Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold100
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: 904619
ACGTcount: A:0.35, C:0.16, G:0.16, T:0.34
File 5 of 8
Found at i:575975 original size:51 final size:51
Alignment explanation
Indices: 575913--576029 Score: 144
Period size: 51 Copynumber: 2.3 Consensus size: 51
575903 AAAATAACGG
*
575913 GGTTGGAGTATCCCCGATTGTAGAAAATCAATGTTCTGAAAATAAAATCGA
1 GGTTGGAGTATCCCCGATGGTAGAAAATCAATGTTCTGAAAATAAAATCGA
* ** * ** *
575964 GGTTGGAGTATCCCCGATGGTGGAAAATTGATGTTTTGGCAATAAAATCGG
1 GGTTGGAGTATCCCCGATGGTAGAAAATCAATGTTCTGAAAATAAAATCGA
* *
576015 GGTTGAAATATCCCC
1 GGTTGGAGTATCCCC
576030 TCGAAAATAA
Statistics
Matches: 56, Mismatches: 10, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
51 56 1.00
ACGTcount: A:0.32, C:0.15, G:0.26, T:0.28
Consensus pattern (51 bp):
GGTTGGAGTATCCCCGATGGTAGAAAATCAATGTTCTGAAAATAAAATCGA
Found at i:575993 original size:130 final size:130
Alignment explanation
Indices: 575838--576108 Score: 334
Period size: 130 Copynumber: 2.1 Consensus size: 130
575828 ATAACGGGGC
* * * *
575838 TGGAGTAT-CCCGATTGTGAAAAATTGGTGTTCTAAAAATAAAA-CGGGGGTTGGAGTATCCCCT
1 TGGAGTATCCCCGATGGTGAAAAATTGATGTTCTAAAAATAAAATC-GGGGTTGAAATATCCCCT
* *
575901 CGAAAATAACGGGGTTGGAGTATCCCCGATTGT-AGAAAATCAATGTTCTGA-AAATAAAATCGA
65 CGAAAATAACAGGGTTGGAGTATCCCCGATTGTGA-AAAATCAATATT-TGAGAAATAAAATCGA
*
575964 GGT
128 GGG
* * ***
575967 TGGAGTATCCCCGATGGTGGAAAATTGATGTTTTGGCAATAAAATCGGGGTTGAAATATCCCCTC
1 TGGAGTATCCCCGATGGTGAAAAATTGATGTTCTAAAAATAAAATCGGGGTTGAAATATCCCCTC
* ** *
576032 GAAAATAATAGGGTTGGAGTATCCCCGATTGTGAAAAATCGGTATTTTAGAAATAAAATCGAGGG
66 GAAAATAACAGGGTTGGAGTATCCCCGATTGTGAAAAATCAATATTTGAGAAATAAAATCGAGGG
*
576097 TGGAGCATCCCC
1 TGGAGTATCCCC
576109 TCGAAAATAA
Statistics
Matches: 121, Mismatches: 17, Indels: 7
0.83 0.12 0.05
Matches are distributed among these distances:
129 10 0.08
130 109 0.90
131 2 0.02
ACGTcount: A:0.33, C:0.15, G:0.26, T:0.27
Consensus pattern (130 bp):
TGGAGTATCCCCGATGGTGAAAAATTGATGTTCTAAAAATAAAATCGGGGTTGAAATATCCCCTC
GAAAATAACAGGGTTGGAGTATCCCCGATTGTGAAAAATCAATATTTGAGAAATAAAATCGAGGG
Found at i:576286 original size:78 final size:79
Alignment explanation
Indices: 575964--576292 Score: 360
Period size: 79 Copynumber: 4.2 Consensus size: 79
575954 ATAAAATCGA
* * * * * *
575964 GGTTGGAGTATCCCCGATGGTGGAAAATTGATGTTTTGGCAATAAAATCGGGGTTGAAATATCCC
1 GGTTGGAGTATCCCCGATTGTGAAAAATCGATGTTTTGGAAATAAAATCGAGGTTGAAGTATCCC
**
576029 CTCGAAAATAATAG
66 CTCGAAAATAACGG
* * * * * *
576043 GGTTGGAGTATCCCCGATTGTGAAAAATCGGTATTTTAGAAATAAAATCGAGGGTGGAGCATCCC
