATTAAAATTTTCAAAACTGATTTAATATGAATTATAAAA
ATATTTTAAGAATTTTAAAAATTATAAACTTAGAAAAATCTAACAGAAGAAATTTACGAAGTAGA
AAACTTCACATCTTAGTAAAAG
Found at i:142634 original size:43 final size:42
Alignment explanation
Indices: 142581--142776 Score: 198
Period size: 43 Copynumber: 4.6 Consensus size: 42
142571 GGAAAATAGC
* *
142581 TGGCTAGGATGAAACCATATGAACCAACGAAATAGAAGGGTGT
1 TGGCTGGGATGAAACCATATGAACCAAC-AAATAGAAGGGTAT
* * *
142624 TGGCTGGGATGAAACCATACGTACCAACAAGTCAGAAGGGTAT
1 TGGCTGGGATGAAACCATATGAACCAACAAAT-AGAAGGGTAT
* * *
142667 TGG-TCGGGATGAAACCATATGAACTAGCAAGTTAGAAGGGTAT
1 TGGCT-GGGATGAAACCATATGAACCAACAA-ATAGAAGGGTAT
* * * **
142710 TGGCTTGGATGAAACCATA-CATACCAACAAATTAAAAGGGTGC
1 TGGCTGGGATGAAACCATATGA-ACCAACAAA-TAGAAGGGTAT
*
142753 TGGCTGGGACGAAACCATATGAAC
1 TGGCTGGGATGAAACCATATGAAC
142777 TAACGAGTTA
Statistics
Matches: 125, Mismatches: 21, Indels: 14
0.78 0.13 0.09
Matches are distributed among these distances:
42 5 0.04
43 117 0.94
44 3 0.02
ACGTcount: A:0.37, C:0.16, G:0.27, T:0.20
Consensus pattern (42 bp):
TGGCTGGGATGAAACCATATGAACCAACAAATAGAAGGGTAT
Found at i:142684 original size:86 final size:87
Alignment explanation
Indices: 142580--142822 Score: 269
Period size: 86 Copynumber: 2.8 Consensus size: 87
142570 AGGAAAATAG
* * *
142580 CTGGCTAGGATGAAACCATATGAACCAACGAA-ATAGAAGGGTGTTGGCTGGGATGAAACCATAC
1 CTGGCTGGGATGAAACCATATGAACTAACGAAGATAGAAGGGTATTGGCTGGGATGAAACCATAC
* * *
142644 GTACCAACAAGTCAGAAGGGTA
66 ATACCAACAAATCAAAAGGGTA
* * * *
142666 TTGG-TCGGGATGAAACCATATGAACTAGC-AAGTTAGAAGGGTATTGGCTTGGATGAAACCATA
1 CTGGCT-GGGATGAAACCATATGAACTAACGAAGATAGAAGGGTATTGGCTGGGATGAAACCATA
* *
142729 CATACCAACAAATTAAAAGGGTG
65 CATACCAACAAATCAAAAGGGTA
* * * * * * *
142752 CTGGCTGGGACGAAACCATATGAACTAACG-AGTTATAAGGTTATTAGCTAGAATGAAACCATAC
1 CTGGCTGGGATGAAACCATATGAACTAACGAAGATAGAAGGGTATTGGCTGGGATGAAACCATAC
*
142816 AAACCAA
66 ATACCAA
142823 TGAGTTAAAA
Statistics
Matches: 132, Mismatches: 21, Indels: 8
0.82 0.13 0.05
Matches are distributed among these distances:
85 3 0.02
86 128 0.97
87 1 0.01
ACGTcount: A:0.38, C:0.16, G:0.25, T:0.21
Consensus pattern (87 bp):
CTGGCTGGGATGAAACCATATGAACTAACGAAGATAGAAGGGTATTGGCTGGGATGAAACCATAC
ATACCAACAAATCAAAAGGGTA
Found at i:142811 original size:129 final size:129
Alignment explanation
Indices: 142581--142814 Score: 285
Period size: 129 Copynumber: 1.8 Consensus size: 129
142571 GGAAAATAGC
* * * * *
142581 TGGCTAGGATGAAACCATATGAACCAACGAAATAGAAGGGTGTTGGCTGGGATGAAACCATACGT
1 TGGCTAGGATGAAACCATATCAACCAACGAAATAAAAGGGTGCTGGCTGGGACGAAACCATACGA
* * *
142646 ACCAACAAGTCAGAAGGGTATTGGTCGGGATGAAACCATATGAACTAGCAAGTTAGAAGGGTAT
66 ACCAACAAGTCAGAAGGGTATTGCTCAGAATGAAACCATATGAACTAGCAAGTTAGAAGGGTAT
* *
142710 TGGCTTGGATGAAACCATA-CATACCAAC-AAATTAAAAGGGTGCTGGCTGGGACGAAACCATAT
1 TGGCTAGGATGAAACCATATCA-ACCAACGAAA-TAAAAGGGTGCTGGCTGGGACGAAACCATAC
* * * * *
142773 GAACTAACGAGTTATAAGGTTATTAGCT-AGAATGAAACCATA
64 GAACCAACAAGTCAGAAGGGTATT-GCTCAGAATGAAACCATA
142815 CAAACCAATG
Statistics
Matches: 87, Mismatches: 15, Indels: 6
0.81 0.14 0.06
Matches are distributed among these distances:
128 4 0.05
129 81 0.93
130 2 0.02
ACGTcount: A:0.38, C:0.15, G:0.26, T:0.21
Consensus pattern (129 bp):
TGGCTAGGATGAAACCATATCAACCAACGAAATAAAAGGGTGCTGGCTGGGACGAAACCATACGA
ACCAACAAGTCAGAAGGGTATTGCTCAGAATGAAACCATATGAACTAGCAAGTTAGAAGGGTAT
Found at i:142831 original size:86 final size:86
Alignment explanation
Indices: 142582--142862 Score: 235
Period size: 86 Copynumber: 3.3 Consensus size: 86
142572 GAAAATAGCT
* * * * * * * * **
142582 GGCTAGGATGAAACCATATGAACCAACGAA-ATAGAAGGGTGTTGGCTGGGATGAAACCATACGT
1 GGCTGGGACGAAACCATATGAACTAAC-AAGTTAGAAGGGTATTAGCTAGAATGAAACCATACAA
* * * * *
142646 ACCAACAAGTCAGAAGGGTATT
65 ACCAACAAATTAAAAGGGTGTA
* * * * * *
142668 GG-TCGGGATGAAACCATATGAACTAGCAAGTTAGAAGGGTATTGGCTTGGATGAAACCATACAT
1 GGCT-GGGACGAAACCATATGAACTAACAAGTTAGAAGGGTATTAGCTAGAATGAAACCATACAA
142732 ACCAACAAATTAAAAGGGTGCT-
65 ACCAACAAATTAAAAGGGTG-TA
* * *
142754 GGCTGGGACGAAACCATATGAACTAACGAGTTATAAGGTTATTAGCTAGAATGAAACCATACAAA
1 GGCTGGGACGAAACCATATGAACTAACAAGTTAGAAGGGTATTAGCTAGAATGAAACCATACAAA
** * *
142819 CCAATGAGTTAAAAGGTTGTA
66 CCAACAAATTAAAAGGGTGTA
** *
142840 GGCTAAGACAAAACCATATGAAC
1 GGCTGGGACGAAACCATATGAAC
142863 CGACAAAACC
Statistics
Matches: 163, Mismatches: 27, Indels: 10
0.81 0.14 0.05
Matches are distributed among these distances:
85 4 0.02
86 157 0.96
87 2 0.01
ACGTcount: A:0.39, C:0.16, G:0.25, T:0.21
Consensus pattern (86 bp):
GGCTGGGACGAAACCATATGAACTAACAAGTTAGAAGGGTATTAGCTAGAATGAAACCATACAAA
CCAACAAATTAAAAGGGTGTA
Found at i:142869 original size:18 final size:18
Alignment explanation
Indices: 142846--142888 Score: 77
Period size: 18 Copynumber: 2.4 Consensus size: 18
142836 TGTAGGCTAA
142846 GACAAAACCATATGAACC
1 GACAAAACCATATGAACC
142864 GACAAAACCATATGAACC
1 GACAAAACCATATGAACC
*
142882 AACAAAA
1 GACAAAA
142889 AAAAGTTGAT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.56, C:0.26, G:0.09, T:0.09
Consensus pattern (18 bp):
GACAAAACCATATGAACC
Found at i:143139 original size:43 final size:43
Alignment explanation
Indices: 143085--143558 Score: 261
Period size: 43 Copynumber: 11.1 Consensus size: 43
143075 CCATACAAGT
* * * *
143085 CAACGAGTTAGAAAATTGTTAGCTAGGATGAAACCATACGCAC
1 CAACAAGTTAGAAAAGTGTTGGCTAGGATGAAACCATACGAAC
* * * * * * **
143128 CAACAAATTAGAAAGGTGCTGGCTAAGACGAAACCATATGTGC
1 CAACAAGTTAGAAAAGTGTTGGCTAGGATGAAACCATACGAAC
*
143171 CAACAAGTTAGAAAAGTATTGGCT-GAGATGAAACCATACGAAC
1 CAACAAGTTAGAAAAGTGTTGGCTAG-GATGAAACCATACGAAC
** *
143214 CAACAAGTTA-AAAAGGTGTTGGCTAGGATGAAAGAATACAAAC
1 CAACAAGTTAGAAAA-GTGTTGGCTAGGATGAAACCATACGAAC
** * * * *
143257 CAACAA---AGAAAA--GTTGAATAAGACGAAACCATA-TAAGT
1 CAACAAGTTAGAAAAGTGTTGGCTAGGATGAAACCATACGAA-C
* * * *
143295 CAACAAGTTAGAAAATTGTTGGCTAAGATAAAACCATAC-ATAT
1 CAACAAGTTAGAAAAGTGTTGGCTAGGATGAAACCATACGA-AC
* * * *
143338 CAATAAATTAGAAAGGTGTTGGC-AGGGATGAAACCATACGGAC
1 CAACAAGTTAGAAAAGTGTTGGCTA-GGATGAAACCATACGAAC
* * * * * * *
143381 CAACGAGCTAGGAAGGTGTTGGCCAGGATGAAACCATATGTAC
1 CAACAAGTTAGAAAAGTGTTGGCTAGGATGAAACCATACGAAC
** * * * **
143424 CAATGAGTTAGAAAGGTATTGG-TCGGGATGAAACCATAAAAAC
1 CAACAAGTTAGAAAAGTGTTGGCT-AGGATGAAACCATACGAAC
* * ** * * *** *
143467 CAATGAA-TTAGAAAGGCATTGGTTGGGGCAAAACCATACGTAC
1 CAA-CAAGTTAGAAAAGTGTTGGCTAGGATGAAACCATACGAAC
** ** * *
143510 CAACAAGTTAGAAGGGTGTTGGCCGGGATAAAACCATATGAAC
1 CAACAAGTTAGAAAAGTGTTGGCTAGGATGAAACCATACGAAC
143553 CAACAA
1 CAACAA
143559 AGGAAAGTTT
Statistics
Matches: 333, Mismatches: 79, Indels: 38
0.74 0.18 0.08
Matches are distributed among these distances:
37 2 0.01
38 21 0.06
40 1 0.00
41 10 0.03
42 7 0.02
43 287 0.86
44 5 0.02
ACGTcount: A:0.42, C:0.16, G:0.23, T:0.19
Consensus pattern (43 bp):
CAACAAGTTAGAAAAGTGTTGGCTAGGATGAAACCATACGAAC
Found at i:143180 original size:86 final size:85
Alignment explanation
Indices: 142902--143238 Score: 276
Period size: 86 Copynumber: 4.0 Consensus size: 85
142892 AGTTGATTGG
* * * * * ** * *
142902 GACGAAATCATATGAGTCAATGTGTTAGAAAATTGTTGGCTAGGATGAAATGATACGTACCAATA
1 GACGAAACCATAT-AGCCAACGAGTTAGAAAAGTGTTGGCTAGGATGAAACCATACGAACCAACA
*
142967 AATTA-AAAGGGTGTTGGCGAA
65 AATTAGAAA-GGTGTTGGCTAA
* * * * ** * *
142988 GACAAAACCATATAACCAATGAGTTA-AAAGGGTGTTGGCCGGGATGAAACCATTCGAACCAATA
1 GACGAAACCATATAGCCAACGAGTTAGAAA-AGTGTTGGCTAGGATGAAACCATACGAACCAACA
* *
143052 AA--AGAAA---GTTGACCAA
65 AATTAGAAAGGTGTTGGCTAA
* * * * * *
143068 GACGAAGCCATACAAGTCAACGAGTTAGAAAATTGTTAGCTAGGATGAAACCATACGCACCAACA
1 GACGAAACCATA-TAGCCAACGAGTTAGAAAAGTGTTGGCTAGGATGAAACCATACGAACCAACA
*
143133 AATTAGAAAGGTGCTGGCTAA
65 AATTAGAAAGGTGTTGGCTAA
* * *
143154 GACGAAACCATATGTGCCAACAAGTTAGAAAAGTATTGGCT-GAGATGAAACCATACGAACCAAC
1 GACGAAACCATAT-AGCCAACGAGTTAGAAAAGTGTTGGCTAG-GATGAAACCATACGAACCAAC
* *
143218 AAGTTAAAAAGGTGTTGGCTA
64 AAATTAGAAAGGTGTTGGCTA
143239 GGATGAAAGA
Statistics
Matches: 196, Mismatches: 44, Indels: 22
0.75 0.17 0.08
Matches are distributed among these distances:
80 17 0.09
81 38 0.19
82 3 0.02
83 6 0.03
84 6 0.03
85 39 0.20
86 87 0.44
ACGTcount: A:0.41, C:0.15, G:0.23, T:0.21
Consensus pattern (85 bp):
GACGAAACCATATAGCCAACGAGTTAGAAAAGTGTTGGCTAGGATGAAACCATACGAACCAACAA
ATTAGAAAGGTGTTGGCTAA
Found at i:143260 original size:86 final size:86
Alignment explanation
Indices: 142925--143558 Score: 273
Period size: 86 Copynumber: 7.5 Consensus size: 86
142915 GAGTCAATGT
* ** * * * * *
142925 GTTAGAAAATTGTTGGCT-AGGATGAAATGATACGTACCAATAAATTAAAAGGGTGTTGGCGAAG
1 GTTAGAAAAGTGTTGGCTGA-GATGAAACCATACGAACCAACAAGTTAAAAAGGTGTTGGCTAAG
** * **
142989 ACAAAACCATATA-ACCAATGA
65 ATGAAACCATACATACCAACAA
* * * * * * *
143010 GTTA-AAAGGGTGTTGGCCGGGATGAAACCATTCGAACCAATAA---AAGAAA---GTTGACCAA
1 GTTAGAAA-AGTGTTGGCTGAGATGAAACCATACGAACCAACAAGTTAA-AAAGGTGTTGGCTAA
* * * *
143068 GACGAAGCCATACA-AGTCAACGA
64 GATGAAACCATACATA-CCAACAA
* * * * * *
143091 GTTAGAAAATTGTTAGCT-AGGATGAAACCATACGCACCAACAAATTAGAAAGGTGCTGGCTAAG
1 GTTAGAAAAGTGTTGGCTGA-GATGAAACCATACGAACCAACAAGTTAAAAAGGTGTTGGCTAAG
* ** *
143155 ACGAAACCATATGTGCCAACAA
65 ATGAAACCATACATACCAACAA
* *
143177 GTTAGAAAAGTATTGGCTGAGATGAAACCATACGAACCAACAAGTTAAAAAGGTGTTGGCTAGGA
1 GTTAGAAAAGTGTTGGCTGAGATGAAACCATACGAACCAACAAGTTAAAAAGGTGTTGGCTAAGA
** *
143242 TGAAAGAATACAAACCAACAA
66 TGAAACCATACATACCAACAA
** * * * * *
143263 ---AGAAAA--GTTGAATAAGACGAAACCATA-TAAGTCAACAAGTTAGAAAA-TTGTTGGCTAA
1 GTTAGAAAAGTGTTGGCTGAGATGAAACCATACGAA-CCAACAAGTTA-AAAAGGTGTTGGCTAA
* * *
143321 GATAAAACCATACATATCAATAA
64 GATGAAACCATACATACCAACAA
* * * * * * * ** * *
143344 ATTAGAAAGGTGTTGGCAGGGATGAAACCATACGGACCAACGAGCTAGGAAGGTGTTGGCCAGGA
1 GTTAGAAAAGTGTTGGCTGAGATGAAACCATACGAACCAACAAGTTAAAAAGGTGTTGGCTAAGA
** **
143409 TGAAACCATATGTACCAATGA
66 TGAAACCATACATACCAACAA
* * * ** * * ** * **
143430 GTTAGAAAGGTATTGG-TCGGGATGAAACCATAAAAACCAATGAA-TTAGAAAGGCATTGGTTGG
1 GTTAGAAAAGTGTTGGCT-GAGATGAAACCATACGAACCAA-CAAGTTAAAAAGGTGTTGGCTAA
*** *
143493 GGCAAAACCATACGTACCAACAA
64 GATGAAACCATACATACCAACAA
** * * * *
143516 GTTAGAAGGGTGTTGGCCGGGATAAAACCATATGAACCAACAA
1 GTTAGAAAAGTGTTGGCTGAGATGAAACCATACGAACCAACAA
143559 AGGAAAGTTT
Statistics
Matches: 409, Mismatches: 114, Indels: 52
0.71 0.20 0.09
Matches are distributed among these distances:
80 21 0.05
81 87 0.21
82 9 0.02
83 11 0.03
84 9 0.02
85 34 0.08
86 235 0.57
87 3 0.01
ACGTcount: A:0.42, C:0.15, G:0.23, T:0.20
Consensus pattern (86 bp):
GTTAGAAAAGTGTTGGCTGAGATGAAACCATACGAACCAACAAGTTAAAAAGGTGTTGGCTAAGA
TGAAACCATACATACCAACAA
Found at i:143383 original size:124 final size:127
Alignment explanation
Indices: 143101--143384 Score: 317
Period size: 124 Copynumber: 2.2 Consensus size: 127
143091 GTTAGAAAAT
* * * **
143101 TGTTAGCTAGGATGAAACCATACGCACCAACAAATTAGAAAGGTGCTGGCTAAGACGAAACCATA
1 TGTTGGCTAGGATGAAACCATACGAACCAACAAA-TAGAAAAGT-CTGAATAAGACGAAACCATA
** * * *
143166 TGTGCCAACAAGTTAGAAAAGTATTGGCTGAGATGAAACCATACGAACCAACAAGTTAAAAAGG
64 TAAGCCAACAAGTTAGAAAAGTATTGGCTAAGATAAAACCATACGAACCAACAAATTAAAAAGG
** *
143230 TGTTGGCTAGGATGAAAGAATACAAACCAAC-AA-AGAAAAGT-TGAATAAGACGAAACCATATA
1 TGTTGGCTAGGATGAAACCATACGAACCAACAAATAGAAAAGTCTGAATAAGACGAAACCATATA
* * * * * *
143292 AGTCAACAAGTTAGAAAATTGTTGGCTAAGATAAAACCATAC-ATATCAATAAATTAGAAAGG
66 AGCCAACAAGTTAGAAAAGTATTGGCTAAGATAAAACCATACGA-ACCAACAAATTAAAAAGG
*
143354 TGTTGGC-AGGGATGAAACCATACGGACCAAC
1 TGTTGGCTA-GGATGAAACCATACGAACCAAC
143385 GAGCTAGGAA
Statistics
Matches: 130, Mismatches: 23, Indels: 9
0.80 0.14 0.06
Matches are distributed among these distances:
123 2 0.02
124 93 0.72
126 7 0.05
128 2 0.02
129 26 0.20
ACGTcount: A:0.44, C:0.16, G:0.21, T:0.19
Consensus pattern (127 bp):
TGTTGGCTAGGATGAAACCATACGAACCAACAAATAGAAAAGTCTGAATAAGACGAAACCATATA
AGCCAACAAGTTAGAAAAGTATTGGCTAAGATAAAACCATACGAACCAACAAATTAAAAAGG
Found at i:143413 original size:210 final size:209
Alignment explanation
Indices: 142992--143469 Score: 514
Period size: 210 Copynumber: 2.3 Consensus size: 209
142982 GGCGAAGACA
* * * * * * *
142992 AAACCATATAACCAATGAGTTAAAAGGGTGTTGGCCGGGATGAAACCATTCGAACCAATAAAAGA
1 AAACCATAGAACCAATGAGTTAAAAAGGTGTTGGCCAGGATGAAACAATACAAACCAACAAAAGA
* * * * *
143057 AAGTTGACCAAGACGAAGCCATACAAGTCAACGAGTTAGAAAATTGTTAGCTAGGATGAAACCAT
66 AAGTTGAACAAGACGAAACCATACAAGTCAACAAGTTAGAAAATTGTTAGCTAAGATAAAACCAT
* * *
143122 ACGCACCAACAAATTAGAAAGGTGCTGGCTAAGACGAAACCATATGTGCCAACAAGTTAGAAAAG
131 ACACACCAACAAATTAGAAAGGTGCTGGCTAAGACGAAACCATACGTGCCAACAAGCTAGAAAAG
*
143187 TATTGGCTGAGATG
196 TATTGGCAGAGATG
** * *
143201 AAACCATACGAACCAACAAGTTAAAAAGGTGTTGGCTAGGATGAAAGAATACAAACCAAC-AAAG
1 AAACCATA-GAACCAATGAGTTAAAAAGGTGTTGGCCAGGATGAAACAATACAAACCAACAAAAG
* * *
143265 AAAAGTTGAATAAGACGAAACCATATAAGTCAACAAGTTAGAAAATTGTTGGCTAAGATAAAACC
65 -AAAGTTGAACAAGACGAAACCATACAAGTCAACAAGTTAGAAAATTGTTAGCTAAGATAAAACC
* * * * * * * *
143330 ATACATATCAATAAATTAGAAAGGTGTTGGC-AGGGATGAAACCATACG-GACCAACGAGCTAGG
129 ATACACACCAACAAATTAGAAAGGTGCTGGCTA-AGACGAAACCATACGTG-CCAACAAGCTAGA
* *
143393 AAGGTGTTGGCCAG-GATG
192 AAAGTATTGG-CAGAGATG
* * * * * * *
143411 AAACCATATGTACCAATGAGTTAGAAAGGTATTGGTCGGGATGAAACCATAAAAACCAA
1 AAACCATA-GAACCAATGAGTTAAAAAGGTGTTGGCCAGGATGAAACAATACAAACCAA
143470 TGAATTAGAA
Statistics
Matches: 219, Mismatches: 45, Indels: 9
0.80 0.16 0.03
Matches are distributed among these distances:
209 14 0.06
210 203 0.93
211 2 0.01
ACGTcount: A:0.43, C:0.16, G:0.22, T:0.19
Consensus pattern (209 bp):
AAACCATAGAACCAATGAGTTAAAAAGGTGTTGGCCAGGATGAAACAATACAAACCAACAAAAGA
AAGTTGAACAAGACGAAACCATACAAGTCAACAAGTTAGAAAATTGTTAGCTAAGATAAAACCAT
ACACACCAACAAATTAGAAAGGTGCTGGCTAAGACGAAACCATACGTGCCAACAAGCTAGAAAAG
TATTGGCAGAGATG
Found at i:144243 original size:43 final size:42
Alignment explanation
Indices: 143986--144365 Score: 178
Period size: 43 Copynumber: 9.0 Consensus size: 42
143976 GTACCAACAA
* * * * * *
143986 ATTAAAAGGGTGTTGGCTGTGAGGAAACCATATGAACCAATG
1 ATTAGAAGGGTATTGGCCGGGATGAAACCATATGAACCAACG
* * * * *
144028 AGTTAGAAGGGTGTTAGCCAGGATGAAACCATATGGACTAACG
1 A-TTAGAAGGGTATTGGCCGGGATGAAACCATATGAACCAACG
* * * * *
144071 AGTTAAAAGAGTATTAGCCGGGATAAAACCATACGAACCAAC-
1 A-TTAGAAGGGTATTGGCCGGGATGAAACCATATGAACCAACG
* ** ** * **
144113 A-AAGAAAAG--TTGATCGGGATGAAACCATCTGAGTCAACG
1 ATTAGAAGGGTATTGGCCGGGATGAAACCATATGAACCAACG
** * ** ** **
144152 AGTTAGAAAAGTGTTGGCCGATATGAAACCATATGTGCCAATAA
1 A-TTAGAAGGGTATTGGCCGGGATGAAACCATATGAACCAA-CG
*
144196 ATTAGAAGGGTATTGGCCGGGATGAAACCATATGAACTAACG
1 ATTAGAAGGGTATTGGCCGGGATGAAACCATATGAACCAACG
* * ** * ** **
144238 CATTAGAAAGGTATTGGCTGGGACAAAACTATACAAACCAATA
1 -ATTAGAAGGGTATTGGCCGGGATGAAACCATATGAACCAACG
** * *
144281 AGTTAGAAGGGTATTGGTTAGGGCA--AAACTATATGAACCAATG
1 A-TTAGAAGGGTATTGG-CCGGG-ATGAAACCATATGAACCAACG
* * * *
144324 AGTTAAAAAGGTATTGGCTGGGATGAAACTATATGAACCAAC
1 A-TTAGAAGGGTATTGGCCGGGATGAAACCATATGAACCAAC
144366 AAAAGAAAAT
Statistics
Matches: 256, Mismatches: 69, Indels: 25
0.73 0.20 0.07
Matches are distributed among these distances:
38 21 0.08
39 1 0.00
40 5 0.02
41 8 0.03
42 6 0.02
43 210 0.82
44 4 0.02
45 1 0.00