1 GGTTGGAGTATCCCCGATTGTGAAAAATCGATGTTTTGGAAATAAAATCGAGGTTGAAGTATCCC
*
576108 CTCGAAAATAACGA
66 CTCGAAAATAACGG
* * * * * **
576122 GGTTGGGGTATCTCTGATTTTGAAAAATCGATGTTTTGGAAATAAAACCGAGGTTGAAGTATCTT
1 GGTTGGAGTATCCCCGATTGTGAAAAATCGATGTTTTGGAAATAAAATCGAGGTTGAAGTATCCC
* *
576187 CTTGGAAATAACGG
66 CTCGAAAATAACGG
* * * *
576201 GGTTGGAGTATCCCCGATTATGGAAAATCGATGTTTTCGAAATAAAA-CTAGGTT-AGAGTATCC
1 GGTTGGAGTATCCCCGATTGTGAAAAATCGATGTTTTGGAAATAAAATCGAGGTTGA-AGTATCC
576264 CCTC-AGAAATAACGG
65 CCTCGA-AAATAACGG
576279 GGTTGGAGTA-CCCC
1 GGTTGGAGTATCCCC
576293 TTCGGAAATA
Statistics
Matches: 206, Mismatches: 42, Indels: 6
0.81 0.17 0.02
Matches are distributed among these distances:
77 5 0.02
78 33 0.16
79 168 0.82
ACGTcount: A:0.32, C:0.15, G:0.26, T:0.28
Consensus pattern (79 bp):
GGTTGGAGTATCCCCGATTGTGAAAAATCGATGTTTTGGAAATAAAATCGAGGTTGAAGTATCCC
CTCGAAAATAACGG
Found at i:576287 original size:28 final size:29
Alignment explanation
Indices: 576251--576321 Score: 101
Period size: 28 Copynumber: 2.5 Consensus size: 29
576241 AATAAAACTA
*
576251 GGTTAGAGTATCCCC-TCAGAAATAACGG
1 GGTTGGAGTATCCCCTTCAGAAATAACGG
* *
576279 GGTTGGAGTA-CCCCTTCGGAAATAATGG
1 GGTTGGAGTATCCCCTTCAGAAATAACGG
576307 GGTTGGAGTATCCCC
1 GGTTGGAGTATCCCC
576322 GATTGTGGAG
Statistics
Matches: 38, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
27 4 0.11
28 30 0.79
29 4 0.11
ACGTcount: A:0.25, C:0.21, G:0.30, T:0.24
Consensus pattern (29 bp):
GGTTGGAGTATCCCCTTCAGAAATAACGG
Found at i:576301 original size:106 final size:106
Alignment explanation
Indices: 576190--576394 Score: 306
Period size: 106 Copynumber: 1.9 Consensus size: 106
576180 GTATCTTCTT
*
576190 GGAAATAACGGGGTTGGAGTATCCCCGATTATGGAAAATCGATGTTTTCGAAATAAAACT-AGGT
1 GGAAATAACGGGGTTGGAGTATCCCCGATTATGGAAAATCGATGTTTTCGAAACAAAACTGAGGT
*
576254 TAGAGTATCCCCTC-AGAAATAACGGGGTTGGAGTACCCCTTC
66 TAGAGTAT-CCCTCGA-AAATAACGGGATTGGAGTACCCCTTC
* * * * *
576296 GGAAATAATGGGGTTGGAGTATCCCCGATTGTGGAGAATTGATGTTTTGGAAACAAAACTGAGGT
1 GGAAATAACGGGGTTGGAGTATCCCCGATTATGGAAAATCGATGTTTTCGAAACAAAACTGAGGT
*
576361 TGGAGTATCCCTCGAAAATAACGGGATTGGAGTA
66 TAGAGTATCCCTCGAAAATAACGGGATTGGAGTA
576395 TCCTCGATTA
Statistics
Matches: 89, Mismatches: 8, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
106 77 0.87
107 12 0.13
ACGTcount: A:0.31, C:0.15, G:0.28, T:0.26
Consensus pattern (106 bp):
GGAAATAACGGGGTTGGAGTATCCCCGATTATGGAAAATCGATGTTTTCGAAACAAAACTGAGGT
TAGAGTATCCCTCGAAAATAACGGGATTGGAGTACCCCTTC
Found at i:576420 original size:78 final size:79
Alignment explanation