ACGTcount: A:0.39, C:0.14, G:0.25, T:0.22
Consensus pattern (42 bp):
ATTAGAAGGGTATTGGCCGGGATGAAACCATATGAACCAACG
Found at i:144363 original size:86 final size:85
Alignment explanation
Indices: 144174--144364 Score: 206
Period size: 86 Copynumber: 2.2 Consensus size: 85
144164 GTTGGCCGAT
* ** * *
144174 ATGAAACCATATGTGCCAATAAATTAGAAGGGTATTGGCCGGGATGAAACCATATGAACTAACGC
1 ATGAAACTATATGAACCAATAAATTAGAAGGGTATTGGCAGGGA-GAAACCATATGAACCAACGC
*
144239 ATTAGAAAGGTATTGGCTGGG
65 ATTAAAAAGGTATTGGCTGGG
** ** * * * *
144260 ACAAAACTATACAAACCAATAAGTTAGAAGGGTATTGGTTAGGGCA-AAACTATATGAACCAATG
1 ATGAAACTATATGAACCAATAAATTAGAAGGGTATTGG-CAGGG-AGAAACCATATGAACCAACG
144324 -AGTTAAAAAGGTATTGGCTGGG
64 CA-TTAAAAAGGTATTGGCTGGG
144346 ATGAAACTATATGAACCAA
1 ATGAAACTATATGAACCAA
144365 CAAAAGAAAA
Statistics
Matches: 84, Mismatches: 18, Indels: 6
0.78 0.17 0.06
Matches are distributed among these distances:
85 1 0.01
86 79 0.94
87 3 0.04
88 1 0.01
ACGTcount: A:0.40, C:0.13, G:0.24, T:0.23
Consensus pattern (85 bp):
ATGAAACTATATGAACCAATAAATTAGAAGGGTATTGGCAGGGAGAAACCATATGAACCAACGCA
TTAAAAAGGTATTGGCTGGG
Found at i:144934 original size:76 final size:74
Alignment explanation
Indices: 144842--145092 Score: 247
Period size: 76 Copynumber: 3.4 Consensus size: 74
144832 CATAATTTCC
* * * * * * *
144842 TATCAATAGTGAAAACAAACTGATAACAAGT-TGGAGAAGAATATTATAATAGGGAATAAGTGGT
1 TATCAACAGTGGAAACAAACTGATAAC-AGTCTGAAAAAGAA-AATAT-ATAGGGAATATGTGAT
144906 TTCTAAAATTTT
63 TTCTAAAATTTT
* * * * *
144918 TGTCAACAGTGGAAACAAACTGATAATAGTCTAAAAAAGAAAAACATGATGGGGAATATGT-ATT
1 TATCAACAGTGGAAACAAACTGATAACAGTCTGAAAAAG-AAAATAT-ATAGGGAATATGTGATT
144982 TCTAAAATTTT
64 TCTAAAATTTT
* * * * * *
144993 TATCAACAGTTGAAACAAATTGATAGCAGTCTGAAAAAAGAACATGT-TAGGGATTATGTGATTT
1 TATCAACAGTGGAAACAAACTGATAACAGTCTG-AAAAAGAAAATATATAGGGAATATGTGATTT
*
145057 CCAAAATTTT
65 CTAAAATTTT
*
145067 TATCAACAGTTGAAACAAACTGATAA
1 TATCAACAGTGGAAACAAACTGATAA
145093 TGGGCTAAAG
Statistics
Matches: 144, Mismatches: 27, Indels: 10
0.80 0.15 0.06
Matches are distributed among these distances:
73 10 0.07
74 37 0.26
75 47 0.33
76 48 0.33
77 2 0.01
ACGTcount: A:0.44, C:0.10, G:0.17, T:0.29
Consensus pattern (74 bp):
TATCAACAGTGGAAACAAACTGATAACAGTCTGAAAAAGAAAATATATAGGGAATATGTGATTTC
TAAAATTTT
Found at i:145008 original size:75 final size:75
Alignment explanation
Indices: 144893--145125 Score: 267
Period size: 75 Copynumber: 3.1 Consensus size: 75
144883 TATTATAATA
* * * *
144893 GGGAATAAGTGGTTTCTAAAATTTTTGTCAACAGTGGAAACAAACTGATAATAGTCTAAAAAAGA
1 GGGAATATGTGATTTCTAAAATTTTTATCAACAGTTGAAACAAACTGATAATAGTCTAAAAAAG-
144958 AAAACATGATG
65 AAAACATGATG
* **
144969 GGGAATATGT-ATTTCTAAAATTTTTATCAACAGTTGAAACAAATTGATAGCAGTCTGAAAAAAG
1 GGGAATATGTGATTTCTAAAATTTTTATCAACAGTTGAAACAAACTGATAATAGTCT-AAAAAAG
* *
145033 --AACATGTTA
65 AAAACATGATG
* * * *
145042 GGGATTATGTGATTTCCAAAATTTTTATCAACAGTTGAAACAAACTGATAATGGGCTAAAGGAAA
1 GGGAATATGTGATTTCTAAAATTTTTATCAACAGTTGAAACAAACTGATAATAGTCTAAA--AAA
*
145107 -AGAACATGATG
64 GAAAACATGATG
*
145118 AGGAATAT
1 GGGAATAT
145126 ACGTTTTCTA
Statistics
Matches: 131, Mismatches: 20, Indels: 12
0.80 0.12 0.07
Matches are distributed among these distances:
73 19 0.15
74 40 0.31
75 43 0.33
76 29 0.22
ACGTcount: A:0.43, C:0.09, G:0.19, T:0.28
Consensus pattern (75 bp):
GGGAATATGTGATTTCTAAAATTTTTATCAACAGTTGAAACAAACTGATAATAGTCTAAAAAAGA
AAACATGATG
Found at i:146378 original size:82 final size:85
Alignment explanation
Indices: 146158--146457 Score: 243
Period size: 82 Copynumber: 3.5 Consensus size: 85
146148 TGTAAGAGGC
** *
146158 AAATGCATATGAAAATGATATAAACACTAATGTCATTTAAAACTATAGATGTGTGTGAAACGATG
1 AAATGCATATG-AAATGATGCAAAAACTAATGTCATTTAAAA-TATAGATGTGTGTGAAAC-ATG
*
146223 AAAATGCAAGCATCAATAAAGTAGT
63 --AATGCAAGCATCAATAAAGAAGT
* *** * * *
146248 AAATGCATATGAAATGATGCCAATGTTGATGTCATTTAGAGAT-TAGATGTGTGT-AAA-ATG-T
1 AAATGCATATGAAATGATGCAAAAACTAATGTCATTTA-AAATATAGATGTGTGTGAAACATGAA
* *
146309 TGCAAGCTTCCATAAA-AAGGT
65 TGCAAGCATCAATAAAGAA-GT
* * *
146330 AAATGCATAAGAAATGATGCAAAAACTAATGTCATTTAAAATACAGATGTGTATG-AACAATGCA
1 AAATGCATATGAAATGATGCAAAAACTAATGTCATTTAAAATATAGATGTGTGTGAAAC-ATG--
* * ** *
146394 AATGCAAGCATTAATAATGTTGC
63 AATGCAAGCATCAATAAAGAAGT
* * * *
146417 AAATGCATATGAAGTGATGCAAACATTAATGTCATTCAAAA
1 AAATGCATATGAAATGATGCAAAAACTAATGTCATTTAAAA
146458 AGCATATATG
Statistics
Matches: 166, Mismatches: 34, Indels: 23
0.74 0.15 0.10
Matches are distributed among these distances:
81 4 0.02
82 59 0.36
84 3 0.02
85 3 0.02
87 52 0.31
88 11 0.07
89 21 0.13
90 13 0.08
ACGTcount: A:0.44, C:0.11, G:0.18, T:0.28
Consensus pattern (85 bp):
AAATGCATATGAAATGATGCAAAAACTAATGTCATTTAAAATATAGATGTGTGTGAAACATGAAT
GCAAGCATCAATAAAGAAGT
Found at i:147805 original size:22 final size:20
Alignment explanation
Indices: 147777--147896 Score: 79
Period size: 20 Copynumber: 6.0 Consensus size: 20
147767 CATTTCTTCA
147777 TTTTTTTCATATTTTCATCTTT
1 TTTTTTTCAT-TTTTC-TCTTT
147799 TTTTTTTCATTTTTCTCTTT
1 TTTTTTTCATTTTTCTCTTT
* * * **
147819 TTTCTTACTATTTGT-AGTTT
1 TTTTTTTC-ATTTTTCTCTTT
** * *
147839 TCCTTTTCA-TTTTAT-GTT
1 TTTTTTTCATTTTTCTCTTT
147857 TTTTTTTCATTTTT-TCTTT
1 TTTTTTTCATTTTTCTCTTT
147876 TTCTTTTTC-TTTTTCGTCTTT
1 TT-TTTTTCATTTTTC-TCTTT
147897 GTCTTTTTTT
Statistics
Matches: 76, Mismatches: 15, Indels: 15
0.72 0.14 0.14
Matches are distributed among these distances:
18 13 0.17
19 14 0.18
20 24 0.32
21 15 0.20
22 10 0.13
ACGTcount: A:0.08, C:0.14, G:0.03, T:0.74
Consensus pattern (20 bp):
TTTTTTTCATTTTTCTCTTT
Found at i:147819 original size:19 final size:19
Alignment explanation
Indices: 147777--147896 Score: 68
Period size: 19 Copynumber: 6.1 Consensus size: 19
147767 CATTTCTTCA
147777 TTTTTTTCATATTTTCATCTTT
1 TTTTTTTCAT-TTTTC-TC-TT
147799 TTTTTTTCATTTTTCTCTT
1 TTTTTTTCATTTTTCTCTT
* **
147818 TTTTCTTACTATTTGTAGT-TT
1 TTTT-TTTC-ATTT-TTCTCTT
** * *
147839 TCCTTTTCA-TTTTATGTT
1 TTTTTTTCATTTTTCTCTT
147857 TTTTTTTCATTTTT-TCTTT
1 TTTTTTTCATTTTTCTC-TT
147876 TTCTTTTTC-TTTTTCGTCTT
1 TT-TTTTTCATTTTTC-TCTT
147896 T
1 T
147897 GTCTTTTTTT
Statistics
Matches: 78, Mismatches: 11, Indels: 20
0.72 0.10 0.18
Matches are distributed among these distances:
17 2 0.03
18 12 0.15
19 20 0.26
20 17 0.22
21 15 0.19
22 12 0.15
ACGTcount: A:0.08, C:0.14, G:0.03, T:0.74
Consensus pattern (19 bp):
TTTTTTTCATTTTTCTCTT
Found at i:147876 original size:6 final size:6
Alignment explanation
Indices: 147836--147914 Score: 52
Period size: 6 Copynumber: 12.2 Consensus size: 6
147826 CTATTTGTAG
* * *
147836 TTTTCC TTTTCA TTTTAT GTTTT-T TTTTCATT TTTTCT TTTTCT TTTTCT
1 TTTTCT TTTTCT TTTTCT -TTTTCT TTTTC--T TTTTCT TTTTCT TTTTCT
*
147886 TTTTCGT CTTTGTCT TTTTTT TGTTTCT T
1 TTTTC-T -TTT-TCT TTTTCT T-TTTCT T
147915 ATTTAGAGAA
Statistics
Matches: 60, Mismatches: 5, Indels: 15
0.75 0.06 0.19
Matches are distributed among these distances:
5 4 0.07
6 31 0.52
7 13 0.22
8 10 0.17
9 2 0.03
ACGTcount: A:0.04, C:0.14, G:0.05, T:0.77
Consensus pattern (6 bp):
TTTTCT
Found at i:147877 original size:26 final size:27
Alignment explanation
Indices: 147861--147914 Score: 56
Period size: 27 Copynumber: 2.0 Consensus size: 27
147851 TATGTTTTTT
*
147861 TTTCAT-TTTTTCTTTTTCTTTTTCTT
1 TTTCATCTTTTTCTTTTTATTTTTCTT
* * *
147887 TTTCGTCTTTGTCTTTTTTTTGTTTCTT
1 TTTCATCTTTTTCTTTTTATT-TTTCTT
147915 ATTTAGAGAA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
26 5 0.22
27 12 0.52
28 6 0.26
ACGTcount: A:0.02, C:0.15, G:0.06, T:0.78
Consensus pattern (27 bp):
TTTCATCTTTTTCTTTTTATTTTTCTT
Found at i:150772 original size:17 final size:17
Alignment explanation
Indices: 150746--150778 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
150736 ATTAATTATG
150746 TGTTAACAAAATTCTAA
1 TGTTAACAAAATTCTAA
*
150763 TGTTAGCAAAATTCTA
1 TGTTAACAAAATTCTA
150779 GAGATCGTGT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.42, C:0.12, G:0.09, T:0.36
Consensus pattern (17 bp):
TGTTAACAAAATTCTAA
Found at i:150927 original size:93 final size:93
Alignment explanation
Indices: 150768--150945 Score: 356
Period size: 93 Copynumber: 1.9 Consensus size: 93
150758 TCTAATGTTA
150768 GCAAAATTCTAGAGATCGTGTAAAAAAGTTCGAGAGTCGATTACAATCACAAATAAGGATTAACA
1 GCAAAATTCTAGAGATCGTGTAAAAAAGTTCGAGAGTCGATTACAATCACAAATAAGGATTAACA
150833 CTCTCGTAATACTCAAAAATAAGGATTT
66 CTCTCGTAATACTCAAAAATAAGGATTT
150861 GCAAAATTCTAGAGATCGTGTAAAAAAGTTCGAGAGTCGATTACAATCACAAATAAGGATTAACA
1 GCAAAATTCTAGAGATCGTGTAAAAAAGTTCGAGAGTCGATTACAATCACAAATAAGGATTAACA
150926 CTCTCGTAATACTCAAAAAT
66 CTCTCGTAATACTCAAAAAT
150946 TGGTATCTTA
Statistics
Matches: 85, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
93 85 1.00
ACGTcount: A:0.43, C:0.16, G:0.16, T:0.25
Consensus pattern (93 bp):
GCAAAATTCTAGAGATCGTGTAAAAAAGTTCGAGAGTCGATTACAATCACAAATAAGGATTAACA
CTCTCGTAATACTCAAAAATAAGGATTT
Found at i:150991 original size:17 final size:17
Alignment explanation
Indices: 150965--150997 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
150955 ATTAATTATG
150965 TGTTAACAAAATTCTAA
1 TGTTAACAAAATTCTAA
*
150982 TGTTAGCAAAATTCTA
1 TGTTAACAAAATTCTA
150998 GAGATCGTGT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.42, C:0.12, G:0.09, T:0.36
Consensus pattern (17 bp):
TGTTAACAAAATTCTAA
Found at i:151021 original size:219 final size:219
Alignment explanation
Indices: 150642--151039 Score: 796
Period size: 219 Copynumber: 1.8 Consensus size: 219
150632 CCCAATGTTA
150642 GCAAAATTCTAGAGATCGTGTAAAAAAGTTCGAGAGTCGATTACAATCACAAATAAGGATTAACA
1 GCAAAATTCTAGAGATCGTGTAAAAAAGTTCGAGAGTCGATTACAATCACAAATAAGGATTAACA
150707 CTCTCGTAATACTCAAAAATTGGTATCTTATTAATTATGTGTTAACAAAATTCTAATGTTAGCAA
66 CTCTCGTAATACTCAAAAATTGGTATCTTATTAATTATGTGTTAACAAAATTCTAATGTTAGCAA
150772 AATTCTAGAGATCGTGTAAAAAAGTTCGAGAGTCGATTACAATCACAAATAAGGATTAACACTCT
131 AATTCTAGAGATCGTGTAAAAAAGTTCGAGAGTCGATTACAATCACAAATAAGGATTAACACTCT
150837 CGTAATACTCAAAAATAAGGATTT
196 CGTAATACTCAAAAATAAGGATTT
150861 GCAAAATTCTAGAGATCGTGTAAAAAAGTTCGAGAGTCGATTACAATCACAAATAAGGATTAACA
1 GCAAAATTCTAGAGATCGTGTAAAAAAGTTCGAGAGTCGATTACAATCACAAATAAGGATTAACA
150926 CTCTCGTAATACTCAAAAATTGGTATCTTATTAATTATGTGTTAACAAAATTCTAATGTTAGCAA
66 CTCTCGTAATACTCAAAAATTGGTATCTTATTAATTATGTGTTAACAAAATTCTAATGTTAGCAA
150991 AATTCTAGAGATCGTGTAAAAAAGTTCGAGAGTCGATTACAATCACAAA
131 AATTCTAGAGATCGTGTAAAAAAGTTCGAGAGTCGATTACAATCACAAA
151040 ATTCAGTTTC
Statistics
Matches: 179, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
219 179 1.00
ACGTcount: A:0.41, C:0.14, G:0.15, T:0.29
Consensus pattern (219 bp):
GCAAAATTCTAGAGATCGTGTAAAAAAGTTCGAGAGTCGATTACAATCACAAATAAGGATTAACA
CTCTCGTAATACTCAAAAATTGGTATCTTATTAATTATGTGTTAACAAAATTCTAATGTTAGCAA
AATTCTAGAGATCGTGTAAAAAAGTTCGAGAGTCGATTACAATCACAAATAAGGATTAACACTCT
CGTAATACTCAAAAATAAGGATTT
Found at i:151123 original size:15 final size:15
Alignment explanation
Indices: 151103--151140 Score: 67
Period size: 15 Copynumber: 2.5 Consensus size: 15
151093 CAAAATTCAG
151103 TTTCATTAGTTGATA
1 TTTCATTAGTTGATA
151118 TTTCATTAGTTGATA
1 TTTCATTAGTTGATA
*
151133 TTTAATTA
1 TTTCATTA
151141 TAATTCCATG
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
15 22 1.00
ACGTcount: A:0.29, C:0.05, G:0.11, T:0.55
Consensus pattern (15 bp):
TTTCATTAGTTGATA
Found at i:152917 original size:158 final size:155
Alignment explanation
Indices: 152705--153644 Score: 1027
Period size: 158 Copynumber: 6.0 Consensus size: 155
152695 AATATTTACA
* * ** * *
152705 AATAAACCCTTAAACCTTT-TAAATTTGCAAA-AAGGTCTCAAACCTAATTTAAACACAAAATTA
1 AATAAACCCCTAAA-CTTTCTAAATTTGCAAATTA-GTC-CTTACATAATTAAAACACAAAATTA
* * *
152768 AACATCAAAGAAATCAAAATCAGCATATAAAGCACATCCTAAAAGTTACAAGAAAGATTCAGCCA
63 AGCATCAAAGAAATCAAAATCAGCATACAAAACACATCC-AAAAGTTACAAGAAAGATTCAGCCA
* * * *
152833 AATACGTTTAGCCTTATAATAAAATTTTCA
127 AATA-TTTTGGCCTTAGAATAAAATTTTCG
* *
152863 AATAAACCCACTAAACTTTCTAATTTTACAAATTAGTCCTTACATAATTAAAACACAAAATTAAG
1 AATAAACCC-CTAAACTTTCTAAATTTGCAAATTAGTCCTTACATAATTAAAACACAAAATTAAG
* * * * * ** *
152928 CATCAAAGAAATTAAAATCAGCATGCAAAATACATCCAAAAGCTACAAGGAAGATTTGGCCAAGT
65 CATCAAAGAAATCAAAATCAGCATACAAAACACATCCAAAAGTTACAAGAAAGATTCAGCCAAAT
*
152993 ACTTTTGGCATTAGAATAAAA-TTTCG
130 A-TTTTGGCCTTAGAATAAAATTTTCG
* * * * *
153019 AAGAAACCCCCTAAACTTTTTAAATTTGCAAATTA-TCTTTACATGATTAAAGACACAGAATTAA
1 AATAAA-CCCCTAAACTTTCTAAATTTGCAAATTAGTCCTTACATAATTAAA-ACACAAAATTAA
** * * *
153083 GCATCAAAGAAATCAAAATCAGCATACAAAACACATCCAAAAGTTGTAAGGAAGATT-TGACGAA
64 GCATCAAAGAAATCAAAATCAGCATACAAAACACATCCAAAAGTTACAAGAAAGATTCAG-CCAA
*
153147 ATATTTTTGGCCTTAGAACAAAATTTTCG
128 ATA-TTTTGGCCTTAGAATAAAATTTTCG
* * *
153176 AATAAACCCCCTAAACTTTCCAAACTTGCAAATCAGTCCTTACATAATTAAAAACACAAAATTAA
1 AATAAA-CCCCTAAACTTTCTAAATTTGCAAATTAGTCCTTACATAATT-AAAACACAAAATTAA
* ** * *
153241 GCATCAAAGAAACCAAAATCAGCATACAAAATGCATCCAAAATTTACAA-AGAAGATTCAGCTAA
64 GCATCAAAGAAATCAAAATCAGCATACAAAACACATCCAAAAGTTACAAGA-AAGATTCAGCCAA
* * * *
153305 GTATTTCTTGCCTTAGAATTAAATTTTCA
128 ATATTT-TGGCCTTAGAATAAAATTTTCG
* *
153334 AATAAACCTCTTAAACTTTCTAAATTTGCATATTAGGT-CTTACATAATTAAAAGCACAAAATTA
1 AATAAACC-CCTAAACTTTCTAAATTTGCAAATTA-GTCCTTACATAATTAAAA-CACAAAATTA
* * * *
153398 AGCATCAAAGAAATAAAAATTAGCATAGAAAACACATCCAAAAGTTACAA-AGAAGATTC-GGCA
63 AGCATCAAAGAAATCAAAATCAGCATACAAAACACATCCAAAAGTTACAAGA-AAGATTCAGCCA
** *
153461 AAGTATTTTGGCCTTAGACCAAAATTTTTG
127 AA-TATTTTGGCCTTAGAATAAAATTTTCG
* * *
153491 AATAAACCTCCTAAACTTTTTAAATTTTCAAATTAGTCCTTAAATAATTAAAAACACAAAATTAA
1 AATAAACC-CCTAAACTTTCTAAATTTGCAAATTAGTCCTTACATAATT-AAAACACAAAATTAA
* * *
153556 GCAT-AAAAAAATCAAAATCAGCATACAAAACACATCCAAAAGTTACAAGGAAGATTCAGCCAAG
64 GCATCAAAGAAATCAAAATCAGCATACAAAACACATCCAAAAGTTACAAGAAAGATTCAGCCAAA
* *
153620 TATTTTTGGCCTTTGAACAAAATTT
129 TA-TTTTGGCCTTAGAATAAAATTT
153645 CCAATATTTA
Statistics
Matches: 661, Mismatches: 100, Indels: 43
0.82 0.12 0.05
Matches are distributed among these distances:
155 15 0.02
156 166 0.25
157 186 0.28
158 270 0.41
159 23 0.03
160 1 0.00
ACGTcount: A:0.46, C:0.18, G:0.09, T:0.27
Consensus pattern (155 bp):
AATAAACCCCTAAACTTTCTAAATTTGCAAATTAGTCCTTACATAATTAAAACACAAAATTAAGC
ATCAAAGAAATCAAAATCAGCATACAAAACACATCCAAAAGTTACAAGAAAGATTCAGCCAAATA
TTTTGGCCTTAGAATAAAATTTTCG
Found at i:153247 original size:314 final size:310
Alignment explanation
Indices: 152749--153645 Score: 1134
Period size: 314 Copynumber: 2.9 Consensus size: 310
152739 GTCTCAAACC
* * * *
152749 TAATTTAAACACAAAATTAAACATCAAAGAAATCAAAATCAGCATATAAAGCACATCCTAAAAGT
1 TAATTAAAACACAAAATTAAGCATCAAAGAAATCAAAATCAGCATACAAAACACATCC-AAAAGT
* * * * * * * * *
152814 TACAAGAAAGATTCAGCCAAATACGTTTAGCCTTATAATAAAATTTTCAAATAAACCCACTAAAC
65 TACAAGGAAGATT-TGACAAATA-TTTTGGCCTTAGAACAAAATTTTCGAATAAACCCCCTAAAC
* *
152879 TTTCTAATTTTACAAATTAGTCCTTACATAATT-AAAACACAAAATTAAGCATCAAAGAAATTAA
128 TTTCTAAATTTACAAATTAGTCCTTACATAATTAAAAACACAAAATTAAGCATCAAAGAAATCAA
* * ** *
152943 AATCAGCATGCAAAATACATCCAAAAGCTACAAGGAAGATTTGGCCAAGTACTTTTGGCATTAGA
193 AATCAGCATACAAAATACATCCAAAAGTTACAAGGAAGATTCAGCCAAGTA-TTTTGGCCTTAGA
* *
153008 ATAAAATTTCGAAGAAACCCCCTAAACTTTTTAAATTTGCAAATTA-TCTTTACA
257 ATAAAATTTCAAAGAAACCCCCTAAACTTTCTAAATTTGCAAATTAGTC-TTACA
* *
153062 TGATTAAAGACACAGAATTAAGCATCAAAGAAATCAAAATCAGCATACAAAACACATCCAAAAGT
1 TAATTAAA-ACACAAAATTAAGCATCAAAGAAATCAAAATCAGCATACAAAACACATCCAAAAGT
**
153127 TGTAAGGAAGATTTGACGAAATATTTTTGGCCTTAGAACAAAATTTTCGAATAAACCCCCTAAAC
65 TACAAGGAAGATTTGAC-AAATA-TTTTGGCCTTAGAACAAAATTTTCGAATAAACCCCCTAAAC
* * * * *
153192 TTTCCAAACTTGCAAATCAGTCCTTACATAATTAAAAACACAAAATTAAGCATCAAAGAAACCAA
128 TTTCTAAATTTACAAATTAGTCCTTACATAATTAAAAACACAAAATTAAGCATCAAAGAAATCAA
* * * * *
153257 AATCAGCATACAAAATGCATCCAAAATTTACAAAGAAGATTCAGCTAAGTATTTCTTGCCTTAGA
193 AATCAGCATACAAAATACATCCAAAAGTTACAAGGAAGATTCAGCCAAGTATTT-TGGCCTTAGA
* * * * *
153322 ATTAAATTTTCAAATAAACCTCTTAAACTTTCTAAATTTGCATATTAGGTCTTACA
257 A-TAAAATTTCAAAGAAACCCCCTAAACTTTCTAAATTTGCAAATTA-GTCTTACA
* * *
153378 TAATTAAAAGCACAAAATTAAGCATCAAAGAAATAAAAATTAGCATAGAAAACACATCCAAAAGT
1 TAATTAAAA-CACAAAATTAAGCATCAAAGAAATCAAAATCAGCATACAAAACACATCCAAAAGT
* * * * * *
153443 TACAAAGAAGATTCGGCAAAGTATTTTGGCCTTAGACCAAAATTTTTGAATAAACCTCCTAAACT
65 TACAAGGAAGATTTGACAAA-TATTTTGGCCTTAGAACAAAATTTTCGAATAAACCCCCTAAACT
* * * *
153508 TTTTAAATTTTCAAATTAGTCCTTAAATAATTAAAAACACAAAATTAAGCAT-AAAAAAATCAAA
129 TTCTAAATTTACAAATTAGTCCTTACATAATTAAAAACACAAAATTAAGCATCAAAGAAATCAAA
* *
153572 ATCAGCATACAAAACACATCCAAAAGTTACAAGGAAGATTCAGCCAAGTATTTTTGGCCTTTGAA
194 ATCAGCATACAAAATACATCCAAAAGTTACAAGGAAGATTCAGCCAAGTA-TTTTGGCCTTAGAA
*
153637 CAAAATTTC
258 TAAAATTTC
153646 CAATATTTAC
Statistics
Matches: 502, Mismatches: 72, Indels: 20
0.85 0.12 0.03
Matches are distributed among these distances:
312 2 0.00
313 100 0.20
314 191 0.38
315 130 0.26
316 77 0.15
317 2 0.00
ACGTcount: A:0.46, C:0.17, G:0.10, T:0.27
Consensus pattern (310 bp):
TAATTAAAACACAAAATTAAGCATCAAAGAAATCAAAATCAGCATACAAAACACATCCAAAAGTT
ACAAGGAAGATTTGACAAATATTTTGGCCTTAGAACAAAATTTTCGAATAAACCCCCTAAACTTT
CTAAATTTACAAATTAGTCCTTACATAATTAAAAACACAAAATTAAGCATCAAAGAAATCAAAAT
CAGCATACAAAATACATCCAAAAGTTACAAGGAAGATTCAGCCAAGTATTTTGGCCTTAGAATAA
AATTTCAAAGAAACCCCCTAAACTTTCTAAATTTGCAAATTAGTCTTACA
Found at i:153564 original size:20 final size:19
Alignment explanation
Indices: 153539--153589 Score: 57
Period size: 20 Copynumber: 2.5 Consensus size: 19
153529 CTTAAATAAT
153539 TAAAAACACAAAATTAAGCA
1 TAAAAACACAAAA-TAAGCA
* *
153559 TAAAAAAATCAAAATCAGCA
1 TAAAAACA-CAAAATAAGCA
153579 TACAAAACACA
1 TA-AAAACACA
153590 TCCAAAAGTT
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
20 16 0.62
21 10 0.38
ACGTcount: A:0.65, C:0.18, G:0.04, T:0.14
Consensus pattern (19 bp):
TAAAAACACAAAATAAGCA
Found at i:153588 original size:472 final size:472
Alignment explanation
Indices: 152755--153644 Score: 1249
Period size: 472 Copynumber: 1.9 Consensus size: 472
152745 AACCTAATTT
* * *
152755 AAACACAAAATTAAACATCAAAGAAATCAAAATCAGCATATAAAGCACATCCTAAAAGTTACAAG
1 AAACACAAAATTAAACATCAAAGAAACCAAAATCAGCATACAAAACACATCCTAAAAGTTACAAG
*
152820 AAAGATTCAGCCAAATACGTTTAGCCTTATAATAAAATTTTCAAATAAACCCACTAAACTTTCTA
66 AAAGATTCAGCCAAATACGTTTAGCCTTAGAATAAAATTTTCAAATAAACCCACTAAACTTTCTA
* *
152885 ATTTTACAAATTAGTCCTTACATAATTAAAACACAAAATTAAGCATCAAAGAAATTAAAATCAGC
131 AATTTACAAATTAGTCCTTACATAATTAAAACACAAAATTAAGCATCAAAGAAATAAAAATCAGC
* * * * *
152950 ATGCAAAATACATCCAAAAGCTACAAGGAAGATTTGGCCAAGTACTTTTGGCATTAGAATAAAAT
196 ATGCAAAACACATCCAAAAGCTACAAAGAAGATTCGGCAAAGTACTTTTGGCATTAGAACAAAAT
* * * * *
153015 TTCGAAGAAACCCCCTAAACTTTTTAAATTTGCAAATTATCTTTACATGATTAAAGACACAGAAT
261 TTCGAAGAAACCCCCTAAACTTTTTAAATTTGCAAATTATCCTTAAATAATTAAAAACACAAAAT
* ** *
153080 TAAGCATCAAAGAAATCAAAATCAGCATACAAAACACATCCAAAAGTTGTAAGGAAGATT-TGAC
326 TAAGCATCAAAAAAATCAAAATCAGCATACAAAACACATCCAAAAGTTACAAGGAAGATTCAG-C
*
153144 GAAATATTTTTGGCCTTAGAACAAAATTTTCGAATAAACCCCCTAAACTTTCCAAACTTGCAAAT
390 CAAATATTTTTGGCCTTAGAACAAAATTTTCGAATAAACCCCCTAAACTTTCCAAACTTGCAAAT
153209 CAGTCCTTACATAATTAA
455 CAGTCCTTACATAATTAA
* ** *
153227 AAACACAAAATTAAGCATCAAAGAAACCAAAATCAGCATACAAAATGCATCC-AAAATTTACAA-
1 AAACACAAAATTAAACATCAAAGAAACCAAAATCAGCATACAAAACACATCCTAAAAGTTACAAG
* * * * * *
153290 AGAAGATTCAGCTAAGTA-TTTCTTGCCTTAGAATTAAATTTTCAAATAAACCTC-TTAAACTTT
66 A-AAGATTCAGCCAAATACGTT-TAGCCTTAGAATAAAATTTTCAAATAAACC-CACTAAACTTT
* *
153353 CTAAATTTGCATATTAGGT-CTTACATAATTAAAAGCACAAAATTAAGCATCAAAGAAATAAAAA
128 CTAAATTTACAAATTA-GTCCTTACATAATTAAAA-CACAAAATTAAGCATCAAAGAAATAAAAA
* * * *
153417 TTAGCATAG-AAAACACATCCAAAAGTTACAAAGAAGATTCGGCAAAGTA-TTTTGGCCTTAGAC
191 TCAGCAT-GCAAAACACATCCAAAAGCTACAAAGAAGATTCGGCAAAGTACTTTTGGCATTAGAA
* * * *
153480 CAAAATTTTTGAATAAACCTCCTAAACTTTTTAAATTTTCAAATTAGTCCTTAAATAATTAAAAA
255 CAAAA-TTTCGAAGAAACCCCCTAAACTTTTTAAATTTGCAAATTA-TCCTTAAATAATTAAAAA
153545 CACAAAATTAAGCAT-AAAAAAATCAAAATCAGCATACAAAACACATCCAAAAGTTACAAGGAAG
318 CACAAAATTAAGCATCAAAAAAATCAAAATCAGCATACAAAACACATCCAAAAGTTACAAGGAAG
* *
153609 ATTCAGCCAAGTATTTTTGGCCTTTGAACAAAATTT
383 ATTCAGCCAAATATTTTTGGCCTTAGAACAAAATTT
153645 CCAATATTTA
Statistics
Matches: 366, Mismatches: 43, Indels: 18
0.86 0.10 0.04
Matches are distributed among these distances:
470 3 0.01
471 103 0.28
472 230 0.63
473 30 0.08
ACGTcount: A:0.46, C:0.17, G:0.10, T:0.27
Consensus pattern (472 bp):
AAACACAAAATTAAACATCAAAGAAACCAAAATCAGCATACAAAACACATCCTAAAAGTTACAAG
AAAGATTCAGCCAAATACGTTTAGCCTTAGAATAAAATTTTCAAATAAACCCACTAAACTTTCTA
AATTTACAAATTAGTCCTTACATAATTAAAACACAAAATTAAGCATCAAAGAAATAAAAATCAGC
ATGCAAAACACATCCAAAAGCTACAAAGAAGATTCGGCAAAGTACTTTTGGCATTAGAACAAAAT
TTCGAAGAAACCCCCTAAACTTTTTAAATTTGCAAATTATCCTTAAATAATTAAAAACACAAAAT
TAAGCATCAAAAAAATCAAAATCAGCATACAAAACACATCCAAAAGTTACAAGGAAGATTCAGCC
AAATATTTTTGGCCTTAGAACAAAATTTTCGAATAAACCCCCTAAACTTTCCAAACTTGCAAATC
AGTCCTTACATAATTAA
Found at i:154279 original size:154 final size:151
Alignment explanation
Indices: 154113--154539 Score: 495
Period size: 154 Copynumber: 2.8 Consensus size: 151
154103 GAAAAAAAAG
* * *
154113 CAAAACTCATAAAATAAATTAAATTTTCATAAACTAATTTAACATTAATTTAATAAAAATATTTT
1 CAAAACTCATAAAATAAATTAAATTTTCA-AAACTAATTTAATATAAATTTAATAATAATATTTT
* * * * *
154178 ATA-AATTTAAAAAATT-TTAAGTTGAGAAAAATCCAAGTAAAGAAATTTACAGAGCCGAAAACT
65 A-AGAATTTTAAAAATTATAAACTT-AGAAAAATCCAACTAAAGAAATTTACAGAGCAGAAAACT
*
154241 -TTATATCTCGTTAATAAGAAAAATTTT
128 CTTAT-T-T-GGTAAT-AGAAAAATTTT
* *
154268 -AAAACTCATAAAATAAATTAAATTTTTCAAAACTAATTTAATATAAATTAAATAATAATATTTA
1 CAAAACTCATAAAATAAATTAAA-TTTTCAAAACTAATTTAATATAAATTTAATAATAATATTTT
* * * ** *
154332 AAGAATTTTAAAAATTATAAACTCAAAAAAAATCCTACCGAAGAAATTTACAGAGTAGAAAACTC
65 AAGAATTTTAAAAATTATAAACT-TAGAAAAATCCAACTAAAGAAATTTACAGAGCAGAAAACT-
*
154397 CTTATTTGGTAATAGGAAAATTTT
128 CTTATTTGGTAATAGAAAAATTTT
* *
154421 CAAAACTCATAAAATGAATTAAAATTTTCAAAACTAATTTAATATGAA-TTAGATAATAATATTT
1 CAAAACTCATAAAATAAATT-AAATTTTCAAAACTAATTTAATATAAATTTA-ATAATAATATTT
* ** *
154485 GAAGAATTTTTGAAATTATAAACTTAGAAAAATCCAACTAGAGAAATTTACAGAG
64 TAAGAATTTTAAAAATTATAAACTTAGAAAAATCCAACTAAAGAAATTTACAGAG
154540 TAAAGGACTT
Statistics
Matches: 233, Mismatches: 30, Indels: 20
0.82 0.11 0.07
Matches are distributed among these distances:
153 38 0.16
154 144 0.62
155 46 0.20
156 1 0.00
157 4 0.02
ACGTcount: A:0.51, C:0.09, G:0.07, T:0.33
Consensus pattern (151 bp):
CAAAACTCATAAAATAAATTAAATTTTCAAAACTAATTTAATATAAATTTAATAATAATATTTTA
AGAATTTTAAAAATTATAAACTTAGAAAAATCCAACTAAAGAAATTTACAGAGCAGAAAACTCTT
ATTTGGTAATAGAAAAATTTT
Found at i:156295 original size:50 final size:50
Alignment explanation
Indices: 156215--156326 Score: 170
Period size: 50 Copynumber: 2.2 Consensus size: 50
156205 TCACAATTTG
* * *
156215 TATCGATACATTGTTCATTGTATCAATACATTCTGGGTTTTACCTAGATA
1 TATCGATACATTATTCATTATATCAATACATTCTGGGTTTTACCCAGATA
* * *
156265 TATCAATACATTATTCATTATATCGATACATTCTGGGTTTTACCCAGATG
1 TATCGATACATTATTCATTATATCAATACATTCTGGGTTTTACCCAGATA
156315 TATCGATACATT
1 TATCGATACATT
156327 CAGGCATTTT
Statistics
Matches: 55, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
50 55 1.00
ACGTcount: A:0.29, C:0.17, G:0.12, T:0.41
Consensus pattern (50 bp):
TATCGATACATTATTCATTATATCAATACATTCTGGGTTTTACCCAGATA
Found at i:158925 original size:79 final size:78
Alignment explanation
Indices: 158615--159097 Score: 515
Period size: 79 Copynumber: 6.1 Consensus size: 78
158605 ATTTTTCATG
* * * * * *
158615 GGGATACTCAAACCCCGATTTTATTTCTAAAACACCGATTTTCCACCATCCGGGGATACACCAAT
1 GGGATACTCCAACCCCGATTTTATTTCCAAAACACCAATTTTCCACAAT-CGGGGATACTCCAAC
* *
158680 CCCATTATTTTCTAG
65 CCCGTTATTTTC-AA
* * * * *
158695 GGGATACTCTAACCCCGGTTTTATTTCCAAAACATCAATTTTTCACAATC-AGGATACTCCAACC
1 GGGATACTCCAACCCCGATTTTATTTCCAAAACACCAATTTTCCACAATCGGGGATACTCCAACC
*
158759 CTGTTATTTTCAA
66 CCGTTATTTTCAA
* * * *
158772 GGGGATACTCCAACCCTGATTTT-TTTCTAAAACATCAATTTTTCACAAAT-GGGGATACTCCAA
1 -GGGATACTCCAACCCCGATTTTATTTCCAAAACACCAATTTTCCAC-AATCGGGGATACTCCAA
* *
158835 CCTCGTTATTTTCGA
64 CCCCGTTATTTTCAA
* * * * *
158850 GGAGATACTCCAACCTCGATTTTATTTTCAAAACACCGATTTTCCACGATCGGGAATACTCCAAC
1 GG-GATACTCCAACCCCGATTTTATTTCCAAAACACCAATTTTCCACAATCGGGGATACTCCAAC
*
158915 CCCGTTATTTTTAA
65 CCCGTTATTTTCAA
*
158929 GGGCATACTCCAACCCCGATTTTATTTCCAAAACACCAATTTTCCACAATTGGGGATACTCCAAC
1 GGG-ATACTCCAACCCCGATTTTATTTCCAAAACACCAATTTTCCACAATCGGGGATACTCCAAC
** *
158994 CCTATTTTTTTCGAA
65 CCCGTTATTTTC-AA
* * * * *
159009 GGGATACTCCAACCCCCG-TTTTATTTCCAAAACACTAATTTTTCATAATTGGGGATACTGCAAC
1 GGGATACTCCAA-CCCCGATTTTATTTCCAAAACACCAATTTTCCACAATCGGGGATACTCCAAC
* *
159073 CTCGTTATTTCTAAA
65 CCCGTTATTT-TCAA
*
159088 GGGGTACTCC
1 GGGATACTCC
159098 GACTCTGCTT
Statistics
Matches: 340, Mismatches: 53, Indels: 21
0.82 0.13 0.05
Matches are distributed among these distances:
77 25 0.07
78 86 0.25
79 176 0.52
80 53 0.16
ACGTcount: A:0.29, C:0.26, G:0.13, T:0.32
Consensus pattern (78 bp):
GGGATACTCCAACCCCGATTTTATTTCCAAAACACCAATTTTCCACAATCGGGGATACTCCAACC
CCGTTATTTTCAA
Found at i:163411 original size:22 final size:23
Alignment explanation
Indices: 163370--163412 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
163360 CATTTGAACC
*
163370 TTTTGTTTTCATTTTCTTGATTT
1 TTTTATTTTCATTTTCTTGATTT
*
163393 TTTTATTTTTATTTT-TTGAT
1 TTTTATTTTCATTTTCTTGAT
163413 GATTTTTTTT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 5 0.28
23 13 0.72
ACGTcount: A:0.12, C:0.05, G:0.07, T:0.77
Consensus pattern (23 bp):
TTTTATTTTCATTTTCTTGATTT
Found at i:163418 original size:23 final size:22
Alignment explanation
Indices: 163370--163424 Score: 58
Period size: 22 Copynumber: 2.5 Consensus size: 22
163360 CATTTGAACC
* * *
163370 TTTTGTTTTCATTTTCTTGATT
1 TTTTTTTTTTATTTTCTTGATA
163392 TTTTTATTTTTATTTT-TTGATGA
1 TTTTT-TTTTTATTTTCTTGAT-A
163415 TTTTTTTTTT
1 TTTTTTTTTT
163425 GGTGAAGGAT
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
22 14 0.50
23 14 0.50
ACGTcount: A:0.11, C:0.04, G:0.07, T:0.78
Consensus pattern (22 bp):
TTTTTTTTTTATTTTCTTGATA
Found at i:169850 original size:153 final size:151
Alignment explanation
Indices: 169645--170035 Score: 477
Period size: 151 Copynumber: 2.6 Consensus size: 151
169635 TAGGAGTTGG
* * * * * *
169645 TTTTAG-AAAATTACGAAAATACCTCTAGGGGAGACCTTCGACATAAAAATATCCTGGCAACCCT
1 TTTTAGAAAAATTACTAAAATGCCTCTA-GGGAAACCTTTGACGTAAAAATATCCTGGTAACCCT
* *
169709 AAAGGACTTCAAAAGGTAAAGGGATGAATCTATCCTTAAACGTACACCTTCGGCATAGAAGCGAA
65 AAAGGACTTAAAAAGGTAAAGGGATGAACCTATCC-TAAACGTACACCTTCGGCATAGAAGCGAA
*
169774 CCTGGTGGTTACCTAGGACTCGA
129 CCCGGTGGTTACCTAGGACTCGA
* * * *
169797 TTTTA-ATAAAATTACTAGAATGCCTCTAGGAGAAACCTTTGACGTAAAAATATCTTAGTAACCG
1 TTTTAGA-AAAATTACTAAAATGCCTCTAGG-GAAACCTTTGACGTAAAAATATCCTGGTAACCC
* * * *
169861 TAAAGGACTTAAAAAGGTAAA-GGATGAACCTATCCTAAATGTACACTTTTGGCATAGAAGCGGA
64 TAAAGGACTTAAAAAGGTAAAGGGATGAACCTATCCTAAACGTACACCTTCGGCATAGAAGCGAA
169925 CCCGGTGGTTACCTAGGACTCGA
129 CCCGGTGGTTACCTAGGACTCGA
* * *
169948 TTTTAGAAAAATTACTAAAATGCC-CTTAAGGGATACCTTTGATGTAAAAATAT-CTCGATAACC
1 TTTTAGAAAAATTACTAAAATGCCTC-T-AGGGAAACCTTTGACGTAAAAATATCCT-GGTAACC
* * *
170011 TTAAAGGACTTGAAAAGGAAAAGGG
63 CTAAAGGACTTAAAAAGGTAAAGGG
170036 TGGATATGAA
Statistics
Matches: 205, Mismatches: 26, Indels: 16
0.83 0.11 0.06
Matches are distributed among these distances:
150 2 0.01
151 113 0.55
152 26 0.13
153 64 0.31
ACGTcount: A:0.37, C:0.18, G:0.20, T:0.25
Consensus pattern (151 bp):
TTTTAGAAAAATTACTAAAATGCCTCTAGGGAAACCTTTGACGTAAAAATATCCTGGTAACCCTA
AAGGACTTAAAAAGGTAAAGGGATGAACCTATCCTAAACGTACACCTTCGGCATAGAAGCGAACC
CGGTGGTTACCTAGGACTCGA
Found at i:171644 original size:3 final size:3
Alignment explanation
Indices: 171630--171682 Score: 60
Period size: 3 Copynumber: 18.7 Consensus size: 3
171620 GGAATGGAGA
*
171630 AAT AAT AA- AAT AAT AAT ACT AAT AAT AA- AAT AAT AAT AA- AATT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA-T
171673 AAT -AT AAT AA
1 AAT AAT AAT AA
171683 AATTAATTTT
Statistics
Matches: 43, Mismatches: 2, Indels: 10
0.78 0.04 0.18
Matches are distributed among these distances:
2 8 0.19
3 33 0.77
4 2 0.05
ACGTcount: A:0.68, C:0.02, G:0.00, T:0.30
Consensus pattern (3 bp):
AAT
Found at i:171655 original size:20 final size:20
Alignment explanation
Indices: 171630--171667 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
171620 GGAATGGAGA
171630 AATAATAAAATAATAATACT
1 AATAATAAAATAATAATACT
171650 AATAATAAAATAATAATA
1 AATAATAAAATAATAATA
171668 AAATTAATAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.68, C:0.03, G:0.00, T:0.29
Consensus pattern (20 bp):
AATAATAAAATAATAATACT
Found at i:171675 original size:20 final size:20
Alignment explanation
Indices: 171629--171682 Score: 74
Period size: 20 Copynumber: 2.7 Consensus size: 20
171619 GGGAATGGAG
171629 AAATAATAAAATAATAATAC
1 AAATAATAAAATAATAATAC
*
171649 TAATAATAAAATAATAATA-
1 AAATAATAAAATAATAATAC
*
171668 AAATTAATATAATAA
1 AAA-TAATAAAATAA
171683 AATTAATTTT
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
19 2 0.07
20 28 0.93
ACGTcount: A:0.69, C:0.02, G:0.00, T:0.30
Consensus pattern (20 bp):
AAATAATAAAATAATAATAC
Found at i:171679 original size:11 final size:11
Alignment explanation
Indices: 171630--171676 Score: 62
Period size: 11 Copynumber: 4.4 Consensus size: 11
171620 GGAATGGAGA
171630 AATAATAAAAT
1 AATAATAAAAT
*
171641 AATAAT--ACT
1 AATAATAAAAT
171650 AATAATAAAAT
1 AATAATAAAAT
171661 AATAATAAAATT
1 AATAATAAAA-T
171673 AATA
1 AATA
171677 TAATAAAATT
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
9 8 0.26
11 18 0.58
12 5 0.16
ACGTcount: A:0.68, C:0.02, G:0.00, T:0.30
Consensus pattern (11 bp):
AATAATAAAAT
Found at i:171679 original size:14 final size:14
Alignment explanation
Indices: 171631--171689 Score: 59
Period size: 14 Copynumber: 4.0 Consensus size: 14
171621 GAATGGAGAA
171631 ATAATAAAATAATAAT
1 ATAATAAAAT--TAAT
171647 ACTAATAATAA--AAT
1 A-TAATAA-AATTAAT
171661 AATAATAAAATTAAT
1 -ATAATAAAATTAAT
171676 ATAATAAAATTAAT
1 ATAATAAAATTAAT
171690 TTTTAATTGA
Statistics
Matches: 38, Mismatches: 0, Indels: 12
0.76 0.00 0.24
Matches are distributed among these distances:
13 2 0.05
14 23 0.61
15 4 0.11
16 1 0.03
17 6 0.16
18 2 0.05
ACGTcount: A:0.66, C:0.02, G:0.00, T:0.32
Consensus pattern (14 bp):