Indices: 576279--576431 Score: 191
Period size: 78 Copynumber: 1.9 Consensus size: 79
576269 GAAATAACGG
* * * * * * *
576279 GGTTGGAGTACCCCTTCGGAAATAATGGGGTTGGAGTATCCCCGATTGTGGAGAATTGATGTTTT
1 GGTTGGAGTACCCCTTCGAAAATAACGGGATTGGAGTATCCCCGATTATGAAAAATCGATGTTTT
*
576344 GGAAACAAAACTGA
66 AGAAACAAAACTGA
* * *
576358 GGTTGGAGTATCCC-TCGAAAATAACGGGATTGGAGTATCCTCGATTATGAAAAATCGGTGTTTT
1 GGTTGGAGTACCCCTTCGAAAATAACGGGATTGGAGTATCCCCGATTATGAAAAATCGATGTTTT
*
576422 AGAAATAAAA
66 AGAAACAAAA
576432 ACATGAATGA
Statistics
Matches: 62, Mismatches: 12, Indels: 1
0.83 0.16 0.01
Matches are distributed among these distances:
78 49 0.79
79 13 0.21
ACGTcount: A:0.31, C:0.13, G:0.27, T:0.28
Consensus pattern (79 bp):
GGTTGGAGTACCCCTTCGAAAATAACGGGATTGGAGTATCCCCGATTATGAAAAATCGATGTTTT
AGAAACAAAACTGA
Found at i:579637 original size:1 final size:1
Alignment explanation
Indices: 579631--579675 Score: 63
Period size: 1 Copynumber: 45.0 Consensus size: 1
579621 AAAGTGTTTG
***
579631 AAAAAAAAAAAAAAAAAAAAAAAATTGAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
579676 TTTAAATGTA
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
1 41 1.00
ACGTcount: A:0.93, C:0.00, G:0.02, T:0.04
Consensus pattern (1 bp):
A
Found at i:579663 original size:21 final size:21
Alignment explanation
Indices: 579637--579677 Score: 82
Period size: 21 Copynumber: 2.0 Consensus size: 21
579627 TTTGAAAAAA
579637 AAAAAAAAAAAAAAAAAATTG
1 AAAAAAAAAAAAAAAAAATTG
579658 AAAAAAAAAAAAAAAAAATT
1 AAAAAAAAAAAAAAAAAATT
579678 TAAATGTATC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.88, C:0.00, G:0.02, T:0.10
Consensus pattern (21 bp):
AAAAAAAAAAAAAAAAAATTG
Found at i:579704 original size:21 final size:21
Alignment explanation
Indices: 579680--579736 Score: 105
Period size: 21 Copynumber: 2.7 Consensus size: 21
579670 AAAAAATTTA
579680 AATGTATCGATACATTTGTAG
1 AATGTATCGATACATTTGTAG
*
579701 AATGTATCGATACATTTGTGG
1 AATGTATCGATACATTTGTAG
579722 AATGTATCGATACAT
1 AATGTATCGATACAT
579737 CCTACAAATG
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 35 1.00
ACGTcount: A:0.33, C:0.11, G:0.19, T:0.37
Consensus pattern (21 bp):
AATGTATCGATACATTTGTAG
Found at i:579816 original size:19 final size:19
Alignment explanation
Indices: 579792--579859 Score: 85
Period size: 19 Copynumber: 3.9 Consensus size: 19
579782 AATTCAACAA
579792 TTTGTATCGATACATAAGT
1 TTTGTATCGATACATAAGT
579811 TTTGTATCGATAC--AA--
1 TTTGTATCGATACATAAGT
579826 --TGTATCGATACATAAGT
1 TTTGTATCGATACATAAGT
*
579843 ATTGTATCGATACATAA
1 TTTGTATCGATACATAA
579860 TTAGCTACTG
Statistics