ATAATAAAATTAAT
Found at i:171896 original size:18 final size:19
Alignment explanation
Indices: 171852--171900 Score: 52
Period size: 18 Copynumber: 2.8 Consensus size: 19
171842 TTCCTAGATA
171852 AAAATAA-AATAAAAAATC
1 AAAATAACAATAAAAAATC
**
171870 TTAAT-ACAATAAAAAAT-
1 AAAATAACAATAAAAAATC
171887 AAAATAACAA-AAAA
1 AAAATAACAATAAAA
171901 TTTTATATAT
Statistics
Matches: 25, Mismatches: 4, Indels: 5
0.74 0.12 0.15
Matches are distributed among these distances:
17 8 0.32
18 17 0.68
ACGTcount: A:0.76, C:0.06, G:0.00, T:0.18
Consensus pattern (19 bp):
AAAATAACAATAAAAAATC
Found at i:173055 original size:85 final size:84
Alignment explanation
Indices: 172966--173284 Score: 259
Period size: 85 Copynumber: 3.8 Consensus size: 84
172956 AGGTTGATTA
* * * * *
172966 AAGACTGAGCTGACAGGTCACCATAAGTG-TAAGGGGTTTACTAGGGACTGAGTCGACAAGTAGA
1 AAGACTAAACTGACAGGTCACC-GAAGGGATAAGGGGTTTACTAGGGACTGAGTCGACAAGTAAA
*
173030 CAATAAGATTAAGGTTGACCG
65 CAATAAGATAAAGGTTGA-CG
* * * * *
173051 AAGACTAAACTGACAAGTCACCGAGGGGATAAGGGGTTTA-TCGGGAGCTAAG-CTGATAAGTAA
1 AAGACTAAACTGACAGGTCACCGAAGGGATAAGGGGTTTACTAGGGA-CTGAGTC-GACAAGTAA
*
173114 ACAATAAGATAAAGGTTGACT
64 ACAATAAGATAAAGGTTGACG
* * * * * *
173135 AGAGACTAAACTGACGGGTCATCGAGGGGATAAGGGGTTTACTAGGGACTGAGCCAACAGGTAAA
1 A-AGACTAAACTGACAGGTCACCGAAGGGATAAGGGGTTTACTAGGGACTGAGTCGACAAGTAAA
* * * *
173200 TAATGATATAAAGGTTGGTCG
65 CAATAAGATAAAGGTT-GACG
* ** * * * * ** *
173221 AAGACTGAGTTGATAGGTCACC-ATAAGTATAAAGGGTTTACCGGGGACTGAGTCGACAGGTAAA
1 AAGACTAAACTGACAGGTCACCGA-AGGGATAAGGGGTTTACTAGGGACTGAGTCGACAAGTAAA
173285 TAAGGGATAA
Statistics
Matches: 187, Mismatches: 39, Indels: 16
0.77 0.16 0.07
Matches are distributed among these distances:
84 12 0.06
85 166 0.89
86 9 0.05
ACGTcount: A:0.35, C:0.14, G:0.30, T:0.21
Consensus pattern (84 bp):
AAGACTAAACTGACAGGTCACCGAAGGGATAAGGGGTTTACTAGGGACTGAGTCGACAAGTAAAC
AATAAGATAAAGGTTGACG
Found at i:173444 original size:47 final size:46
Alignment explanation
Indices: 173364--173939 Score: 384
Period size: 47 Copynumber: 12.9 Consensus size: 46
173354 CGAATGAAGA
* * * *
173364 TGAAAAGAGTTTGACTAGGACTAATGCCAATGCAGTCAAATAAGGG
1 TGAAAAGAGTTTGACCAGGCCTAATGCCAATACAGTCAAACAAGGG
* * ** *
173410 TGAAAAGAGTTTAACCAGGCCTCAATGCCAATGCAGTCAAATGAGAG
1 TGAAAAGAGTTTGACCAGGCCT-AATGCCAATACAGTCAAACAAGGG
* * * *
173457 TGAAAAGA-TTTGACTAGGTCCTAATGCTAATATAGTCAAACAAAGG
1 TGAAAAGAGTTTGACCAGG-CCTAATGCCAATACAGTCAAACAAGGG
* * *
173503 TG--AAGAGTTTGACCAGGTCTCAACGCCAATATAGTCAAACAAGGG
1 TGAAAAGAGTTTGACCAGGCCT-AATGCCAATACAGTCAAACAAGGG
* * ** * *
173548 TGAAAAGAGTTTGACTAAGTCCTAACACCAATATAGTCAAACGAGGG
1 TGAAAAGAGTTTGAC-CAGGCCTAATGCCAATACAGTCAAACAAGGG
*
173595 TGAAAAGAGTTTG---A---CT-A-G---ATACAATCAAACAAGGG
1 TGAAAAGAGTTTGACCAGGCCTAATGCCAATACAGTCAAACAAGGG
* * * *
173630 TAAAAAGAGTTTG---A--CC--A-G---ATACAATCAAACAATGC
1 TGAAAAGAGTTTGACCAGGCCTAATGCCAATACAGTCAAACAAGGG
** * *
173665 TGAAAAGAGTTTGACCAGGATTAATGCCAATATAGTCAAACGAGGG
1 TGAAAAGAGTTTGACCAGGCCTAATGCCAATACAGTCAAACAAGGG
* * * * * *
173711 TGAAAAGGGTTTGACCAGGTACTAACGCCAATACAATCAAATGAA-GT
1 TGAAAAGAGTTTGACCAGG-CCTAATGCCAATACAGTCAAA-CAAGGG
* *
173758 TGAGAAGAGTTTG-CCTAGGGCCTAATGCCAATACAGTCAAATGAA-GG
1 TGAAAAGAGTTTGACC-A-GGCCTAATGCCAATACAGTCAAA-CAAGGG
* *
173805 TGAAAAGAGTTTGACTAGGTCCTAATGCCAATACAATCAAACGAA-GG
1 TGAAAAGAGTTTGACCAGG-CCTAATGCCAATACAGTCAAAC-AAGGG
* * * * *
173852 T-AAAAGAGTTTGACTAGGTCCTAACGTCAATACAGTCAAATAAAGG
1 TGAAAAGAGTTTGACCAGG-CCTAATGCCAATACAGTCAAACAAGGG
* * *
173898 TGAGAAGAGTTTGACCGGGTCCTAATACCAATACAGTCAAAC
1 TGAAAAGAGTTTGACCAGG-CCTAATGCCAATACAGTCAAAC
173940 GAGGAGGCAA
Statistics
Matches: 434, Mismatches: 68, Indels: 55
0.78 0.12 0.10
Matches are distributed among these distances:
35 56 0.13
36 1 0.00
38 1 0.00
39 1 0.00
40 2 0.00
42 1 0.00
43 2 0.00
44 6 0.01
45 34 0.08
46 119 0.27
47 203 0.47
48 8 0.02
ACGTcount: A:0.40, C:0.16, G:0.22, T:0.22
Consensus pattern (46 bp):
TGAAAAGAGTTTGACCAGGCCTAATGCCAATACAGTCAAACAAGGG
Found at i:173630 original size:35 final size:35
Alignment explanation
Indices: 173584--173682 Score: 153
Period size: 35 Copynumber: 2.8 Consensus size: 35
173574 ACCAATATAG
* *
173584 TCAAACGAGGGTGAAAAGAGTTTGACTAGATACAA
1 TCAAACAAGGGTGAAAAGAGTTTGACCAGATACAA
*
173619 TCAAACAAGGGTAAAAAGAGTTTGACCAGATACAA
1 TCAAACAAGGGTGAAAAGAGTTTGACCAGATACAA
* *
173654 TCAAACAATGCTGAAAAGAGTTTGACCAG
1 TCAAACAAGGGTGAAAAGAGTTTGACCAG
173683 GATTAATGCC
Statistics
Matches: 58, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
35 58 1.00
ACGTcount: A:0.44, C:0.14, G:0.22, T:0.19
Consensus pattern (35 bp):
TCAAACAAGGGTGAAAAGAGTTTGACCAGATACAA
Found at i:173892 original size:93 final size:94
Alignment explanation
Indices: 173648--173941 Score: 353
Period size: 93 Copynumber: 3.1 Consensus size: 94
173638 GTTTGACCAG
* * * *
173648 ATACAATCAAAC-AATGCTGAAAAGAGTTTGACCAGGAT--TAATGCCAATATAGTCAAACGAGG
1 ATACAATCAAACGAA-GCTGAAAAGAGTTTGACTAGG-TCCTAATGCCAATACAGTCAAATGAAG
* * *
173710 GTGAAAAGGGTTTGACCAGGTACTAACGCCA
64 GTGAAAAGAGTTTGACCAGGTCCTAATGCCA
* * * * *
173741 ATACAATCAAATGAAGTTGAGAAGAGTTTGCCTAGGGCCTAATGCCAATACAGTCAAATGAAGGT
1 ATACAATCAAACGAAGCTGAAAAGAGTTTGACTAGGTCCTAATGCCAATACAGTCAAATGAAGGT
*
173806 GAAAAGAGTTTGACTAGGTCCTAATGCCA
66 GAAAAGAGTTTGACCAGGTCCTAATGCCA
* * * *
173835 ATACAATCAAACGAAGGT-AAAAGAGTTTGACTAGGTCCTAACGTCAATACAGTCAAATAAAGGT
1 ATACAATCAAACGAAGCTGAAAAGAGTTTGACTAGGTCCTAATGCCAATACAGTCAAATGAAGGT
* * *
173899 GAGAAGAGTTTGACCGGGTCCTAATACCA
66 GAAAAGAGTTTGACCAGGTCCTAATGCCA
*
173928 ATACAGTCAAACGA
1 ATACAATCAAACGA
173942 GGAGGCAAAT
Statistics
Matches: 172, Mismatches: 26, Indels: 6
0.84 0.13 0.03
Matches are distributed among these distances:
93 106 0.62
94 66 0.38
ACGTcount: A:0.39, C:0.17, G:0.22, T:0.21
Consensus pattern (94 bp):
ATACAATCAAACGAAGCTGAAAAGAGTTTGACTAGGTCCTAATGCCAATACAGTCAAATGAAGGT
GAAAAGAGTTTGACCAGGTCCTAATGCCA
Found at i:173902 original size:140 final size:140
Alignment explanation
Indices: 173665--173938 Score: 376
Period size: 140 Copynumber: 2.0 Consensus size: 140
173655 CAAACAATGC
* * * *
173665 TGAAAAGAGTTTGACCAGGATTAATGCCAATATAGTCAAACGAGGGTGAAAAGGGTTTGACCAGG
1 TGAAAAGAGTTTGACCAGGATTAATGCCAATACAATCAAACGAAGGTGAAAAGAGTTTGACCAGG
* * *
173730 TACTAACGCCAATACAATCAAATGAAGTTGAGAAGAGTTTG-CCTAGGG-CCTAATGCCAATACA
66 TACTAACGCCAATACAATCAAATAAAGGTGAGAAGAGTTTGACC--GGGTCCTAATACCAATACA
173793 GTCAAATGAAGG
129 GTCAAATGAAGG
* *
173805 TGAAAAGAGTTTGACTAGG-TCCTAATGCCAATACAATCAAACGAAGGT-AAAAGAGTTTGACTA
1 TGAAAAGAGTTTGACCAGGAT--TAATGCCAATACAATCAAACGAAGGTGAAAAGAGTTTGACCA
* * *
173868 GGTCCTAACGTCAATACAGTCAAATAAAGGTGAGAAGAGTTTGACCGGGTCCTAATACCAATACA
64 GGTACTAACGCCAATACAATCAAATAAAGGTGAGAAGAGTTTGACCGGGTCCTAATACCAATACA
173933 GTCAAA
129 GTCAAA
173939 CGAGGAGGCA
Statistics
Matches: 118, Mismatches: 12, Indels: 8
0.86 0.09 0.06
Matches are distributed among these distances:
139 4 0.03
140 89 0.75
141 25 0.21
ACGTcount: A:0.39, C:0.16, G:0.23, T:0.22
Consensus pattern (140 bp):
TGAAAAGAGTTTGACCAGGATTAATGCCAATACAATCAAACGAAGGTGAAAAGAGTTTGACCAGG
TACTAACGCCAATACAATCAAATAAAGGTGAGAAGAGTTTGACCGGGTCCTAATACCAATACAGT
CAAATGAAGG
Found at i:174049 original size:44 final size:45
Alignment explanation
Indices: 173996--174960 Score: 436
Period size: 44 Copynumber: 22.0 Consensus size: 45
173986 AAAGAATCTT
* * *
173996 ACCAAGGTGGTAACCATATGTCAGATC-GAAATGAGAAAAGTTTG
1 ACCAGGGTGGTAACCATACGTCAGAACAGAAATGAGAAAAGTTTG
** **
174040 AATAGGGTGGTAACCATACGTCA-AACAGAAATGAG-GCAGATTTG
1 ACCAGGGTGGTAACCATACGTCAGAACAGAAATGAGAAAAG-TTTG
* * * ** ** * *
174084 ACCTGGGTGGTAATCATATGTCA-AATTGACTTGA-AAAGAATCTG
1 ACCAGGGTGGTAACCATACGTCAGAACAGAAATGAGAAA-AGTTTG
* * * * *
174128 ACCAGGGTGGTAACCATACATTAGACCA-AAACGAAGAATA-TTTG
1 ACCAGGGTGGTAACCATACGTCAGAACAGAAATG-AGAAAAGTTTG
** * * *
174172 AATAGGGTGGGAACCATATGTCA-AACAAAAAT-A-AAACAGATTTG
1 ACCAGGGTGGTAACCATACGTCAGAACAGAAATGAGAAA-AG-TTTG
* * * *
174216 ACTAGGGTGGTAACCATACATCAG-ACTGAAATAAGAAAAGTTTG
1 ACCAGGGTGGTAACCATACGTCAGAACAGAAATGAGAAAAGTTTG
* * * *
174260 ACCAGGGTGGTAACCATACATCAG-ACTGAAATAAGAAAAGTTTA
1 ACCAGGGTGGTAACCATACGTCAGAACAGAAATGAGAAAAGTTTG
* * ** **
174304 ACCAGGGTGGTAACCATACGTTA-AACAGAAAAGAG-GTAGATTCA
1 ACCAGGGTGGTAACCATACGTCAGAACAGAAATGAGAAAAG-TTTG
* * * *
174348 ACCAGGGTGATAACCATACATCA-AATCAG-CATGA-AAAAATTTG
1 ACCAGGGTGGTAACCATACGTCAGAA-CAGAAATGAGAAAAGTTTG
* *
174391 ACCAGGGTGGTAACCATATGTCA-AACCGAAATGAGAAAAGTTTG
1 ACCAGGGTGGTAACCATACGTCAGAACAGAAATGAGAAAAGTTTG
* * * ** *
174435 ACTAGGGTGGTAACCATACGTCA-AACAAAAAAGAG-GCAGATTCG
1 ACCAGGGTGGTAACCATACGTCAGAACAGAAATGAGAAAAG-TTTG
* * * * * *
174479 ACCAAGGTGATAACCATACATCA-AATC-GACAT-A-AAAAATATG
1 ACCAGGGTGGTAACCATACGTCAGAA-CAGAAATGAGAAAAGTTTG
* * * * *
174521 ACTAGGGTGGTAACCATACATCAGATCA-AAATAAGAAAATTTTG
1 ACCAGGGTGGTAACCATACGTCAGAACAGAAATGAGAAAAGTTTG
* * *
174565 ACCAAGGTGGTAACCATACGTCA-AACAGAAA-G-GAAGCAGATTCG
1 ACCAGGGTGGTAACCATACGTCAGAACAGAAATGAGAA-AAG-TTTG
* * * * *
174609 ACCAGGGTGGTAACCATACATCA-AATCA-ACAT-AAAAAAATCTG
1 ACCAGGGTGGTAACCATACGTCAGAA-CAGAAATGAGAAAAGTTTG
* * * * * * *
174652 ACCAAGGTGGTAACAATACATCAGAA-TGAAATAAGAAAATTTTA
1 ACCAGGGTGGTAACCATACGTCAGAACAGAAATGAGAAAAGTTTG
* * * * *** *
174696 ACTAGGGTGGTAACCATGCATCA-AACAGAAAGGAG-GCGGATATG
1 ACCAGGGTGGTAACCATACGTCAGAACAGAAATGAGAAAAG-TTTG
* * * * *
174740 ACCAAGGTGGTAACCATATGTCA-AATTA-ACA-G-GAAAAGAATCTG
1 ACCAGGGTGGTAACCATACGTCAGAA-CAGAAATGAGAAAAG--TTTG
* * * * * * *
174784 ACTACGGAGGTAACTATACGTTAG-ACTGAAATGAGAAGAGTTTG
1 ACCAGGGTGGTAACCATACGTCAGAACAGAAATGAGAAAAGTTTG
* * * ** *
174828 ACTAGGGTGGTAGCCATACATCA-AACAGAAATGAGGCGAA-TTCG
1 ACCAGGGTGGTAACCATACGTCAGAACAGAAATGA-GAAAAGTTTG
* * * *
174872 ACTAGGGTGGTAACCATATGTCA-AATC-GACATGA-AAAGAATTTG
1 ACCAGGGTGGTAACCATACGTCAGAA-CAGAAATGAGAAA-AGTTTG
* * * *
174916 AGCAAGGTGGTAACCATATGTCAGACCA-AAATGAGAAAAGTTTG
1 ACCAGGGTGGTAACCATACGTCAGAACAGAAATGAGAAAAGTTTG
174960 A
1 A
174961 TAGGTACGGT
Statistics
Matches: 684, Mismatches: 184, Indels: 106
0.70 0.19 0.11
Matches are distributed among these distances:
41 2 0.00
42 35 0.05
43 78 0.11
44 535 0.78
45 24 0.04
46 10 0.01
ACGTcount: A:0.41, C:0.16, G:0.22, T:0.21
Consensus pattern (45 bp):
ACCAGGGTGGTAACCATACGTCAGAACAGAAATGAGAAAAGTTTG
Found at i:174121 original size:132 final size:132
Alignment explanation
Indices: 173958--174964 Score: 969
Period size: 132 Copynumber: 7.7 Consensus size: 132
173948 AAATTTGACT
** * * ** *
173958 GTGGTAACCATACATCAAATCAACATGAAAAGAATCTTACCAAGGTGGTAACCATATGTCAGATC
1 GTGGTAACCATACATCAAATTGACATGAAAAGAATCTGACCAGGGTGGTAACCATACATCAGACC
* *
174023 GAAATGAGAAAAGTTTGAATAGGGTGGTAACCATACGTCAAACAGAAATGAGGCAGATTTGACCT
66 GAAATGAGAAAAGTTTGAATAGGGTGGTAACCATACGTCAAACAGAAATGAGGCAGATTCGACCA
174088 GG
131 GG
* ** * *
174090 GTGGTAATCATATGTCAAATTGACTTGAAAAGAATCTGACCAGGGTGGTAACCATACATTAGACC
1 GTGGTAACCATACATCAAATTGACATGAAAAGAATCTGACCAGGGTGGTAACCATACATCAGACC
* * * * * * * ** * *
174155 AAAACGAAGAATA-TTTGAATAGGGTGGGAACCATATGTCAAACAAAAATAAAACAGATTTGACT
66 GAAATG-AGAAAAGTTTGAATAGGGTGGTAACCATACGTCAAACAGAAATGAGGCAGATTCGACC
174219 AGG
130 AGG
* * * *
174222 GTGGTAACCATACATCAGACTGAAAT-AAGAA-AAGTTTGACCAGGGTGGTAACCATACATCAGA
1 GTGGTAACCATACATCAAATTGACATGAA-AAGAA-TCTGACCAGGGTGGTAACCATACATCAGA
* * * * * * *
174285 CTGAAATAAGAAAAGTTT-AACCAGGGTGGTAACCATACGTTAAACAGAAAAGAGGTAGATTCAA
64 CCGAAATGAGAAAAGTTTGAA-TAGGGTGGTAACCATACGTCAAACAGAAATGAGGCAGATTCGA
174349 CCAGG
128 CCAGG
* * * ** *
174354 GTGATAACCATACATCAAA-TCAGCATGAAAA-AATTTGACCAGGGTGGTAACCATATGTCAAAC
1 GTGGTAACCATACATCAAATTGA-CATGAAAAGAATCTGACCAGGGTGGTAACCATACATCAGAC
* * *
174417 CGAAATGAGAAAAGTTTGACTAGGGTGGTAACCATACGTCAAACAAAAAAGAGGCAGATTCGACC
65 CGAAATGAGAAAAGTTTGAATAGGGTGGTAACCATACGTCAAACAGAAATGAGGCAGATTCGACC
*
174482 AAG
130 AGG
* * * * *
174485 GTGATAACCATACATCAAATCGACAT-AAAA-AATATGACTAGGGTGGTAACCATACATCAGATC
1 GTGGTAACCATACATCAAATTGACATGAAAAGAATCTGACCAGGGTGGTAACCATACATCAGACC
* * * ** * * *
174548 AAAATAAGAAAATTTTGACCAAGGTGGTAACCATACGTCAAACAGAAAGGAAGCAGATTCGACCA
66 GAAATGAGAAAAGTTTGAATAGGGTGGTAACCATACGTCAAACAGAAATGAGGCAGATTCGACCA
174613 GG
131 GG
** * * * **
174615 GTGGTAACCATACATCAAATCAACAT-AAAAAAATCTGACCAAGGTGGTAACAATACATCAGAAT
1 GTGGTAACCATACATCAAATTGACATGAAAAGAATCTGACCAGGGTGGTAACCATACATCAGACC
* * * * * *
174679 GAAATAAGAAAA-TTTTAACTAGGGTGGTAACCATGCATCAAACAGAAAGGAGGCGGATAT-GAC
66 GAAATGAGAAAAGTTTGAA-TAGGGTGGTAACCATACGTCAAACAGAAATGAGGCAGAT-TCGAC
*
174742 CAAG
129 CAGG
** * * * * * * * * *
174746 GTGGTAACCATATGTCAAATTAACAGGAAAAGAATCTGACTACGGAGGTAACTATACGTTAGACT
1 GTGGTAACCATACATCAAATTGACATGAAAAGAATCTGACCAGGGTGGTAACCATACATCAGACC
* * * * *
174811 GAAATGAGAAGAGTTTGACTAGGGTGGTAGCCATACATCAAACAGAAATGAGGC-GAATTCGACT
66 GAAATGAGAAAAGTTTGAATAGGGTGGTAACCATACGTCAAACAGAAATGAGGCAG-ATTCGACC
174875 AGG
130 AGG
** * * * * **
174878 GTGGTAACCATATGTCAAATCGACATGAAAAGAATTTGAGCAAGGTGGTAACCATATGTCAGACC
1 GTGGTAACCATACATCAAATTGACATGAAAAGAATCTGACCAGGGTGGTAACCATACATCAGACC
*
174943 AAAATGAGAAAAGTTTG-ATAGG
66 GAAATGAGAAAAGTTTGAATAGG
174965 TACGGTCAAA
Statistics
Matches: 722, Mismatches: 137, Indels: 33
0.81 0.15 0.04
Matches are distributed among these distances:
130 121 0.17
131 224 0.31
132 366 0.51
133 11 0.02
ACGTcount: A:0.42, C:0.16, G:0.22, T:0.21
Consensus pattern (132 bp):
GTGGTAACCATACATCAAATTGACATGAAAAGAATCTGACCAGGGTGGTAACCATACATCAGACC
GAAATGAGAAAAGTTTGAATAGGGTGGTAACCATACGTCAAACAGAAATGAGGCAGATTCGACCA
GG
Found at i:175878 original size:89 final size:89
Alignment explanation
Indices: 175587--175884 Score: 345
Period size: 89 Copynumber: 3.3 Consensus size: 89
175577 AATCTGGTTC
* * *
175587 TGTGATACATCAATACCATCTAGTGGTTAGGAA--AAAAGGATATGATTAGGAATGTATGGGCTA
1 TGTGATGCATCAATACCATCTAGTGGTT--GAATGAAAGGGATATGATTAGGAATGTGTGGGCTA
* * *
175650 CACCTTACCCTA-AAAAAGTCAAGCTT
64 CACCTTGCCCTAGGAAAA-TCAGGCTT
* * * * * * * * *
175676 TGTGATGCATCAGTTCCATTTAGTAGTTGAATGAAAGGGATATAATTAGGAATGAGTGAGTTGCA
1 TGTGATGCATCAATACCATCTAGTGGTTGAATGAAAGGGATATGATTAGGAATGTGTGGGCTACA
*
175741 CCGTGCCCTAGGAAAATCAGGCTT
66 CCTTGCCCTAGGAAAATCAGGCTT
*
175765 TGTGATGCA-CTAGA-ACCATCTAGTGGTTGAATGAAGGGGATATGATTAGGAATGTGTGGGCTA
1 TGTGATGCATC-A-ATACCATCTAGTGGTTGAATGAAAGGGATATGATTAGGAATGTGTGGGCTA
*
175828 CACCTTGCCCTAGGAAAATTAGGCTT
64 CACCTTGCCCTAGGAAAATCAGGCTT
*
175854 TGTGATGCATCAATACCATCTAGTGATTGAA
1 TGTGATGCATCAATACCATCTAGTGGTTGAA
175885 AATGACGGAT
Statistics
Matches: 173, Mismatches: 29, Indels: 14
0.80 0.13 0.06
Matches are distributed among these distances:
87 3 0.02
88 2 0.01
89 163 0.94
90 5 0.03
ACGTcount: A:0.32, C:0.15, G:0.25, T:0.29
Consensus pattern (89 bp):
TGTGATGCATCAATACCATCTAGTGGTTGAATGAAAGGGATATGATTAGGAATGTGTGGGCTACA
CCTTGCCCTAGGAAAATCAGGCTT
Found at i:177195 original size:112 final size:112
Alignment explanation
Indices: 176992--177202 Score: 246
Period size: 112 Copynumber: 1.9 Consensus size: 112
176982 GGCCTAAAAA
* * * * * *
176992 TTTCAAAACTGATTGGGTACATGCCCCATTTTCCTAGGCACAAATGAATCAGATCGTATAGAGCA
1 TTTCAAAACTCATAGGATACATGCCCCATTTTCCTAGGCACAAATGAATCAAATCGCATAAAGCA
*
177057 TGAATTTCTCAAAAATTAGACAAAATTAATGTTGTTAGGCTCAACAG