Matches: 43, Mismatches: 0, Indels: 12
0.78 0.00 0.22
Matches are distributed among these distances:
13 11 0.26
15 2 0.05
17 2 0.05
19 28 0.65
ACGTcount: A:0.35, C:0.12, G:0.15, T:0.38
Consensus pattern (19 bp):
TTTGTATCGATACATAAGT
Found at i:579831 original size:13 final size:13
Alignment explanation
Indices: 579813--579837 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
579803 ACATAAGTTT
579813 TGTATCGATACAA
1 TGTATCGATACAA
579826 TGTATCGATACA
1 TGTATCGATACA
579838 TAAGTATTGT
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:579835 original size:32 final size:32
Alignment explanation
Indices: 579794--579856 Score: 117
Period size: 32 Copynumber: 2.0 Consensus size: 32
579784 TTCAACAATT
*
579794 TGTATCGATACATAAGTTTTGTATCGATACAA
1 TGTATCGATACATAAGTATTGTATCGATACAA
579826 TGTATCGATACATAAGTATTGTATCGATACA
1 TGTATCGATACATAAGTATTGTATCGATACA
579857 TAATTAGCTA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.35, C:0.13, G:0.16, T:0.37
Consensus pattern (32 bp):
TGTATCGATACATAAGTATTGTATCGATACAA
Found at i:579917 original size:13 final size:13
Alignment explanation
Indices: 579899--579924 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
579889 CATTTTTCTG
579899 TGTATCGATACAT
1 TGTATCGATACAT
579912 TGTATCGATACAT
1 TGTATCGATACAT
579925 GGATCTTTGT
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:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:579921 original size:33 final size:33
Alignment explanation
Indices: 579879--579945 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
579869 GCCAAGGAAA
***
579879 TGTATCGATACATTTTTCTGTGTATCGATACAT
1 TGTATCGATACATGGATCTGTGTATCGATACAT
*
579912 TGTATCGATACATGGATCTTTGTATCGATACAT
1 TGTATCGATACATGGATCTGTGTATCGATACAT
579945 T
1 T
579946 TGGAAATTTT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.25, C:0.15, G:0.16, T:0.43
Consensus pattern (33 bp):
TGTATCGATACATGGATCTGTGTATCGATACAT
Found at i:582580 original size:52 final size:52
Alignment explanation
Indices: 582411--582580 Score: 170
Period size: 52 Copynumber: 3.3 Consensus size: 52
582401 TTATTTTCGA
* *
582411 GGGGATACTCCAACT-CTGGTTTTATCATT--AAAACACTAATTTTTCCACAATC
1 GGGGATACTCCAACTCCTGATTTTAT--TTCCAAAACACCAATTTTT-CACAATC
* * * * **
582463 GGGGATACTCCAA-TCCTGGTTTTATTTTCAAAACGCCAATTTTCCTTTAATC
1 GGGGATACTCCAACTCCTGATTTTATTTCCAAAACACCAATTTTTC-ACAATC
*
582515 GGGGATACTCCAACTCC-GATTTTATTTCCAAAAATACCAATTTTTCACAATC
1 GGGGATACTCCAACTCCTGATTTTATTTCC-AAAACACCAATTTTTCACAATC
*
582567 GAGGATACTCCAAC
1 GGGGATACTCCAAC
582581 CTCGTTATTT
Statistics