66 TGAATTTCTCAAAAATCAGACAAAATTAATGTTGTTAGGCTCAACAG
* * *
177104 TTTCAAAACTCATAGGATACGTGCCCTATTTTCCTAGGCACGAAT-AGATCGAAAT-GCATAAAG
1 TTTCAAAACTCATAGGATACATGCCCCATTTTCCTAGGCACAAATGA-ATC-AAATCGCATAAAG
* ** * *
177167 TATGAATTTCTTTGAAAATCAGACAAATTTGATGTT
64 CATGAATTTC-TCAAAAATCAGACAAAATTAATGTT
177203 CTTCCAAGTT
Statistics
Matches: 81, Mismatches: 15, Indels: 5
0.80 0.15 0.05
Matches are distributed among these distances:
111 1 0.01
112 57 0.70
113 23 0.28
ACGTcount: A:0.36, C:0.17, G:0.17, T:0.31
Consensus pattern (112 bp):
TTTCAAAACTCATAGGATACATGCCCCATTTTCCTAGGCACAAATGAATCAAATCGCATAAAGCA
TGAATTTCTCAAAAATCAGACAAAATTAATGTTGTTAGGCTCAACAG
Found at i:177481 original size:11 final size:11
Alignment explanation
Indices: 177465--177497 Score: 57
Period size: 11 Copynumber: 2.9 Consensus size: 11
177455 GTTCTTTCCA
177465 TTTTTTTCATT
1 TTTTTTTCATT
177476 TTTTTTTCATT
1 TTTTTTTCATT
177487 TTTTTCTTCAT
1 TTTTT-TTCAT
177498 CATGCTCTAA
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 16 0.76
12 5 0.24
ACGTcount: A:0.09, C:0.12, G:0.00, T:0.79
Consensus pattern (11 bp):
TTTTTTTCATT
Found at i:177482 original size:12 final size:12
Alignment explanation
Indices: 177465--177497 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
177455 GTTCTTTCCA
177465 TTTTTTTCA-TT
1 TTTTTTTCATTT
177476 TTTTTTTCATTT
1 TTTTTTTCATTT
*
177488 TTTTCTTCAT
1 TTTTTTTCAT
177498 CATGCTCTAA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
11 9 0.45
12 11 0.55
ACGTcount: A:0.09, C:0.12, G:0.00, T:0.79
Consensus pattern (12 bp):
TTTTTTTCATTT
Found at i:181860 original size:155 final size:155
Alignment explanation
Indices: 181622--182018 Score: 439
Period size: 155 Copynumber: 2.6 Consensus size: 155
181612 AGTAACAACC
* * * * * * *
181622 TAGGAGTTGGTTCTGAAAAATTGCAAAAATACTCCTAAGG-GATACCTTCGACATAAAAGTACCC
1 TAGGAGTTAGTTATAAAAAATTACAAAAATGCCCCT-AGGAGATACATTCGACATAAAAGTACCC
*
181686 GATACCCCTAAAGGACTTAAAAAAAGATTTTAACTA-GGATGAACCTACCCTAAATATCCACCTT
65 GATACCCCTAAAGGACTTAAAAAAAGATTTTAA-AAGGGATGAACCTACCCTAAATATCCACCTT
* ** * *
181750 CGGCATAAAAGCTA-ACTAGTAATG-ATC-
129 CGGAATAAAAGC-AGAC--CCAACGAAACT
* * * *
181777 TAGGAGTTAGTTATAAAAAATTACGAAAATGCCTCTAGGGGATATATTCGACATAAAAGTACCCG
1 TAGGAGTTAGTTATAAAAAATTACAAAAATGCCCCTAGGAGATACATTCGACATAAAAGTACCCG
* * *
181842 ATACCCCTAAAGGACTT--AAAAGGATTTTAAAAGGGATGAACCTATCCTAAATATCCACCTTTG
66 ATACCCCTAAAGGACTTAAAAAAAGATTTTAAAAGGGATGAACCTACCCTAAATATCCACCTTCG
181905 GAATAAAAGCAGACCCAACGACAACT
131 GAATAAAAGCAGACCCAACGA-AACT
* * * * *
181931 TAGGAGTTAGTTCTAAAAATTTACAAAAATGCCCCTAGGAGATACCTTCGACATAAAACTATCTC
1 TAGGAGTTAGTTATAAAAAATTACAAAAATGCCCCTAGGAGATACATTCGACATAAAAGTA-CCC
* *
181996 GATAACCTTAAAGGACTTAAAAA
65 GATACCCCTAAAGGACTTAAAAA
182019 GGTAAAAGGA
Statistics
Matches: 203, Mismatches: 30, Indels: 16
0.82 0.12 0.06
Matches are distributed among these distances:
151 3 0.01
152 2 0.01
153 53 0.26
154 56 0.28
155 86 0.42
157 3 0.01
ACGTcount: A:0.41, C:0.19, G:0.16, T:0.24
Consensus pattern (155 bp):
TAGGAGTTAGTTATAAAAAATTACAAAAATGCCCCTAGGAGATACATTCGACATAAAAGTACCCG
ATACCCCTAAAGGACTTAAAAAAAGATTTTAAAAGGGATGAACCTACCCTAAATATCCACCTTCG
GAATAAAAGCAGACCCAACGAAACT
Found at i:182111 original size:150 final size:152
Alignment explanation
Indices: 181791--182327 Score: 521
Period size: 150 Copynumber: 3.5 Consensus size: 152
181781 AGTTAGTTAT
* * * ** * * *
181791 AAAAAATTACGAAAATGCCTCTAGGGGATATATTCGACATAAAAGTA-CCCGATACCCCTAAAGG
1 AAAAAATTACTAAAATGCCCCTAGGAGATACCTTCGACGTAAAAGTATCTCGATAACCCTAAAGG
* * ** *
181855 ACTT-AAAAGGATTTTAAAAGGGATGAACCTATCCTAAATATCCACCTTTGGAATAAAAGCAGAC
66 ACTTAAAAAGG----TAAAA-GGATGAACCTATCCTAAACATACACCTTCAGCATAAAAGCAGAC
* * *** * * * * * *
181919 CCAACGACAACTTAGGAGTTAGTTCT-
126 CCGATGGTTACCTAAGACTCAATTTTA
* * * * *
181945 AAAAATTTACAAAAATGCCCCTAGGAGATACCTTCGACATAAAACTATCTCGATAACCTTAAAGG
1 AAAAAATTACTAAAATGCCCCTAGGAGATACCTTCGACGTAAAAGTATCTCGATAACCCTAAAGG
* * * *
182010 ACTTAAAAAGGTAAAAGGATGAACCTATCGT-AACGTACACCTTC-GACATAAAAGCAGACCTGG
66 ACTTAAAAAGGTAAAAGGATGAACCTATCCTAAACATACACCTTCAG-CATAAAAGCAGACCCGA
*
182073 TGGTTACCTAAGACTCGATTTTA
130 TGGTTACCTAAGACTCAATTTTA
** * * *
182096 GGAAAA-TACTAAAATGCTCCTAGG-GAATACCTTCGACGTAAAAGTATCTCGGTAACCCTAAAA
1 AAAAAATTACTAAAATGCCCCTAGGAG-ATACCTTCGACGTAAAAGTATCTCGATAACCCTAAAG
* * * * *
182159 GACTTAAGAAGGTAAAATGATGAGCCTATCCTAAACATACACCTTCAGCATAGAAGCGGACCCGA
65 GACTTAAAAAGGTAAAAGGATGAACCTATCCTAAACATACACCTTCAGCATAAAAGCAGACCCGA
*
182224 TGGTTACCTAGGACTCAATTTTA
130 TGGTTACCTAAGACTCAATTTTA
* * *
182247 AAAAAATTACTAAAATGCCCCTAGGAGATACTTTCAACGTAAAAGTATCCCGATAACCCTAAAGG
1 AAAAAATTACTAAAATGCCCCTAGGAGATACCTTCGACGTAAAAGTATCTCGATAACCCTAAAGG
*
182312 ACTTAAAAAGGAAAAA
66 ACTTAAAAAGGTAAAA
182328 AGTGGTTACG
Statistics
Matches: 313, Mismatches: 61, Indels: 20
0.79 0.15 0.05
Matches are distributed among these distances:
149 2 0.01
150 109 0.35
151 67 0.21
152 70 0.22
153 1 0.00
154 40 0.13
155 18 0.06
156 6 0.02
ACGTcount: A:0.40, C:0.20, G:0.17, T:0.23
Consensus pattern (152 bp):
AAAAAATTACTAAAATGCCCCTAGGAGATACCTTCGACGTAAAAGTATCTCGATAACCCTAAAGG
ACTTAAAAAGGTAAAAGGATGAACCTATCCTAAACATACACCTTCAGCATAAAAGCAGACCCGAT
GGTTACCTAAGACTCAATTTTA
Found at i:183912 original size:91 final size:91
Alignment explanation
Indices: 183752--183964 Score: 374
Period size: 91 Copynumber: 2.3 Consensus size: 91
183742 ATACTTCTAA
183752 GTATCGATACATAGGTATTTGTATCGATACATTATGGTTGACTTAAGCTACAAAGGTCAAAACCC
1 GTATCGATACATAGGTATTTGTATCGATACATTATGGTTGACTTAAGCTACAAAGGTCAAAACCC
*
183817 TTGAATGTATCGATACATACCCAGAT
66 TTGAATGTATCGATACACACCCAGAT
*
183843 GTATTGATACATAGGTATTTGTATCGATACATTATGGTTGACTTAAGCTACAAAGGTCAAAACCC
1 GTATCGATACATAGGTATTTGTATCGATACATTATGGTTGACTTAAGCTACAAAGGTCAAAACCC
183908 TTGAATGTATCGATACACACCCAGAT
66 TTGAATGTATCGATACACACCCAGAT
* *
183934 GTATCGATACATTATG-CTTTGTATCGATACA
1 GTATCGATACA-TAGGTATTTGTATCGATACA
183965 ATGTATCGAT
Statistics
Matches: 116, Mismatches: 5, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
91 113 0.97
92 3 0.03
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.32
Consensus pattern (91 bp):
GTATCGATACATAGGTATTTGTATCGATACATTATGGTTGACTTAAGCTACAAAGGTCAAAACCC
TTGAATGTATCGATACACACCCAGAT
Found at i:183971 original size:13 final size:13
Alignment explanation
Indices: 183953--183977 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
183943 CATTATGCTT
183953 TGTATCGATACAA
1 TGTATCGATACAA
183966 TGTATCGATACA
1 TGTATCGATACA
183978 TGTTCATTGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:183974 original size:33 final size:32
Alignment explanation
Indices: 183932--183996 Score: 96
Period size: 33 Copynumber: 2.0 Consensus size: 32
183922 ACACACCCAG
*
183932 ATGTATCGATACAT-TATGCTTTGTATCGATACA
1 ATGTATCGATACATGT-T-CATTGTATCGATACA
183965 ATGTATCGATACATGTTCATTGTATCGATACA
1 ATGTATCGATACATGTTCATTGTATCGATACA
183997 TGAAACTGGC
Statistics
Matches: 30, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
32 14 0.47
33 15 0.50
34 1 0.03
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (32 bp):
ATGTATCGATACATGTTCATTGTATCGATACA
Found at i:191767 original size:33 final size:33
Alignment explanation
Indices: 191730--191796 Score: 89
Period size: 33 Copynumber: 2.0 Consensus size: 33
191720 CGAGAGTTGA
*
191730 TCACTTCACTTTCACAACACATGAATGAGCACT
1 TCACTTCACTCTCACAACACATGAATGAGCACT
* ** *
191763 TCACTTCACTCTCGCAACGTATGGATGAGCACT
1 TCACTTCACTCTCACAACACATGAATGAGCACT
191796 T
1 T
191797 TGGTGCACTT
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
33 29 1.00
ACGTcount: A:0.28, C:0.30, G:0.13, T:0.28
Consensus pattern (33 bp):
TCACTTCACTCTCACAACACATGAATGAGCACT
Found at i:192784 original size:13 final size:13
Alignment explanation
Indices: 192768--192792 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
192758 CATTATACTT
192768 TGTATCGATACAA
1 TGTATCGATACAA
192781 TGTATCGATACA
1 TGTATCGATACA
192793 TGTTCATTGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:192789 original size:33 final size:32
Alignment explanation
Indices: 192747--192811 Score: 96
Period size: 33 Copynumber: 2.0 Consensus size: 32
192737 ACACACCCAG
*
192747 ATGTATCGATACAT-TATACTTTGTATCGATACA
1 ATGTATCGATACATGT-T-CATTGTATCGATACA
192780 ATGTATCGATACATGTTCATTGTATCGATACA
1 ATGTATCGATACATGTTCATTGTATCGATACA
192812 TAGACAATTG
Statistics
Matches: 30, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
32 14 0.47
33 15 0.50
34 1 0.03
ACGTcount: A:0.32, C:0.15, G:0.14, T:0.38
Consensus pattern (32 bp):
ATGTATCGATACATGTTCATTGTATCGATACA
Found at i:192823 original size:20 final size:20
Alignment explanation
Indices: 192776--192833 Score: 77
Period size: 19 Copynumber: 3.0 Consensus size: 20
192766 TTTGTATCGA
192776 TACAA-TGTATCGATACATG
1 TACAATTGTATCGATACATG
*
192795 TTC-ATTGTATCGATACATAG
1 TACAATTGTATCGATACAT-G
192815 -ACAATTGTATCGATACATG
1 TACAATTGTATCGATACATG
192834 AAACTGACAG
Statistics
Matches: 34, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
18 1 0.03
19 17 0.50
20 16 0.47
ACGTcount: A:0.34, C:0.16, G:0.16, T:0.34
Consensus pattern (20 bp):
TACAATTGTATCGATACATG
Found at i:193747 original size:22 final size:20
Alignment explanation
Indices: 193722--193762 Score: 55
Period size: 20 Copynumber: 1.9 Consensus size: 20
193712 TTTTGTTTAT
193722 TTTGCTTCCTGTTTTTTCTTTC
1 TTTGCTTCC--TTTTTTCTTTC
*
193744 TTTGCTTGCTTTTTTCTTT
1 TTTGCTTCCTTTTTTCTTT
193763 TTTTATTTGT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 10 0.56
22 8 0.44
ACGTcount: A:0.00, C:0.20, G:0.10, T:0.71
Consensus pattern (20 bp):
TTTGCTTCCTTTTTTCTTTC
Found at i:194038 original size:20 final size:20
Alignment explanation
Indices: 194013--194050 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
194003 GGAATGGAGA
194013 AATAATAAAATAACAATACT
1 AATAATAAAATAACAATACT
*
194033 AATAATAAAATAATAATA
1 AATAATAAAATAACAATA
194051 AAATTAATTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.68, C:0.05, G:0.00, T:0.26
Consensus pattern (20 bp):
AATAATAAAATAACAATACT
Found at i:194044 original size:14 final size:14
Alignment explanation
Indices: 194012--194051 Score: 55
Period size: 14 Copynumber: 2.9 Consensus size: 14
194002 GGGAATGGAG
194012 AAATAATAA-AATA
1 AAATAATAATAATA
*
194025 ACAATACTAATAATA
1 A-AATAATAATAATA
194040 AAATAATAATAA
1 AAATAATAATAA
194052 AATTAATTTT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
13 1 0.04
14 17 0.74
15 5 0.22
ACGTcount: A:0.70, C:0.05, G:0.00, T:0.25
Consensus pattern (14 bp):
AAATAATAATAATA
Found at i:194046 original size:11 final size:11
Alignment explanation
Indices: 194013--194054 Score: 52
Period size: 11 Copynumber: 4.0 Consensus size: 11
194003 GGAATGGAGA
194013 AATAATAAAAT
1 AATAATAAAAT
* *
194024 AACAAT--ACT
1 AATAATAAAAT
194033 AATAATAAAAT
1 AATAATAAAAT
194044 AATAATAAAAT
1 AATAATAAAAT
194055 TAATTTTTAA
Statistics
Matches: 25, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
9 7 0.28
11 18 0.72
ACGTcount: A:0.69, C:0.05, G:0.00, T:0.26
Consensus pattern (11 bp):
AATAATAAAAT
Found at i:194058 original size:20 final size:20
Alignment explanation
Indices: 194012--194054 Score: 61
Period size: 20 Copynumber: 2.2 Consensus size: 20
194002 GGGAATGGAG
194012 AAATAATAAAATAACAATAC
1 AAATAATAAAATAACAATAC
* *
194032 TAATAATAAAATAATAATA-
1 AAATAATAAAATAACAATAC
194051 AAAT
1 AAAT
194055 TAATTTTTAA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
19 3 0.15
20 17 0.85
ACGTcount: A:0.70, C:0.05, G:0.00, T:0.26
Consensus pattern (20 bp):
AAATAATAAAATAACAATAC
Found at i:194284 original size:33 final size:33
Alignment explanation
Indices: 194220--194290 Score: 92
Period size: 35 Copynumber: 2.1 Consensus size: 33
194210 ATTCCTAGAT
194220 AAAAATAAAATAAAATAAAAAATCTTAATACAATA
1 AAAAATAAAATAAAATAAAAAA-CTTAATAC-ATA
*
194255 AAAAATAAAATAATAA-AAAAAA-TTCATACATA
1 AAAAATAAAATAA-AATAAAAAACTTAATACATA
194287 AAAA
1 AAAA
194291 TGTTGATTGT
Statistics
Matches: 34, Mismatches: 1, Indels: 5
0.85 0.03 0.12
Matches are distributed among these distances:
32 7 0.21
33 6 0.18
35 19 0.56
36 2 0.06
ACGTcount: A:0.73, C:0.06, G:0.00, T:0.21
Consensus pattern (33 bp):
AAAAATAAAATAAAATAAAAAACTTAATACATA
Found at i:197113 original size:28 final size:28
Alignment explanation
Indices: 197073--197134 Score: 97
Period size: 28 Copynumber: 2.2 Consensus size: 28
197063 AAGATACTGT
197073 TAAAAAGGTAATTCGATGAGAGTCAATC
1 TAAAAAGGTAATTCGATGAGAGTCAATC
* * *
197101 TAAAAAGGTAATTTGATGAGGGTTAATC
1 TAAAAAGGTAATTCGATGAGAGTCAATC
197129 TAAAAA
1 TAAAAA
197135 TATTTCAAAA
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
28 31 1.00
ACGTcount: A:0.45, C:0.06, G:0.21, T:0.27
Consensus pattern (28 bp):
TAAAAAGGTAATTCGATGAGAGTCAATC
Found at i:199217 original size:50 final size:50
Alignment explanation
Indices: 199135--199229 Score: 154
Period size: 50 Copynumber: 1.9 Consensus size: 50
199125 TTTTCACAAT
199135 TTGTATCGATACATTCTGGGTTTCACCCAGATGTATCGATACATTATTCA
1 TTGTATCGATACATTCTGGGTTTCACCCAGATGTATCGATACATTATTCA
* * * *
199185 TTGTTTCGATATATTCTGGGTTTTACCTAGATGTATCGATACATT
1 TTGTATCGATACATTCTGGGTTTCACCCAGATGTATCGATACATT
199230 TCTTAATGTA
Statistics
Matches: 41, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
50 41 1.00
ACGTcount: A:0.24, C:0.17, G:0.17, T:0.42
Consensus pattern (50 bp):
TTGTATCGATACATTCTGGGTTTCACCCAGATGTATCGATACATTATTCA
Found at i:201656 original size:51 final size:51
Alignment explanation
Indices: 201601--201720 Score: 204
Period size: 51 Copynumber: 2.4 Consensus size: 51
201591 TTATTTCCGA
201601 GGGGATACTCTAACCCCGATTTTATTTCCAAAATACTAATTTTTCACAATC
1 GGGGATACTCTAACCCCGATTTTATTTCCAAAATACTAATTTTTCACAATC
201652 GGGGATACTCTAACCCCGATTTTATTTCCAAAATACTAATTTTTCACAATC
1 GGGGATACTCTAACCCCGATTTTATTTCCAAAATACTAATTTTTCACAATC
* * * *
201703 AGGAATTCTCCAACCCCG
1 GGGGATACTCTAACCCCG
201721 TTATTTTTGA
Statistics
Matches: 65, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
51 65 1.00
ACGTcount: A:0.31, C:0.26, G:0.11, T:0.33
Consensus pattern (51 bp):
GGGGATACTCTAACCCCGATTTTATTTCCAAAATACTAATTTTTCACAATC
Found at i:201871 original size:80 final size:78
Alignment explanation
Indices: 201654--201905 Score: 256
Period size: 79 Copynumber: 3.2 Consensus size: 78
201644 TCACAATCGG
* * * ** *
201654 GGATACTCTAACCC-CGATTTTATTTCCAAAATACTAATTTTTCACAATCAGGAATTCTCCAACC
1 GGATACTCCAACCCTAG-TTTTATTTCCAAAACACCGA-TTTTCACAATCAGGAATACTCCAACC
* *
201718 CCGTTATTTTTGAGG
64 CCGTTATTTCTGAGA
* * *
201733 GGATACTCTAACCTTAGTTTTATTTCCAAAACACCGATTTTCCATAATCAGGAATACTCCAACCC
1 GGATACTCCAACCCTAGTTTTATTTCCAAAACACCGATTTT-CACAATCAGGAATACTCCAACCC
*
201798 CATTATTTCTGAGA
65 CGTTATTTCTGAGA
* * * * * *
201812 GGATACTCCAACCCTGGTTTTTATTTTCAAAACATCGATTTTCTACAATCGGGGATACTCCAACT
1 GGATACTCCAACCCTAG-TTTTATTTCCAAAACACCGATTTTC-ACAATCAGGAATACTCCAACC
* *
201877 CCGTTATTTC-CAAA
64 CCGTTATTTCTGAGA
201891 GGGATACTCCAACCC
1 -GGATACTCCAACCC
201906 CTTTATTTTT
Statistics
Matches: 146, Mismatches: 22, Indels: 9
0.82 0.12 0.05
Matches are distributed among these distances:
78 4 0.03
79 79 0.54