Matches: 99, Mismatches: 13, Indels: 12
0.80 0.10 0.10
Matches are distributed among these distances:
50 2 0.02
51 2 0.02
52 79 0.80
53 16 0.16
ACGTcount: A:0.30, C:0.24, G:0.12, T:0.34
Consensus pattern (52 bp):
GGGGATACTCCAACTCCTGATTTTATTTCCAAAACACCAATTTTTCACAATC
Found at i:582600 original size:28 final size:28
Alignment explanation
Indices: 582564--582640 Score: 100
Period size: 28 Copynumber: 2.8 Consensus size: 28
582554 ATTTTTCACA
* * *
582564 ATCGAGGATACTCCAACCTCGTTATTTC
1 ATCGGGGATACTCCAACCCCGTTACTTC
582592 ATCGGGGATACTCCAACCCCGTTACTTC
1 ATCGGGGATACTCCAACCCCGTTACTTC
***
582620 CGAGGGGATACTCCAACCCCG
1 ATCGGGGATACTCCAACCCCG
582641 GCTTTATTCC
Statistics
Matches: 43, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
28 43 1.00
ACGTcount: A:0.23, C:0.34, G:0.19, T:0.23
Consensus pattern (28 bp):
ATCGGGGATACTCCAACCCCGTTACTTC
Found at i:582770 original size:76 final size:78
Alignment explanation
Indices: 582594--582795 Score: 214
Period size: 76 Copynumber: 2.6 Consensus size: 78
582584 GTTATTTCAT
* * * *
582594 CGGGGATACTCCAACCCCGTTACTTCCGAGGGGATACTCCAACCCCGGCTTTATTCCCAAAATAT
1 CGGGGATACTCCAACCCCGTTATTTTCGAAGGGATACTCCAACCCC-GATTTATTCCCAAAATAT
* * *
582659 TGATTTCTCATAAT
65 CGATTTCTCACAAC
** * * * *
582673 TAGGGATACTCCAACCTCGTTATTTTCGAAGGGATACTCCAATCCCGATTT-TT-TC-TAATCAT
1 CGGGGATACTCCAACCCCGTTATTTTCGAAGGGATACTCCAACCCCGATTTATTCCCAAAAT-AT
582735 CGATTTCTCACAAC
65 CGATTTCTCACAAC
* *
582749 CGGGGATACTCCAGCCCCGTTATTTTC-AAGGGAACACTCCAACCCCG
1 CGGGGATACTCCAACCCCGTTATTTTCGAAGGG-ATACTCCAACCCCG
582796 TTATTATCTC
Statistics
Matches: 102, Mismatches: 19, Indels: 7
0.80 0.15 0.05
Matches are distributed among these distances:
75 8 0.08
76 49 0.48
77 2 0.02
78 4 0.04
79 39 0.38
ACGTcount: A:0.25, C:0.30, G:0.16, T:0.28
Consensus pattern (78 bp):
CGGGGATACTCCAACCCCGTTATTTTCGAAGGGATACTCCAACCCCGATTTATTCCCAAAATATC
GATTTCTCACAAC
Found at i:595213 original size:14 final size:14
Alignment explanation
Indices: 595194--595248 Score: 76
Period size: 14 Copynumber: 3.9 Consensus size: 14
595184 CCTTCTCTTC
595194 AAGCAAAAAAAAAA
1 AAGCAAAAAAAAAA
595208 AAGCAAAAAAAAAA
1 AAGCAAAAAAAAAA
*
595222 AAACAAAAAAAACAA
1 AAGCAAAAAAAA-AA
595237 AA-CAAAGAAAAA
1 AAGCAAA-AAAAA
595249 GAGAGAAAAG
Statistics
Matches: 38, Mismatches: 1, Indels: 3
0.90 0.02 0.07
Matches are distributed among these distances:
14 29 0.76
15 9 0.24
ACGTcount: A:0.85, C:0.09, G:0.05, T:0.00
Consensus pattern (14 bp):
AAGCAAAAAAAAAA
Found at i:596307 original size:26 final size:26
Alignment explanation
Indices: 596277--596366 Score: 83