80 63 0.43
ACGTcount: A:0.29, C:0.26, G:0.12, T:0.33
Consensus pattern (78 bp):
GGATACTCCAACCCTAGTTTTATTTCCAAAACACCGATTTTCACAATCAGGAATACTCCAACCCC
GTTATTTCTGAGA
Found at i:201924 original size:28 final size:28
Alignment explanation
Indices: 201865--201932 Score: 73
Period size: 28 Copynumber: 2.4 Consensus size: 28
201855 TACAATCGGG
* *
201865 GATACTCCAACTCCGTTATTTCCAAAGG
1 GATACTCCAACCCCGTTATTTCCAAAGA
* ***
201893 GATACTCCAACCCCTTTATTTTTGAAGA
1 GATACTCCAACCCCGTTATTTCCAAAGA
*
201921 GATACTCTAACC
1 GATACTCCAACC
201933 TTGATTTTAT
Statistics
Matches: 33, Mismatches: 7, Indels: 0
0.82 0.17 0.00
Matches are distributed among these distances:
28 33 1.00
ACGTcount: A:0.29, C:0.28, G:0.12, T:0.31
Consensus pattern (28 bp):
GATACTCCAACCCCGTTATTTCCAAAGA
Found at i:201973 original size:107 final size:108
Alignment explanation
Indices: 201786--202012 Score: 332
Period size: 107 Copynumber: 2.1 Consensus size: 108
201776 ATAATCAGGA
* *
201786 ATACTCCAACCCCATTATTTCTGAGAGGATACTCCAACCCTGGTTTTTATTTTCAAAACATCGAT
1 ATACTCCAACCCCATTATTTCTGAGAGGATACTCCAACCCTGGATTTTATTTCCAAAACATCGAT
* * *
201851 TTTCTACAATCGGGGATACTCCAACTCCGTTATTTCCAAAGGG
66 TTTCCACAATCGGGGATACTCCAACCCCATTATTTCCAAAGGG
* * * *
201894 ATACTCCAACCCCTTTATTTTTGA-AGAGATACTCTAA-CCTTGATTTTATTTCCAAAACATCGA
1 ATACTCCAACCCCATTATTTCTGAGAG-GATACTCCAACCCTGGATTTTATTTCCAAAACATCGA
* *
201957 TTTTCCATAATCGGGGATACTCCAACCCCATTATTTCCGAAGGG
65 TTTTCCACAATCGGGGATACTCCAACCCCATTATTTCCAAAGGG
202001 ATACTCCAACCC
1 ATACTCCAACCC
202013 GAGTTTTATT
Statistics
Matches: 107, Mismatches: 11, Indels: 3
0.88 0.09 0.02
Matches are distributed among these distances:
107 76 0.71
108 31 0.29
ACGTcount: A:0.29, C:0.27, G:0.12, T:0.32
Consensus pattern (108 bp):
ATACTCCAACCCCATTATTTCTGAGAGGATACTCCAACCCTGGATTTTATTTCCAAAACATCGAT
TTTCCACAATCGGGGATACTCCAACCCCATTATTTCCAAAGGG
Found at i:201983 original size:79 final size:80
Alignment explanation
Indices: 201891--202485 Score: 534
Period size: 79 Copynumber: 7.5 Consensus size: 80
201881 TATTTCCAAA
* * *
201891 GGGATACTCCAACCCCTTTATTTTTGAAGAGATACTCTAACCTTGA-TTTTATTTCCAAAACATC
1 GGGATACTCCAACCCCATTATTTTTGAAGGGATACTCTAACCTCGAGTTTTATTTCCAAAACATC
* *
201955 GATTTTCCATAATCG
66 AATTTTCCACAATCG
** * * *
201970 GGGATACTCCAACCCCATTATTTCCGAAGGGATACTCCAACC-CGAGTTTTATTTTCAAAACACC
1 GGGATACTCCAACCCCATTATTTTTGAAGGGATACTCTAACCTCGAGTTTTATTTCCAAAACATC
202034 AATTTTCCACAATCG
66 AATTTTCCACAATCG
* * * * * *
202049 GAGATACTCCAACCCCATTATTTTCGATGGGATACTCCAACCTTG-GTTTT-TTTCCAAAACACC
1 GGGATACTCCAACCCCATTATTTTTGAAGGGATACTCTAACCTCGAGTTTTATTTCCAAAACATC
*
202112 AATTTTCCACCATCG
66 AATTTTCCACAATCG
* ** * * * *
202127 AGGATACTCCAACCCTGTTATTTCTG-AGAGAATACTCTAACC-CCAGTTTTATTTCTAAAACAT
1 GGGATACTCCAACCCCATTATTTTTGAAG-GGATACTCTAACCTCGAGTTTTATTTCCAAAACAT
**
202190 TGATTTTCCACAATCG
65 CAATTTTCCACAATCG
* * * * * *
202206 GGGATACTCTAATCCCATTATTTTTG-AGGGAATACTCTATCCTCGATTTTTTATTTCTAAAATA
1 GGGATACTCCAACCCCATTATTTTTGAAGGG-ATACTCTAACCTCGA-GTTTTATTTCCAAAACA
* **** *
202270 TCGATTTTTTGTAATTG
64 TCAATTTTCCACAATCG
** ** * * * *
202287 GGGATACTCCAACCCTGTTATTTTCAAAGGGACACTCCAACCCCG-GTTTTATTTCCAAAATATC
1 GGGATACTCCAACCCCATTATTTTTGAAGGGATACTCTAACCTCGAGTTTTATTTCCAAAACATC
*
202351 AATTTTTCAC---CG
66 AATTTTCCACAATCG
* * * * *
202363 GGGATACTCCAACCCCAATATTTCTGAGGGGATACTCTAACC-CTAGCTTTATTTCCAAAACATC
1 GGGATACTCCAACCCCATTATTTTTGAAGGGATACTCTAACCTCGAGTTTTATTTCCAAAACATC
202427 AATTTTCCACAATCGGG
66 AATTTTCCACAATC--G
* * *
202444 GGGATACTCCGACCCTC-TTA-TTTTCAAGGGGATACTCCAACC
1 GGGATACTCCAACCC-CATTATTTTTGAA-GGGATACTCTAACC
202486 CCGTTTTTAA
Statistics
Matches: 414, Mismatches: 85, Indels: 32
0.78 0.16 0.06
Matches are distributed among these distances:
75 1 0.00
76 60 0.14
77 1 0.00
78 65 0.16
79 189 0.46
80 7 0.02
81 86 0.21
82 5 0.01
ACGTcount: A:0.28, C:0.25, G:0.13, T:0.33
Consensus pattern (80 bp):
GGGATACTCCAACCCCATTATTTTTGAAGGGATACTCTAACCTCGAGTTTTATTTCCAAAACATC
AATTTTCCACAATCG
Found at i:202180 original size:157 final size:157
Alignment explanation
Indices: 201891--202492 Score: 596
Period size: 157 Copynumber: 3.8 Consensus size: 157
201881 TATTTCCAAA
* * * *
201891 GGGATACTCCAACCCCTTTATTTTTGAAGAGATACTCTAACCTTGATTTTATTTCCAAAACATCG
1 GGGATACTCCAACCCCATTATTTTCG-AGGGATACTCTAACCTTGATTTTATTTCCAAAACATCA
* ** * *
201956 ATTTTCCATAATCGGGGATACTCCAACCCCATTATTTCCGAAGGGATACTCCAACCCGAGTTTTA
65 ATTTTCCACAATCGGGGATACTCCAACCCTGTTATTTCTGAAGGGATACTCCAACCCCAGTTTTA
*
202021 TTTTCAAAACACCAATTTTCCACAATCG
130 TTTTCAAAACATCAATTTTCCACAATCG
* * * *
202049 GAGATACTCCAACCCCATTATTTTCGATGGGATACTCCAACCTTGGTTTT-TTTCCAAAACACCA
1 GGGATACTCCAACCCCATTATTTTCGA-GGGATACTCTAACCTTGATTTTATTTCCAAAACATCA
* * * *
202113 ATTTTCCACCATCGAGGATACTCCAACCCTGTTATTTCTG-AGAGAATACTCTAACCCCAGTTTT
65 ATTTTCCACAATCGGGGATACTCCAACCCTGTTATTTCTGAAG-GGATACTCCAACCCCAGTTTT
**
202177 A-TTTCTAAAACATTGATTTTCCACAATCG
129 ATTTTC-AAAACATCAATTTTCCACAATCG
* * * * * * *
202206 GGGATACTCTAATCCCATTATTTTTGAGGGAATACTCTATCCTCGATTTTTTATTTCTAAAATAT
1 GGGATACTCCAACCCCATTATTTTCGAGGG-ATACTCTAACCTTGA--TTTTATTTCCAAAACAT
* **** * * * *
202271 CGATTTTTTGTAATTGGGGATACTCCAACCCTGTTATTT-TCAAAGGGACACTCCAACCCCGGTT
63 CAATTTTCCACAATCGGGGATACTCCAACCCTGTTATTTCT-GAAGGGATACTCCAACCCCAGTT
* * *
202335 TTATTTCCAAAATATCAATTTTTCAC---CG
127 TTATTTTCAAAACATCAATTTTCCACAATCG
* * *
202363 GGGATACTCCAACCCCAATA-TTTCTGAGGGGATACTCTAACCCT-AGCTTTATTTCCAAAACAT
1 GGGATACTCCAACCCCATTATTTTC-GA-GGGATACTCTAACCTTGA-TTTTATTTCCAAAACAT
* * *
202426 CAATTTTCCACAATCGGGGGGATACTCCGACCCTCTTATTT-TCAAGGGGATACTCCAACCCC-G
63 CAATTTTCCACAATC--GGGGATACTCCAACCCTGTTATTTCTGAA-GGGATACTCCAACCCCAG
202489 TTTT
125 TTTT
202493 TAACTCCAAA
Statistics
Matches: 359, Mismatches: 70, Indels: 32
0.78 0.15 0.07
Matches are distributed among these distances:
155 23 0.06
156 20 0.06
157 189 0.53
158 45 0.13
159 5 0.01
160 72 0.20
161 5 0.01
ACGTcount: A:0.28, C:0.25, G:0.13, T:0.34
Consensus pattern (157 bp):
GGGATACTCCAACCCCATTATTTTCGAGGGATACTCTAACCTTGATTTTATTTCCAAAACATCAA
TTTTCCACAATCGGGGATACTCCAACCCTGTTATTTCTGAAGGGATACTCCAACCCCAGTTTTAT
TTTCAAAACATCAATTTTCCACAATCG
Found at i:202386 original size:28 final size:28
Alignment explanation
Indices: 202350--202405 Score: 67
Period size: 28 Copynumber: 2.0 Consensus size: 28
202340 TCCAAAATAT
* *
202350 CAATTTTTCACCGGGGATACTCCAACCC
1 CAATATTTCACAGGGGATACTCCAACCC
** *
202378 CAATATTTCTGAGGGGATACTCTAACCC
1 CAATATTTCACAGGGGATACTCCAACCC
202406 TAGCTTTATT
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
28 23 1.00
ACGTcount: A:0.27, C:0.30, G:0.16, T:0.27
Consensus pattern (28 bp):
CAATATTTCACAGGGGATACTCCAACCC
Found at i:202506 original size:236 final size:235
Alignment explanation
Indices: 201891--202506 Score: 641
Period size: 236 Copynumber: 2.6 Consensus size: 235
201881 TATTTCCAAA
* * * * *
201891 GGGATACTCCAACCCCTTTATTTTTGAAGAGATACTCTAA-CCTTGATTTTATTTCCAAAACATC
1 GGGATACTCCAACCCCATTATTTCTGAGGGGATACTCTAACCCTAG-TTTTATTTCCAAAACATC
* * *
201955 GATTTTCCATAATCGGGGATACTCCAACCCCATTATTTCCGAA-GGGATACTCCAA-CCCGAGTT
65 GATTTTCCACAATCGGGGATACTCCAACCCC-TTATTTTC-AAGGGGATACTCCAACCCCGATTT
* * * * * *
202018 TTATTTTCAAAACACCAATTTTCCACAATCGGAGATACTCCAACCCCATTATTTTCGATGGGATA
128 TTATTTCCAAAATATCAATTTTCCACAATCGGAGATACTCCAACCCCATTATTTTCAAAGGGACA
**
202083 CTCCAACCTTGGTTTTTTTCCAAAACACCAATTTTCCACCATCG
193 CTCCAACCCCGGTTTTTTTCCAAAACACCAATTTTCCACCA-CG
* ** * * * * *
202127 AGGATACTCCAACCCTGTTATTTCTGAGAGAATACTCTAACCCCAGTTTTATTTCTAAAACATTG
1 GGGATACTCCAACCCCATTATTTCTGAGGGGATACTCTAACCCTAGTTTTATTTCCAAAACATCG
* * ** * * * *
202192 ATTTTCCACAATCGGGGATACTCTAATCCCATTATTTTTGAGGGAATACTCTATCCTCGATTTTT
66 ATTTTCCACAATCGGGGATACTCCAA-CCCCTTATTTTCAAGGGGATACTCCAACCCCGA-TTTT
* * **** * * **
202257 TATTTCTAAAATATCGATTTTTTGTAATTGGGGATACTCCAACCCTGTTATTTTCAAAGGGACAC
129 TATTTCCAAAATATCAATTTTCCACAATCGGAGATACTCCAACCCCATTATTTTCAAAGGGACAC
* * *
202322 TCCAACCCCGGTTTTATTTCCAAAATATCAATTTTTCA-C-CG
194 TCCAACCCCGGTTTT-TTTCCAAAACACCAATTTTCCACCACG
* * *
202363 GGGATACTCCAACCCCAATATTTCTGAGGGGATACTCTAACCCTAGCTTTATTTCCAAAACATCA
1 GGGATACTCCAACCCCATTATTTCTGAGGGGATACTCTAACCCTAGTTTTATTTCCAAAACATCG
*
202428 ATTTTCCACAATCGGGGGGATACTCCGACCCTCTTATTTTCAAGGGGATACTCCAACCCCG-TTT
66 ATTTTCCACAATC--GGGGATACTCCAACCC-CTTATTTTCAAGGGGATACTCCAACCCCGATTT
**
202492 TTAACTCCAAAATAT
128 TTATTTCCAAAATAT
202507 TAAATTTTTC
Statistics
Matches: 304, Mismatches: 67, Indels: 18
0.78 0.17 0.05
Matches are distributed among these distances:
235 1 0.00
236 172 0.57
237 13 0.04
238 99 0.33
239 19 0.06
ACGTcount: A:0.28, C:0.25, G:0.13, T:0.33
Consensus pattern (235 bp):
GGGATACTCCAACCCCATTATTTCTGAGGGGATACTCTAACCCTAGTTTTATTTCCAAAACATCG
ATTTTCCACAATCGGGGATACTCCAACCCCTTATTTTCAAGGGGATACTCCAACCCCGATTTTTA
TTTCCAAAATATCAATTTTCCACAATCGGAGATACTCCAACCCCATTATTTTCAAAGGGACACTC
CAACCCCGGTTTTTTTCCAAAACACCAATTTTCCACCACG
Found at i:204208 original size:13 final size:13
Alignment explanation
Indices: 204190--204214 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
204180 TTTTACAATT
204190 TGTATCGATACAA
1 TGTATCGATACAA
204203 TGTATCGATACA
1 TGTATCGATACA
204215 TAAGTTTTGC
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:208416 original size:21 final size:22
Alignment explanation
Indices: 208390--208433 Score: 63
Period size: 21 Copynumber: 2.0 Consensus size: 22
208380 AAAAAACCCG
*
208390 ACATTGTATCGATACAA-GGGC
1 ACATTGTATCGATAAAATGGGC
*
208411 ACATTGTATTGATAAAATGGGC
1 ACATTGTATCGATAAAATGGGC
208433 A
1 A
208434 TTGTACTGAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
21 15 0.75
22 5 0.25
ACGTcount: A:0.36, C:0.14, G:0.23, T:0.27
Consensus pattern (22 bp):
ACATTGTATCGATAAAATGGGC
Found at i:212652 original size:322 final size:322
Alignment explanation
Indices: 212059--213601 Score: 1401
Period size: 322 Copynumber: 4.8 Consensus size: 322
212049 GTAGAATGAG
** * *
212059 TAATATACTCTTAATAGATGCATAACATAATTATGTTAGAGTGTTATAATTAT-AAAAGCATTCT
1 TAATATACTCTTAATAGACCCATAACATAATTATGTTAGAGTGTTATAATTATGAGAA-CACTCT
* * * * * * ** * * * * *
212123 CGATAGGATCTACTTATAT-ACATATGAAGTTTATC-CGTTTATAGGAGCTTAAGGGCTTGGCTT
65 CAATAGGATCCACCTATATGA-GTGTGAAGTGTGGCAC-TTTCTAGAAGCTCAAAGGCTTGGCTC
* * * * * * *
212186 TGATAGCATTTATG-AAA-AGAAGACAGACACATAGG-CATAAT-ATGTCCCTAAATACTGATGC
128 TAACAGCACTCATGAAAAGAGAACACAAACACAT-GGCCATAATCATGTCCCTAAATACTGGTGC
* * * * * *
212247 ATTAACTGGTGATGAAATCATTGTGGGAGATGTGCTCAGTTAACTAAATAAAATAGCTAGTTCAA
192 ATTAACTGGTGATGAAATCATTGTGTGAGATGTGTTTAGTTAACCAAATAGAATAGCTGGTTCAA
* * * *
212312 AGCTTATTCTACCATGTGATTTTAATTAATAGACCCTTAACATAATAATAAACCTATATGATCCA
257 AGCTTAATCTACCATGTGATTTTAGTTAATAGACCCATAACATAATAATAAACCTATATGGTCCA
212377 T
322 T
* * * *
212378 TAATATACTCTTAATAGACCCATAACCTAATTATGTTACAGTGTTAAAATTATGAGAACATTCTC
1 TAATATACTCTTAATAGACCCATAACATAATTATGTTAGAGTGTTATAATTATGAGAACACTCTC
* * * * * *
212443 GATGGGATCCACTTATATGAGTGTGAAGTGTGACAAC-CTCTAGAAGCTCAAAGGCTTGGTTCTA
66 AATAGGATCCACCTATATGAGTGTGAAGTGTGGC-ACTTTCTAGAAGCTCAAAGGCTTGGCTCTA
* * ***
212507 ACAGCACTCATGAAAATAGGACACAAACACATGGCCATAATCATGTCCCCCCATACTGGTGCATT
130 ACAGCACTCATGAAAAGAGAACACAAACACATGGCCATAATCATGTCCCTAAATACTGGTGCATT
* * * * * **
212572 AATTGGTGATAAAATCATTATATAAGATGTGTTTAGTTAAATAAATAGAATAGCTGGTTCAAAGC
195 AACTGGTGATGAAATCATTGTGTGAGATGTGTTTAGTTAACCAAATAGAATAGCTGGTTCAAAGC
* * *
212637 TTAATCTACCATGTGATTTTAGTTGATAGACCCATAACATAATAATTAACCTATATGGCCCAT
260 TTAATCTACCATGTGATTTTAGTTAATAGACCCATAACATAATAATAAACCTATATGGTCCAT
* * * * ** * *
212700 TAATATACTCTTTATGGGCCTATAACATACCTATGTTAGAGTGTTATAGTTACT-AGAACACTTT
1 TAATATACTCTTAATAGACCCATAACATAATTATGTTAGAGTGTTATAATTA-TGAGAACACTCT
* ** * * * *
212764 CGATAGGATCCA-CT-TAT--GTGTGAAGTGTGGTTGCTTTCAAG-AGCT-TAGGGCTTAGCTCT
65 CAATAGGATCCACCTATATGAGTGTGAAGTGTGG-CACTTTCTAGAAGCTCAAAGGCTTGGCTCT
* * * * **
212823 AACAACACTCATGAAAAGAAAACA-AAGACACATGGCCATAATCATTTTCCCTAGATACTAATGC
129 AACAGCACTCATGAAAAGAGAACACAA-ACACATGGCCATAATCA-TGTCCCTAAATACTGGTGC
* * * * *
212887 ATTGATTAGTGATGAAATCATTGTGTGAGATGTGTTTAGTTAGCCAAATAGAATAGTTGGTTCAA
192 ATTAACTGGTGATGAAATCATTGTGTGAGATGTGTTTAGTTAACCAAATAGAATAGCTGGTTCAA
* * * * * * * * * *
212952 TGCTTAGTCCACCATATGATTTCAGTTAATGGACCTATAACATAATAATAGGACTTATATGGTCA
257 AGCTTAATCTACCATGTGATTTTAGTTAATAGACCCATAACATAATAATA-AACCTATATGGTCC
213017 AT
321 AT
* * * * *
213019 TAATATACTCTTAGTGGACCCATAA-ATTAGCTAAATGTTAGAGTGTTATAATTACGAGAACACT
1 TAATATACTCTTAATAGACCCATAACA-TA-AT-TATGTTAGAGTGTTATAATTATGAGAACACT
* * * *
213083 CTTAATAGGATCTACCTATATGAGTATGAAGTGTGGTCACTTTCTAGAAGCTCAAGGGCTTGGCT
63 CTCAATAGGATCCACCTATATGAGTGTGAAGTGTGG-CACTTTCTAGAAGCTCAAAGGCTTGGCT
* * * * * ** * * *
213148 CTAATAGTACTTATGAAAATAG--GACAAACTGAAGGACATAATCATGTCTCC-AAATATTGGTG
127 CTAACAGCACTCATGAAAAGAGAACACAAACACATGGCCATAATCATGTC-CCTAAATACTGGTG
** * * *
213210 CATTGAA-TAATGATGAAATCATTATGTGAAATGTGTTTAGTTAACC-AATA-AATAGCTAGTTC
191 CATT-AACTGGTGATGAAATCATTGTGTGAGATGTGTTTAGTTAACCAAATAGAATAGCTGGTTC
* * ** ** * *
213272 AAAGCTTAATCTACCATGTGATTTTGGTTAATGGAGGCATAACATAATAATGGACCTTTAGGGTC
255 AAAGCTTAATCTACCATGTGATTTTAGTTAATAGACCCATAACATAATAATAAACCTATATGGTC
*
213337 TAT
320 CAT
* *
213340 TAATATACTCTTAATAGACCTATAACATAATTATGTTAGAGTGTTATAGTTATG-GAAACACTCT
1 TAATATACTCTTAATAGACCCATAACATAATTATGTTAGAGTGTTATAATTATGAG-AACACTCT
* ** * * * * *
213404 CAATGGGATATACCTATATGAATGTGATGTATGGCCTCTTTCTAGAAGCTC-AAGGCTTGGCTTT
65 CAATAGGATCCACCTATATGAGTGTGAAGTGTGG-CACTTTCTAGAAGCTCAAAGGCTTGGCTCT
* * * * *
213468 AATAGCACTCATGAAAAGAGAACACAAACACATGGCCACAATTATGTCCCTAGATACTAGTGCAT
129 AACAGCACTCATGAAAAGAGAACACAAACACATGGCCATAATCATGTCCCTAAATACTGGTGCAT
* * * * *
213533 TGACTGCTGATGAAATCATTGTGTGAGATGT-TTTCAATTAACCGAATAGAATAGTTGGTTCAAA
194 TAACTGGTGATGAAATCATTGTGTGAGATGTGTTT-AGTTAACCAAATAGAATAGCTGGTTCAAA
213597 GCTTA
258 GCTTA
213602 GTCTGCTATG
Statistics
Matches: 989, Mismatches: 199, Indels: 69
0.79 0.16 0.05
Matches are distributed among these distances:
316 2 0.00
317 47 0.05
318 156 0.16
319 223 0.23
320 75 0.08
321 97 0.10
322 263 0.27
323 8 0.01
324 49 0.05
325 37 0.04
326 6 0.01
327 26 0.03
ACGTcount: A:0.35, C:0.15, G:0.18, T:0.32
Consensus pattern (322 bp):
TAATATACTCTTAATAGACCCATAACATAATTATGTTAGAGTGTTATAATTATGAGAACACTCTC
AATAGGATCCACCTATATGAGTGTGAAGTGTGGCACTTTCTAGAAGCTCAAAGGCTTGGCTCTAA
CAGCACTCATGAAAAGAGAACACAAACACATGGCCATAATCATGTCCCTAAATACTGGTGCATTA
ACTGGTGATGAAATCATTGTGTGAGATGTGTTTAGTTAACCAAATAGAATAGCTGGTTCAAAGCT
TAATCTACCATGTGATTTTAGTTAATAGACCCATAACATAATAATAAACCTATATGGTCCAT
Found at i:213287 original size:640 final size:640
Alignment explanation
Indices: 212197--213604 Score: 1601
Period size: 640 Copynumber: 2.2 Consensus size: 640
212187 GATAGCATTT
* * * *
212197 ATGAAAAGAAGAC--AGACACATAGG-CATAATATGTCCCTAAATACTGATGCATTAACTGGTGA
1 ATGAAAAGAAAACAAAGACACAT-GGCCATAATATGTCCCTAGATACTAATGCATTGACT-GTGA
* * * * * * * * *
212259 TGAAATCATTGTGGGAGATGTGCTCAGTTAACTAAATAAAATAGCTAGTTCAAAGCTTATTCTAC
64 TGAAATCATTGTGTGAGATGTGTTTAGTTAACCAAATAGAATAGTTGGTTCAAAGCTTAGTCCAC
* * *
212324 CATGTGATTTTAATTAATAGACCCTTAACATAATAATAAACCTATATGATCCATTAATATACTCT
129 CATATGATTTCAATTAATAGACCCTTAACATAATAATAAACCTATATGATCAATTAATATACTCT
* * * * * *
212389 TAATAGACCCATAACCTAATTATGTTACAGTGTTAAAATTATGAGAACATTCTCGATGGGATCCA
194 TAATAGACCCATAAACTAATAATGTTACAGTGTTAAAATTACGAGAACACTCTCAATAGGATCCA
* * *
212454 CTTATATGAGTGTGAAGTGTGACAACCTCTAGAAGCTCAAAGGCTTGGTTCTAACAGCACTCATG
259 CCTATATGAGTATGAAGTGTGACAACCTCTAGAAGCTCAAAGGCTTGGCTCTAACAGCACTCATG
* * ** **
212519 AAAATAGGACACAAACACATGGCCATAATCATGTCCCCCCATACTGGTGCATTAATTGGTGATAA
324 AAAATAGGA-ACAAACACAAGGACATAATCATGTCCCCAAATACTGGTGCATTAATTAATGATAA
* *
212584 AATCATTATATAAGATGTGTTTAGTTAAATAAATAGAATAGCTGGTTCAAAGCTTAATCTACCAT
388 AATCATTATATAAGATGTGTTTAGTTAAACAAATAGAATAGCTAGTTCAAAGCTTAATCTACCAT
* * * *
212649 GTGATTTTAGTTGATAGACCCATAACATAATAATTAACCTATATGGCCCATTAATATACTCTTTA
453 GTGATTTTAGTTAATAGACCCATAACATAATAATGAACCTATAGGGCCCATTAATATACTCTTAA
* * * * * *
212714 TGGGCCTATAACATACCTATGTTAGAGTGTTATAGTTACTAG-AACACTTTCGATAGGATCCA-C
518 TAGACCTATAACATAACTATGTTAGAGTGTTATAGTTA-TAGAAACACTCTCAATAGGATACACC
* * * *
212777 T-TATG-TGTGAAGTGTGG-TTGCTTTCAAG-AGCTTAGGGCTTAGCTCTAACAACACTC
582 TATATGATGTGAAGTATGGCCT-CTTTCAAGAAGCTCAAGGCTTAGCTCTAACAACACTC
* *
212833 ATGAAAAGAAAACAAAGACACATGGCCATAATCATTTTCCCTAGATACTAATGCATTGATTAGTG
1 ATGAAAAGAAAACAAAGACACATGGCCATAAT-A-TGTCCCTAGATACTAATGCATTGACT-GTG
* *
212898 ATGAAATCATTGTGTGAGATGTGTTTAGTTAGCCAAATAGAATAGTTGGTTCAATGCTTAGTCCA
63 ATGAAATCATTGTGTGAGATGTGTTTAGTTAACCAAATAGAATAGTTGGTTCAAAGCTTAGTCCA
* * * * *
212963 CCATATGATTTCAGTTAATGGA-CCTATAACATAATAATAGGACTTATATGGTCAATTAATATAC
128 CCATATGATTTCAATTAATAGACCCT-TAACATAATAATA-AACCTATATGATCAATTAATATAC
* * * * * * *
213027 TCTTAGTGGACCCATAAATTAGCTAAATGTTAGAGTGTTATAATTACGAGAACACTCTTAATAGG
191 TCTTAATAGACCCATAAACTA-AT-AATGTTACAGTGTTAAAATTACGAGAACACTCTCAATAGG
* * * * * *
213092 ATCTACCTATATGAGTATGAAGTGTGGTC-ACTTTCTAGAAGCTCAAGGGCTTGGCTCTAATAGT
254 ATCCACCTATATGAGTATGAAGTGT-GACAAC-CTCTAGAAGCTCAAAGGCTTGGCTCTAACAGC
* ** * *
213156 ACTTATGAAAATAGG-ACAAACTGAAGGACATAATCATGTCTCCAAATATTGGTGCATTGAA-TA
317 ACTCATGAAAATAGGAACAAACACAAGGACATAATCATGTCCCCAAATACTGGTGCATT-AATTA
* * *
213219 ATGATGAAATCATTATGTGAA-ATGTGTTTAGTT-AACCAATA-AATAGCTAGTTCAAAGCTTAA
381 ATGATAAAATCATTATAT-AAGATGTGTTTAGTTAAACAAATAGAATAGCTAGTTCAAAGCTTAA
* * ** * * * *
213281 TCTACCATGTGATTTTGGTTAATGGAGGCATAACATAATAATGGACCTTTAGGGTCTATTAATAT
445 TCTACCATGTGATTTTAGTTAATAGACCCATAACATAATAATGAACCTATAGGGCCCATTAATAT
* * *
213346 ACTCTTAATAGACCTATAACATAATTATGTTAGAGTGTTATAGTTATGGAAACACTCTCAATGGG
510 ACTCTTAATAGACCTATAACATAACTATGTTAGAGTGTTATAGTTATAGAAACACTCTCAATAGG
* * * * * * *
213411 ATATACCTATATGAATGTGATGTATGGCCTCTTTCTAGAAGCTCAAGGCTTGGCTTTAATAGCAC
575 ATACACCTATATG-ATGTGAAGTATGGCCTCTTTCAAGAAGCTCAAGGCTTAGCTCTAACAACAC
213476 TC
639 TC
* * *
213478 ATGAAAAGAGAACACAA-ACACATGGCCACAATTATGTCCCTAGATACTAGTGCATTGACTGCTG
1 ATGAAAAGAAAACA-AAGACACATGGCCATAA-TATGTCCCTAGATACTAATGCATTGACTG-TG
* *
213542 ATGAAATCATTGTGTGAGATGT-TTTCAATTAACCGAATAGAATAGTTGGTTCAAAGCTTAGTC
63 ATGAAATCATTGTGTGAGATGTGTTT-AGTTAACCAAATAGAATAGTTGGTTCAAAGCTTAGTC
213605 TGCTATGCAA
Statistics
Matches: 643, Mismatches: 105, Indels: 40
0.82 0.13 0.05
Matches are distributed among these distances:
636 12 0.02
637 2 0.00
638 14 0.02
639 6 0.01
640 239 0.37
641 45 0.07
642 68 0.11
643 64 0.10
644 140 0.22
645 50 0.08
646 3 0.00
ACGTcount: A:0.35, C:0.16, G:0.18, T:0.32
Consensus pattern (640 bp):
ATGAAAAGAAAACAAAGACACATGGCCATAATATGTCCCTAGATACTAATGCATTGACTGTGATG
AAATCATTGTGTGAGATGTGTTTAGTTAACCAAATAGAATAGTTGGTTCAAAGCTTAGTCCACCA
TATGATTTCAATTAATAGACCCTTAACATAATAATAAACCTATATGATCAATTAATATACTCTTA
ATAGACCCATAAACTAATAATGTTACAGTGTTAAAATTACGAGAACACTCTCAATAGGATCCACC
TATATGAGTATGAAGTGTGACAACCTCTAGAAGCTCAAAGGCTTGGCTCTAACAGCACTCATGAA
AATAGGAACAAACACAAGGACATAATCATGTCCCCAAATACTGGTGCATTAATTAATGATAAAAT
CATTATATAAGATGTGTTTAGTTAAACAAATAGAATAGCTAGTTCAAAGCTTAATCTACCATGTG
ATTTTAGTTAATAGACCCATAACATAATAATGAACCTATAGGGCCCATTAATATACTCTTAATAG
ACCTATAACATAACTATGTTAGAGTGTTATAGTTATAGAAACACTCTCAATAGGATACACCTATA
TGATGTGAAGTATGGCCTCTTTCAAGAAGCTCAAGGCTTAGCTCTAACAACACTC
Found at i:231619 original size:21 final size:20
Alignment explanation
Indices: 231573--231619 Score: 51
Period size: 21 Copynumber: 2.3 Consensus size: 20
231563 TTTGAAGGTG
*
231573 ATTTTGATGAAAAACGATGT
1 ATTTTGATGAAAAACGAAGT
*
231593 AATTTGAAGTGAAAAAC-AAGT
1 ATTTTG-A-TGAAAAACGAAGT
231614 ATTTTG
1 ATTTTG
231620 CAAAAGATTT
Statistics
Matches: 22, Mismatches: 3, Indels: 3
0.79 0.11 0.11
Matches are distributed among these distances:
20 5 0.23
21 9 0.41
22 8 0.36
ACGTcount: A:0.43, C:0.04, G:0.19, T:0.34
Consensus pattern (20 bp):
ATTTTGATGAAAAACGAAGT
Found at i:231759 original size:13 final size:13
Alignment explanation
Indices: 231741--231779 Score: 69
Period size: 13 Copynumber: 3.0 Consensus size: 13
231731 ATAATCCCCC
*
231741 TGTATCGATACAG
1 TGTATCGATACAA
231754 TGTATCGATACAA
1 TGTATCGATACAA
231767 TGTATCGATACAA
1 TGTATCGATACAA
231780 AGAATGATAT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 25 1.00
ACGTcount: A:0.36, C:0.15, G:0.18, T:0.31
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:243061 original size:21 final size:20
Alignment explanation
Indices: 243017--243070 Score: 74
Period size: 20 Copynumber: 2.6 Consensus size: 20
243007 TTAAAAAAAT
243017 TGTATCGATACATAAGTGAA
1 TGTATCGATACATAAGTGAA
243037 TGTATCGATACATACTAGT-AA
1 TGTATCGATACATA--AGTGAA
*
243058 TGTATCAATACAT
1 TGTATCGATACAT
243071 CACTCATTCT
Statistics
Matches: 31, Mismatches: 1, Indels: 3
0.89 0.03 0.09
Matches are distributed among these distances:
20 14 0.45
21 14 0.45
22 3 0.10
ACGTcount: A:0.39, C:0.13, G:0.15, T:0.33
Consensus pattern (20 bp):
TGTATCGATACATAAGTGAA
Found at i:244938 original size:164 final size:165
Alignment explanation
Indices: 244736--245581 Score: 768
Period size: 164 Copynumber: 5.1 Consensus size: 165
244726 TTTTCTTCGT
** * * * * *
244736 AAATTTTTTCGAGATGATTTTTCTTAATTTTTAATTTTTACAATTCATCAAATATCATCATTTAT
1 AAATTTTTTCGAGGGGATTTTTCTCAGTTTTCAATTTTTAAAATTCATCAAATATTATCATTTAT
* * * * *
244801 TTTATATTAATTTATTTTTGAAAGATTCATTTATTTTCTTGAGTTTTTGCTTTTTTCCTTGAAAT
66 TTTATATTAATTTAGTTTTCAAAAATTCATTCATTTTCATGAGTTTTTGCTTTTTTCCTTGAAAT
* * * * * *
244866 TCTTTTTTTTTCGAAATACAGTGTTTT-TACTTCT
131 TCCTCTTTTTTCGAAATACGGTATTTTCTACTCCG
*
244900 TAATTTTTTCGAGGGGATTTTTCTCAGTTTTCAATTTTTAAAATTCATCAAATATTATCATTTAT
1 AAATTTTTTCGAGGGGATTTTTCTCAGTTTTCAATTTTTAAAATTCATCAAATATTATCATTTAT
* * *
244965 TTTATATAAATTTAGTTTTCAAAAATTCATTCATTTTCATTCA-TTTTT-CATTTTTTTACTTGA
66 TTTATATTAATTTAGTTTTCAAAAATTCATTCATTTTCA-TGAGTTTTTGC--TTTTTTCCTTGA
**
245028 AATT-CT-TTTTTTTAAAATACGGTATTTTCTACTCCG
128 AATTCCTCTTTTTTCGAAATACGGTATTTTCTACTCCG
* ** * ** * *
245064 TAATTTTTTTTAGAGGATTTTTCTTGGTTTTCAAATTTTAAAATTCATAAAATATTATCATTTAT
1 AAATTTTTTCGAGGGGATTTTTCTCAGTTTTCAATTTTTAAAATTCATCAAATATTATCATTTAT
* * * ** * *
245129 TTTATATTAATCTAGTTTTCAAAAATTTATTCATTTTCATAAGTTTTTTATTTTTTTCTCGAAAT
66 TTTATATTAATTTAGTTTTCAAAAATTCATTCATTTTCATGAGTTTTTGCTTTTTTCCTTGAAAT
** *
245194 TCCTCTTTTCGCGAAATATGGTATTTT-TAACTCCG
131 TCCTCTTTTTTCGAAATACGGTATTTTCT-ACTCCG
* * * *
245229 AAATTTTTTCGAGGGGATTTTTCTCTGTTTTCAACTTTT-AAATTCATCAAATATTATTATTTAC
1 AAATTTTTTCGAGGGGATTTTTCTCAGTTTTCAATTTTTAAAATTCATCAAATATTATCATTTAT
* * * *
245293 TTCATAGTAATTCAGTTTTCAAAAATAT-ATTAATTTTCATGAGTTTTTTG-TTTTTTCCTTGAA
66 TTTATATTAATTTAGTTTTCAAAAAT-TCATTCATTTTCATGAG-TTTTTGCTTTTTTCCTTGAA
* * * * * *
245356 ACTCCACTTTTTCCTAAATACGATGTTTTCTACTCCG
129 ATTCCTCTTTTTTCGAAATACGGTATTTTCTACTCCG
* * * * *
245393 TAAATTTTTTCGATGGGATTTTTCTCGGTTTTCAATTTTTAGAATTCATCAAACATCATCATTTG
1 -AAATTTTTTCGAGGGGATTTTTCTCAGTTTTCAATTTTTAAAATTCATCAAATATTATCATTT-
* * * * * * * * **
245458 A-TTCATATGAATTCT-CTTTT-AAGAAATTAATTCATTTTTATCAGTTTTGGATTTTTTTGTTG
64 ATTTTATATTAATT-TAGTTTTCAA-AAATTCATTCATTTTCATGAGTTTTTGCTTTTTTCCTTG
* * * * *
245520 AAATTTCC-CTTTTCTCAAAAAATC-G-AGTTTTCTATTCCAT
127 AAA-TTCCTCTTTTTTCGAAATA-CGGTA-TTTTCTACTCC-G
*
245560 AAATATTTTCGAGGGGATTTTT
1 AAATTTTTTCGAGGGGATTTTT
245582 TTTGGTCTAA
Statistics
Matches: 562, Mismatches: 97, Indels: 44
0.80 0.14 0.06
Matches are distributed among these distances:
163 35 0.06
164 298 0.53
165 123 0.22
166 101 0.18
167 5 0.01
ACGTcount: A:0.27, C:0.12, G:0.09, T:0.52
Consensus pattern (165 bp):
AAATTTTTTCGAGGGGATTTTTCTCAGTTTTCAATTTTTAAAATTCATCAAATATTATCATTTAT
TTTATATTAATTTAGTTTTCAAAAATTCATTCATTTTCATGAGTTTTTGCTTTTTTCCTTGAAAT
TCCTCTTTTTTCGAAATACGGTATTTTCTACTCCG
Found at i:246184 original size:15 final size:14
Alignment explanation
Indices: 246160--246196 Score: 51
Period size: 13 Copynumber: 2.8 Consensus size: 14
246150 ACAGCAAGTG
246160 AGAAAAAAAAAAGA
1 AGAAAAAAAAAAGA
*
246174 AG-AAGAAAAAAG-
1 AGAAAAAAAAAAGA
246186 AGAAAAAAAAA
1 AGAAAAAAAAA
246197 GAAAAATCCA
Statistics
Matches: 20, Mismatches: 2, Indels: 3
0.80 0.08 0.12
Matches are distributed among these distances:
12 2 0.10
13 16 0.80
14 2 0.10
ACGTcount: A:0.84, C:0.00, G:0.16, T:0.00
Consensus pattern (14 bp):
AGAAAAAAAAAAGA
Found at i:246189 original size:12 final size:12
Alignment explanation
Indices: 246163--246202 Score: 55
Period size: 12 Copynumber: 3.3 Consensus size: 12
246153 GCAAGTGAGA
246163 AAAAAAAAAGAAG
1 AAAAAAAAAG-AG
*
246176 AAGAAAAAAGAG
1 AAAAAAAAAGAG
246188 AAAAAAAAAGA-
1 AAAAAAAAAGAG
246199 AAAA
1 AAAA
246203 TCCAAGCAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
11 4 0.16
12 12 0.48
13 9 0.36
ACGTcount: A:0.85, C:0.00, G:0.15, T:0.00
Consensus pattern (12 bp):
AAAAAAAAAGAG
Found at i:246603 original size:19 final size:18
Alignment explanation
Indices: 246578--246642 Score: 77
Period size: 19 Copynumber: 3.8 Consensus size: 18
246568 ATTTCAATGA
246578 TTTGTATCGATACATAAG
1 TTTGTATCGATACATAAG
246596 TGTTGTATCGATAC--AA-
1 T-TTGTATCGATACATAAG
246612 --TGTATCGATACATAAG
1 TTTGTATCGATACATAAG
246628 TTTTGTATCGATACA
1 -TTTGTATCGATACA
246643 ATGTATCGCT
Statistics
Matches: 40, Mismatches: 0, Indels: 13
0.75 0.00 0.25
Matches are distributed among these distances:
13 11 0.28
15 2 0.05
17 2 0.05
18 1 0.03
19 24 0.60
ACGTcount: A:0.32, C:0.12, G:0.17, T:0.38
Consensus pattern (18 bp):
TTTGTATCGATACATAAG
Found at i:246617 original size:13 final size:13
Alignment explanation
Indices: 246599--246623 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
246589 ACATAAGTGT
246599 TGTATCGATACAA
1 TGTATCGATACAA
246612 TGTATCGATACA
1 TGTATCGATACA
246624 TAAGTTTTGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:246621 original size:32 final size:32
Alignment explanation
Indices: 246580--246650 Score: 133
Period size: 32 Copynumber: 2.2 Consensus size: 32
246570 TTCAATGATT
246580 TGTATCGATACATAAGTGTTGTATCGATACAA
1 TGTATCGATACATAAGTGTTGTATCGATACAA
*
246612 TGTATCGATACATAAGTTTTGTATCGATACAA
1 TGTATCGATACATAAGTGTTGTATCGATACAA
246644 TGTATCG
1 TGTATCG
246651 CTACGAAGCT
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 38 1.00
ACGTcount: A:0.32, C:0.13, G:0.18, T:0.37
Consensus pattern (32 bp):
TGTATCGATACATAAGTGTTGTATCGATACAA
Found at i:246713 original size:13 final size:13
Alignment explanation
Indices: 246695--246719 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
246685 ATTACTCAAA
246695 TGTATCGATACAT
1 TGTATCGATACAT
246708 TGTATCGATACA
1 TGTATCGATACA
246720 CTGATCTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:250058 original size:23 final size:23
Alignment explanation
Indices: 250032--250080 Score: 98
Period size: 23 Copynumber: 2.1 Consensus size: 23
250022 ATGGGAGTAA
250032 ACAAAGGTTTGATTGTTTCCCCG
1 ACAAAGGTTTGATTGTTTCCCCG
250055 ACAAAGGTTTGATTGTTTCCCCG
1 ACAAAGGTTTGATTGTTTCCCCG
250078 ACA
1 ACA
250081 CACACCATGC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.24, C:0.22, G:0.20, T:0.33
Consensus pattern (23 bp):
ACAAAGGTTTGATTGTTTCCCCG
Found at i:261936 original size:29 final size:29
Alignment explanation
Indices: 261895--262122 Score: 331
Period size: 29 Copynumber: 8.0 Consensus size: 29
261885 CATTCCTCAC
261895 CTTTT-CAAAGCCCACAAGTCAGTGGCAT
1 CTTTTCCAAAGCCCACAAGTCAGTGGCAT
261923 CTTTTCCAAAGCCCACAAGTCAGTGGCAT
1 CTTTTCCAAAGCCCACAAGTCAGTGGCAT
261952 CTTTTCCAAAGCCCACAAGTCAGTGGCAT
1 CTTTTCCAAAGCCCACAAGTCAGTGGCAT
*
261981 CTTTTCCAAAGCCCATAAGTCAGTGGCAT
1 CTTTTCCAAAGCCCACAAGTCAGTGGCAT
* * *
262010 TTTTTCTAAAGCCCATAAGTCAGTGGCAT
1 CTTTTCCAAAGCCCACAAGTCAGTGGCAT
*
262039 CTTTTCCAAAGCCCACAAGTTAGTGGCAAT
1 CTTTTCCAAAGCCCACAAGTCAGTGGC-AT
* * *
262069 C--TTCAAAAGCGCACAAGTCAGTGGTAT
1 CTTTTCCAAAGCCCACAAGTCAGTGGCAT
262096 -TCTTT-CAAAGCCCACAAGTCAGTGGCA
1 CT-TTTCCAAAGCCCACAAGTCAGTGGCA
262123 ACCTTCAAAA
Statistics
Matches: 181, Mismatches: 14, Indels: 10
0.88 0.07 0.05
Matches are distributed among these distances:
27 2 0.01
28 44 0.24
29 132 0.73
30 3 0.02
ACGTcount: A:0.29, C:0.27, G:0.18, T:0.26
Consensus pattern (29 bp):
CTTTTCCAAAGCCCACAAGTCAGTGGCAT
Found at i:262157 original size:56 final size:56
Alignment explanation
Indices: 261901--262160 Score: 177
Period size: 58 Copynumber: 4.6 Consensus size: 56
261891 TCACCTTTTC
* * * * * *
261901 AAAGCCCACAAGTCAGTGGC-ATCTTTTCCAAAGCCCACAAGTCAGTGGCATCTTTTCC
1 AAAGCACACAAGTCAGT-GCAACCCTTT-CAAAGCCCACAAGTCAGTGGCAAC-CTTCA
* * * * *** *
261959 AAAGCCCACAAGTCAGTGGC-ATCTTTTCCAAAGCCCATAAGTCAGTGGCATTTTTTCT
1 AAAGCACACAAGTCAGT-GCAACCCTTT-CAAAGCCCACAAGTCAGTGGCA-ACCTTCA
* * * * * *
262017 AAAGCCCATAAGTCAGTGGC-ATCTTTTCCAAAGCCCACAAGTTAGTGGCAATCTTCA
1 AAAGCACACAAGTCAGT-GCAACCCTTT-CAAAGCCCACAAGTCAGTGGCAACCTTCA
* ** **
262074 AAAGCGCACAAGTCAGTGGTATTCTTTCAAAGCCCACAAGTCAGTGGCAACCTTCA
1 AAAGCACACAAGTCAGTGCAACCCTTTCAAAGCCCACAAGTCAGTGGCAACCTTCA
*
262130 AAAGCACACAAGT-TGATGCAACCCTTTCAAA
1 AAAGCACACAAGTCAG-TGCAACCCTTTCAAA
262161 AGCCATGCAA
Statistics
Matches: 177, Mismatches: 22, Indels: 8
0.86 0.11 0.04
Matches are distributed among these distances:
55 1 0.01
56 51 0.29
57 24 0.14
58 100 0.56
59 1 0.01
ACGTcount: A:0.31, C:0.27, G:0.17, T:0.24
Consensus pattern (56 bp):
AAAGCACACAAGTCAGTGCAACCCTTTCAAAGCCCACAAGTCAGTGGCAACCTTCA
Found at i:262269 original size:50 final size:46
Alignment explanation
Indices: 262194--262632 Score: 197
Period size: 39 Copynumber: 9.8 Consensus size: 46
262184 TCTTCTAAGT
*
262194 CCAATATCGCTGGCCTTGAACCAGCATATTGGCACCTTTATCTTTAAAA
1 CCAATATCGCTGGCCTTGAATCAGCATATTGGCACC---ATCTTTAAAA
* **
262243 CCCAATATCGCTGGCCTTGAATCAGCATATT-G-A-CACCTTTAAGT
1 -CCAATATCGCTGGCCTTGAATCAGCATATTGGCACCATCTTTAAAA
* * *
262287 CCGATATCGTTGGCCTTGAATCAGCATATTGGCACCGGCATCTTTAAGA
1 CCAATATCGCTGGCCTTGAATCAGCATATTGGCA-C--CATCTTTAAAA
* * * * **
262336 CCAATGTTGCTGGCCTTGAATCAGTACATTGG---CA----TAAGC
1 CCAATATCGCTGGCCTTGAATCAGCATATTGGCACCATCTTTAAAA
* * * * * * **
262375 CCAATATCGCTGGCTTTGAATCGGCGTATTGGTACCTTGTTTTTAAGT
1 CCAATATCGCTGGCCTTGAATCAGCATATTGGCACC--ATCTTTAAAA
* * * * **
262423 CTAATGTCGCTGGCCTTGAATCAGCACACTGG---CA-C---AAGT
1 CCAATATCGCTGGCCTTGAATCAGCATATTGGCACCATCTTTAAAA
* *
262462 CCAATATCGTTGGCCTTGAATCAGCATATTGGCACCAGCATCTTTAAGA
1 CCAATATCGCTGGCCTTGAATCAGCATATTGGCA-C--CATCTTTAAAA
* * * **
262511 CCAATGTTGCTGGCCTTGAATCAGCACATTGG---CA----TAAGC
1 CCAATATCGCTGGCCTTGAATCAGCATATTGGCACCATCTTTAAAA
* * * * **
262550 CCAATATCGCTGGCTTTGAATCGGCGTATTGGCACCTTGTCTTTAAGT
1 CCAATATCGCTGGCCTTGAATCAGCATATTGGCACC--ATCTTTAAAA
* * *
262598 CCAATGTCGCTGGCCTTGAATCAGCACACTGGCAC
1 CCAATATCGCTGGCCTTGAATCAGCATATTGGCAC
262633 AAGTCCAATA
Statistics
Matches: 297, Mismatches: 58, Indels: 70
0.70 0.14 0.16
Matches are distributed among these distances:
39 90 0.30
42 2 0.01
43 32 0.11
44 8 0.03
45 4 0.01
46 1 0.00
47 1 0.00
48 63 0.21
49 67 0.23
50 29 0.10
ACGTcount: A:0.25, C:0.25, G:0.21, T:0.29
Consensus pattern (46 bp):
CCAATATCGCTGGCCTTGAATCAGCATATTGGCACCATCTTTAAAA
Found at i:262315 original size:22 final size:21
Alignment explanation
Indices: 262247--262315 Score: 50
Period size: 22 Copynumber: 3.2 Consensus size: 21
262237 TTAAAACCCA
262247 ATATCGCTGGCCTTGAATCAGC
1 ATATCG-TGGCCTTGAATCAGC
* *** * *
262269 ATATTGACACCTTTAAGTCCG-
1 ATATCGTGGCCTTGAA-TCAGC
262290 ATATCGTTGGCCTTGAATCAGC
1 ATATCG-TGGCCTTGAATCAGC
262312 ATAT
1 ATAT
262316 TGGCACCGGC
Statistics
Matches: 32, Mismatches: 12, Indels: 6
0.64 0.24 0.12
Matches are distributed among these distances:
21 14 0.44
22 18 0.56
ACGTcount: A:0.26, C:0.23, G:0.19, T:0.32
Consensus pattern (21 bp):
ATATCGTGGCCTTGAATCAGC
Found at i:262438 original size:87 final size:87
Alignment explanation
Indices: 262194--262670 Score: 535
Period size: 87 Copynumber: 5.4 Consensus size: 87
262184 TCTTCTAAGT
* * * *
262194 CCAATATCGCTGGCCTTGAACCAGCATATTGGCACCTTTATCTTTAAAACCCAATATCGCTGGCC
1 CCAATATCGCTGGCCTTGAATCAGCATATTGGCACC-TTGTCTTTAAGA-CCAATGTCGCTGGCC
* * * *
262259 TTGAATCAGCATATTGACACCTTTAAGT
64 TTGAATCAGCACACTGGCA-C---AAGC
* * * *
262287 CCGATATCGTTGGCCTTGAATCAGCATATTGGCACC-GGCATCTTTAAGACCAATGTTGCTGGCC
1 CCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTG--TCTTTAAGACCAATGTCGCTGGCC
* * *
262351 TTGAATCAGTACATTGGCATAAGC
64 TTGAATCAGCACACTGGCACAAGC
* * * * * * *
262375 CCAATATCGCTGGCTTTGAATCGGCGTATTGGTACCTTGTTTTTAAGTCTAATGTCGCTGGCCTT
1 CCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTGTCTTTAAGACCAATGTCGCTGGCCTT
*
262440 GAATCAGCACACTGGCACAAGT
66 GAATCAGCACACTGGCACAAGC
* * *
262462 CCAATATCGTTGGCCTTGAATCAGCATATTGGCACC-AGCATCTTTAAGACCAATGTTGCTGGCC
1 CCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTG--TCTTTAAGACCAATGTCGCTGGCC
* *
262526 TTGAATCAGCACATTGGCATAAGC
64 TTGAATCAGCACACTGGCACAAGC
* * * *
262550 CCAATATCGCTGGCTTTGAATCGGCGTATTGGCACCTTGTCTTTAAGTCCAATGTCGCTGGCCTT
1 CCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTGTCTTTAAGACCAATGTCGCTGGCCTT
*
262615 GAATCAGCACACTGGCACAAGT
66 GAATCAGCACACTGGCACAAGC
* *
262637 CCAATATCGTTGGCCGTGAATCAGCATATTGGCA
1 CCAATATCGCTGGCCTTGAATCAGCATATTGGCA
262671 TCTTTATCAC
Statistics
Matches: 322, Mismatches: 56, Indels: 18
0.81 0.14 0.05
Matches are distributed among these distances:
86 1 0.00
87 143 0.44
88 106 0.33
89 2 0.01
92 29 0.09
93 41 0.13
ACGTcount: A:0.25, C:0.25, G:0.21, T:0.29
Consensus pattern (87 bp):
CCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTGTCTTTAAGACCAATGTCGCTGGCCTT
GAATCAGCACACTGGCACAAGC
Found at i:262491 original size:175 final size:175
Alignment explanation
Indices: 262189--262670 Score: 739
Period size: 175 Copynumber: 2.7 Consensus size: 175
262179 CGTCTTCTTC
* * * * * * ** *
262189 TAAGTCCAATATCGCTGGCCTTGAACCAGCATATTGGCACCTTTATCTTTAAAACCCAATATCGC
1 TAAGCCCAATATCGCTGGCTTTGAATCGGCGTATTGGCACC-TTGTCTTT-AAGTCCAATGTCGC
* * * *
262254 TGGCCTTGAATCAGCATATTGACACCTTTAAGTCCGATATCGTTGGCCTTGAATCAGCATATTGG
64 TGGCCTTGAATCAGCACACTGGCA-C---AAGTCCAATATCGTTGGCCTTGAATCAGCATATTGG
* *
262319 CACCGGCATCTTTAAGACCAATGTTGCTGGCCTTGAATCAGTACATTGGCA
125 CACCAGCATCTTTAAGACCAATGTTGCTGGCCTTGAATCAGCACATTGGCA
* * *
262370 TAAGCCCAATATCGCTGGCTTTGAATCGGCGTATTGGTACCTTGTTTTTAAGTCTAATGTCGCTG
1 TAAGCCCAATATCGCTGGCTTTGAATCGGCGTATTGGCACCTTGTCTTTAAGTCCAATGTCGCTG
262435 GCCTTGAATCAGCACACTGGCACAAGTCCAATATCGTTGGCCTTGAATCAGCATATTGGCACCAG
66 GCCTTGAATCAGCACACTGGCACAAGTCCAATATCGTTGGCCTTGAATCAGCATATTGGCACCAG
262500 CATCTTTAAGACCAATGTTGCTGGCCTTGAATCAGCACATTGGCA
131 CATCTTTAAGACCAATGTTGCTGGCCTTGAATCAGCACATTGGCA
262545 TAAGCCCAATATCGCTGGCTTTGAATCGGCGTATTGGCACCTTGTCTTTAAGTCCAATGTCGCTG
1 TAAGCCCAATATCGCTGGCTTTGAATCGGCGTATTGGCACCTTGTCTTTAAGTCCAATGTCGCTG
*
262610 GCCTTGAATCAGCACACTGGCACAAGTCCAATATCGTTGGCCGTGAATCAGCATATTGGCA
66 GCCTTGAATCAGCACACTGGCACAAGTCCAATATCGTTGGCCTTGAATCAGCATATTGGCA
262671 TCTTTATCAC
Statistics
Matches: 279, Mismatches: 22, Indels: 6
0.91 0.07 0.02
Matches are distributed among these distances:
175 206 0.74
178 1 0.00
179 31 0.11
180 6 0.02
181 35 0.13
ACGTcount: A:0.25, C:0.25, G:0.21, T:0.29
Consensus pattern (175 bp):
TAAGCCCAATATCGCTGGCTTTGAATCGGCGTATTGGCACCTTGTCTTTAAGTCCAATGTCGCTG
GCCTTGAATCAGCACACTGGCACAAGTCCAATATCGTTGGCCTTGAATCAGCATATTGGCACCAG
CATCTTTAAGACCAATGTTGCTGGCCTTGAATCAGCACATTGGCA
Found at i:262878 original size:52 final size:52
Alignment explanation
Indices: 262693--262891 Score: 190
Period size: 52 Copynumber: 3.9 Consensus size: 52
262683 TTCTCACCTT
* * **
262693 CATCTTTAAGTCCAATATCGTTGGCCTTGAATCAGCGTATTGGCA-TCTTTA
1 CATCTTTAAGCCCAATATCGCTGGCCTTGAATCAGCACATTGGCATTCTTTA
* * * *
262744 -ACCTTTAAACCCAATGTCGCTGGCCTTGAATCAGGACATTGGCATTCTTCT-
1 CATCTTTAAGCCCAATATCGCTGGCCTTGAATCAGCACATTGGCATTCTT-TA
* * * * * * *
262795 CATCTTCAAGACTAATGTCGCTGACCGTGAATCAGCACATTGACATTCTTTA
1 CATCTTTAAGCCCAATATCGCTGGCCTTGAATCAGCACATTGGCATTCTTTA
* * *
262847 CATCTTTAAGCCCAATATCACTGGTCC-TGAATTAGCATATTGGCA
1 CATCTTTAAGCCCAATATCGCTGG-CCTTGAATCAGCACATTGGCA
262892 CCTTAATCAC
Statistics
Matches: 117, Mismatches: 26, Indels: 9
0.77 0.17 0.06
Matches are distributed among these distances:
50 36 0.31
51 5 0.04
52 74 0.63
53 2 0.02
ACGTcount: A:0.26, C:0.25, G:0.17, T:0.33
Consensus pattern (52 bp):
CATCTTTAAGCCCAATATCGCTGGCCTTGAATCAGCACATTGGCATTCTTTA
Found at i:263509 original size:19 final size:18
Alignment explanation
Indices: 263484--263548 Score: 77
Period size: 19 Copynumber: 3.8 Consensus size: 18
263474 ATTTCAACGA
263484 TTTGTATCGATACATAAG
1 TTTGTATCGATACATAAG
263502 TGTTGTATCGATAC--AA-
1 T-TTGTATCGATACATAAG
263518 --TGTATCGATACATAAG
1 TTTGTATCGATACATAAG
263534 TTTTGTATCGATACA
1 -TTTGTATCGATACA
263549 ATGTATCGCT
Statistics
Matches: 40, Mismatches: 0, Indels: 13
0.75 0.00 0.25
Matches are distributed among these distances:
13 11 0.28
15 2 0.05
17 2 0.05
18 1 0.03
19 24 0.60
ACGTcount: A:0.32, C:0.12, G:0.17, T:0.38
Consensus pattern (18 bp):
TTTGTATCGATACATAAG
Found at i:263522 original size:32 final size:32
Alignment explanation
Indices: 263486--263556 Score: 133
Period size: 32 Copynumber: 2.2 Consensus size: 32
263476 TTCAACGATT
263486 TGTATCGATACATAAGTGTTGTATCGATACAA
1 TGTATCGATACATAAGTGTTGTATCGATACAA
*
263518 TGTATCGATACATAAGTTTTGTATCGATACAA
1 TGTATCGATACATAAGTGTTGTATCGATACAA
263550 TGTATCG
1 TGTATCG
263557 CTACGAAGCT
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 38 1.00
ACGTcount: A:0.32, C:0.13, G:0.18, T:0.37
Consensus pattern (32 bp):
TGTATCGATACATAAGTGTTGTATCGATACAA
Found at i:263523 original size:13 final size:13
Alignment explanation
Indices: 263505--263529 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
263495 ACATAAGTGT
263505 TGTATCGATACAA
1 TGTATCGATACAA
263518 TGTATCGATACA
1 TGTATCGATACA
263530 TAAGTTTTGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:263619 original size:13 final size:13
Alignment explanation
Indices: 263601--263625 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
263591 ATTACTCAAA
263601 TGTATCGATACAT
1 TGTATCGATACAT
263614 TGTATCGATACA
1 TGTATCGATACA
263626 CTGATCTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:268774 original size:155 final size:154
Alignment explanation
Indices: 268237--268785 Score: 526
Period size: 155 Copynumber: 3.5 Consensus size: 154
268227 TCATCATTTC
* * *
268237 TAGTCTTTTTAAGTCCTTTAGGGGTATCGGGTACTTTTACGTCGAAAGTAACCCCTAGGGGCATT
1 TAGTCTTTTTAAGTCCTTTAGGGATATCGGGTACTTTTACGTCGAAGGTATCCCCTAGGGGCATT
** * * * * *
268302 TTTGTAATTTTTTAGAATTGAGTCTTAAGTTGTCACTGGGTTCACTTTTATGCCGAAGGTAGATA
66 TTCATAATTTTTCAGAATCGAGTCTTAAGTTGTCACCGGGTTCGCTTTTATACCGAAGGTAGATA
* * *
268367 TTTGGGATAGGTCCATCTCATCTA
131 TTTAGGATAGGTTCATCCCATCTA
* * * ** * * * *
268391 TTA-TCCTCTTTAAGTCTTTTAGGGGTGCCTGGTACTTTTACGTCGAAGATACCCCCTAAGGGCA
1 -TAGT-CTTTTTAAGTCCTTTAGGGATATCGGGTACTTTTACGTCGAAGGTATCCCCTAGGGGCA
* * * * *
268455 TTTTGATAATTTTTTAAAATCGAGTCCTAAGTTGTCACCGGGTTCGCTTTTATATCGAAGGTAGA
64 TTTTCATAATTTTTCAGAATCGAGTCTTAAGTTGTCACCGGGTTCGCTTTTATACCGAAGGTAGA
* *
268520 TATTTAGGATAGATTCACCCCATCTA
129 TATTTAGGATAGGTTCATCCCATCTA
* * * * * * *
268546 TTGTCCTTTTAGGTCCTTTAGGGTGCTAGGTACTAGGATACTTTCACGTCGAAGGTATCCTCTAG
1 TAGTCTTTTTAAGTCCTTTA-GG-G--A--TA-TCGGGTACTTTTACGTCGAAGGTATCCCCTAG
** * * * * * *
268611 GGATATTTTCATAATTTTTCAGAACCGAGTCTTAGGTTATAACCAGG-TCTGCTTTTATACCAAA
59 GGGCATTTTCATAATTTTTCAGAATCGAGTCTTAAGTTGTCACCGGGTTC-GCTTTTATACCGAA
* * * *
268675 GGTGGGTATTTAGGATAGGTTCATCCCTTTTA
123 GGTAGATATTTAGGATAGGTTCATCCCATCTA
* **
268707 TAGTCTTTTTTAAGTCCTTTAGGGATATCGGGTACTTCTACGTCGAAGGTATCTTCTAGGGGCAT
1 TAGTC-TTTTTAAGTCCTTTAGGGATATCGGGTACTTTTACGTCGAAGGTATCCCCTAGGGGCAT
268772 TTTCATAATTTTTC
65 TTTCATAATTTTTC
268786 TTGAACTTAG
Statistics
Matches: 315, Mismatches: 68, Indels: 22
0.78 0.17 0.05
Matches are distributed among these distances:
154 14 0.04
155 177 0.56
156 3 0.01
158 1 0.00
160 4 0.01
161 103 0.33
162 13 0.04
ACGTcount: A:0.23, C:0.17, G:0.21, T:0.39
Consensus pattern (154 bp):
TAGTCTTTTTAAGTCCTTTAGGGATATCGGGTACTTTTACGTCGAAGGTATCCCCTAGGGGCATT
TTCATAATTTTTCAGAATCGAGTCTTAAGTTGTCACCGGGTTCGCTTTTATACCGAAGGTAGATA
TTTAGGATAGGTTCATCCCATCTA
Found at i:270244 original size:19 final size:20
Alignment explanation
Indices: 270200--270251 Score: 81
Period size: 20 Copynumber: 2.6 Consensus size: 20
270190 TTACAAGCCA
270200 ATGTATCGATACATTTGGTC
1 ATGTATCGATACATTTGGTC
270220 ATGTATCGATACATCTT-GT-
1 ATGTATCGATACAT-TTGGTC
270239 ATGTATCGATACA
1 ATGTATCGATACA
270252 AACAGTTAAG
Statistics
Matches: 31, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
19 13 0.42
20 16 0.52
21 2 0.06
ACGTcount: A:0.29, C:0.15, G:0.17, T:0.38
Consensus pattern (20 bp):
ATGTATCGATACATTTGGTC
Found at i:278710 original size:13 final size:13
Alignment explanation
Indices: 278692--278717 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
278682 ACATTTGGTC
278692 ATGTATCGATACA
1 ATGTATCGATACA
278705 ATGTATCGATACA
1 ATGTATCGATACA
278718 TCTTGTATGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:278712 original size:33 final size:32
Alignment explanation
Indices: 278670--278737 Score: 111
Period size: 33 Copynumber: 2.1 Consensus size: 32
278660 CGTTACAAGC
278670 CAATGTATCGATACAT-TTGGTCATGTATCGATA
1 CAATGTATCGATACATCTT-GT-ATGTATCGATA
278703 CAATGTATCGATACATCTTGTATGTATCGATA
1 CAATGTATCGATACATCTTGTATGTATCGATA
278735 CAA
1 CAA
278738 ACAGTTAAGG
Statistics
Matches: 34, Mismatches: 0, Indels: 3
0.92 0.00 0.08
Matches are distributed among these distances:
32 14 0.41
33 18 0.53
34 2 0.06
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.35
Consensus pattern (32 bp):
CAATGTATCGATACATCTTGTATGTATCGATA
Found at i:278824 original size:13 final size:13
Alignment explanation
Indices: 278806--278830 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
278796 TACAGTGGTC
278806 ATGTATCGATACA
1 ATGTATCGATACA
278819 ATGTATCGATAC
1 ATGTATCGATAC
278831 TATGCATTAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:281544 original size:75 final size:75
Alignment explanation
Indices: 281419--281595 Score: 246
Period size: 75 Copynumber: 2.3 Consensus size: 75
281409 GACTTTCTAA
* * * * * *
281419 GGGGATACTTCGACCTCGCTTTTCAAACTTGCTAAGGTTTAAAACCTTTCCTTAGTCAAAATTTT
1 GGGGATACTCCAACCTCACTTTTCAAAATTACTAAGGTTTAAAACCTTTCCTTAGTAAAAATTTT
281484 TGTCATCCAT
66 TGTCATCCAT
* *
281494 GGGGATACTCCAACCTCACTTTTCAAAATTATTAAGGTTTAAAACTTTTCCTTAGTAAAAATTTT
1 GGGGATACTCCAACCTCACTTTTCAAAATTACTAAGGTTTAAAACCTTTCCTTAGTAAAAATTTT
281559 TGTCATCCAT
66 TGTCATCCAT
* * *
281569 AGGAATACTCCAACCCCATCTTTTCAA
1 GGGGATACTCCAACCTCA-CTTTTCAA
281596 GGAGATACTC
Statistics
Matches: 90, Mismatches: 11, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
75 82 0.91
76 8 0.09
ACGTcount: A:0.29, C:0.23, G:0.12, T:0.36
Consensus pattern (75 bp):
GGGGATACTCCAACCTCACTTTTCAAAATTACTAAGGTTTAAAACCTTTCCTTAGTAAAAATTTT
TGTCATCCAT
Found at i:281621 original size:26 final size:26
Alignment explanation
Indices: 281569--281621 Score: 63
Period size: 27 Copynumber: 2.0 Consensus size: 26
281559 TGTCATCCAT
* * *
281569 AGGAATACTCCAACCCCATCTTTTCA
1 AGGAATACTCCAACCCCAGCCTCTCA
281595 AGGAGATACTCCAACCCC-GCCTCTCA
1 AGGA-ATACTCCAACCCCAGCCTCTCA
281621 A
1 A
281622 CTATAATTAA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
26 10 0.43
27 13 0.57
ACGTcount: A:0.30, C:0.38, G:0.11, T:0.21
Consensus pattern (26 bp):
AGGAATACTCCAACCCCAGCCTCTCA
Found at i:282342 original size:20 final size:20
Alignment explanation
Indices: 282278--282343 Score: 65
Period size: 20 Copynumber: 3.6 Consensus size: 20
282268 CACACCCAGA
282278 TATATCGATACATATTGCTT
1 TATATCGATACATATTGCTT
**
282298 GGTATCGATAC--ATTG---
1 TATATCGATACATATTGCTT
282313 TAT-T-GATACATATTGCTT
1 TATATCGATACATATTGCTT
282331 TATATCGATACAT
1 TATATCGATACAT
282344 CATAAAATGT
Statistics
Matches: 35, Mismatches: 4, Indels: 14
0.66 0.08 0.26
Matches are distributed among these distances:
13 5 0.14
14 1 0.03
15 5 0.14
18 7 0.20
19 1 0.03
20 16 0.46
ACGTcount: A:0.30, C:0.14, G:0.14, T:0.42
Consensus pattern (20 bp):
TATATCGATACATATTGCTT
Found at i:282428 original size:20 final size:20
Alignment explanation
Indices: 282400--282437 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
282390 TATTCATGAT
*
282400 TGAATTGTATCAATACATGG
1 TGAAATGTATCAATACATGG
*
282420 TGAAATGTATCGATACAT
1 TGAAATGTATCAATACAT
282438 TGAGCCCAAC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.37, C:0.11, G:0.18, T:0.34
Consensus pattern (20 bp):
TGAAATGTATCAATACATGG
Found at i:288394 original size:11 final size:11
Alignment explanation
Indices: 288375--288407 Score: 57
Period size: 11 Copynumber: 3.0 Consensus size: 11
288365 ATGAATGTTA
*
288375 TTGAATGAATT
1 TTGATTGAATT
288386 TTGATTGAATT
1 TTGATTGAATT
288397 TTGATTGAATT
1 TTGATTGAATT
288408 ATACGTTATA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 21 1.00
ACGTcount: A:0.30, C:0.00, G:0.18, T:0.52
Consensus pattern (11 bp):
TTGATTGAATT
Found at i:288550 original size:20 final size:19
Alignment explanation
Indices: 288525--288576 Score: 61
Period size: 20 Copynumber: 2.7 Consensus size: 19
288515 TTTTTCCAGA
288525 TGTATCGATACA-AAGAAATT
1 TGTATCGATACATAA-AAA-T
* *
288545 TGTATCAATACATTAAAAT
1 TGTATCGATACATAAAAAT
288564 TGTATCGATACAT
1 TGTATCGATACAT
288577 TTTGACTATA
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
19 13 0.46
20 14 0.50
21 1 0.04
ACGTcount: A:0.42, C:0.12, G:0.12, T:0.35
Consensus pattern (19 bp):
TGTATCGATACATAAAAAT
Done.