Period size: 26 Copynumber: 3.3 Consensus size: 26
596267 AAGTTGGTGG
596277 CACCTTTCAGTCCTCAAAGAGCAGGA
1 CACCTTTCAGTCCTCAAAGAGCAGGA
* * * * **
596303 CACCTCTTAAAGCCCACACAAGTTGGTGG-
1 CACCT-TT-CAGTCCTCA-AAG-AGCAGGA
596332 CACCTTTCAGTCCTCAAAGAGCAGGA
1 CACCTTTCAGTCCTCAAAGAGCAGGA
596358 CACCTTTCA
1 CACCTTTCA
596367 AAGCCCACAC
Statistics
Matches: 47, Mismatches: 12, Indels: 10
0.68 0.17 0.14
Matches are distributed among these distances:
25 3 0.06
26 17 0.36
27 8 0.17
28 8 0.17
29 8 0.17
30 3 0.06
ACGTcount: A:0.29, C:0.32, G:0.18, T:0.21
Consensus pattern (26 bp):
CACCTTTCAGTCCTCAAAGAGCAGGA
Found at i:596314 original size:55 final size:55
Alignment explanation
Indices: 596230--597072 Score: 1273
Period size: 55 Copynumber: 15.3 Consensus size: 55
596220 TCCGCTTTTT
596230 AGTCCTCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCACCTTTC
1 AGTCCTCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCACCTTTC
596285 AGTCCTCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCACCTTTC
1 AGTCCTCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCACCTTTC
*
596340 AGTCCTCAAAGAGCAGGACACCT-TTCAAAGCCCACACAAGTTGGTGGCA-TTTTCC
1 AGTCCTCAAAGAGCAGGACACCTCTT-AAAGCCCACACAAGTTGGTGGCACCTTT-C
* *
596395 AGTCCTCAAAGAGCAGGACACCTTTTAAAGCCCACACAAGTTGGTGGCA-TTTTCC
1 AGTCCTCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCACCTTT-C
*
596450 AGTCCTCAAAGAGCAGGACACCT-TTCAAAGCCCACACAAGTTGGTGGCA-TTTTCC
1 AGTCCTCAAAGAGCAGGACACCTCTT-AAAGCCCACACAAGTTGGTGGCACCTTT-C
* *
596505 AGTCCTCAACGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCATCTTTC
1 AGTCCTCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCACCTTTC
*
596560 AGTCCCCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCACCTTTC
1 AGTCCTCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCACCTTTC
596615 AGTCCTCAAAGAGCAGGACACCT-TTCAAAGCCCACACAAGTTGGTGGCA--TTGTCC
1 AGTCCTCAAAGAGCAGGACACCTCTT-AAAGCCCACACAAGTTGGTGGCACCTT-T-C
596670 AGTCCTCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCACCTTTC
1 AGTCCTCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCACCTTTC
*
596725 AGTCCCCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCACCTTTC
1 AGTCCTCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCACCTTTC
*
596780 AGTCCTCAAAGAGCAGGACACCT-TTCAAAGCCCACACAAGTTGGTGGCA-TTTTCC
1 AGTCCTCAAAGAGCAGGACACCTCTT-AAAGCCCACACAAGTTGGTGGCACCTTT-C
* *
596835 AGTCCTCAAAGAACAGGACACCT-TTCAAAGCCCACACAAGTTGGTGGCA-TTTTCC
1 AGTCCTCAAAGAGCAGGACACCTCTT-AAAGCCCACACAAGTTGGTGGCACCTTT-C
596890 AGTCCTCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCACCTTTC
1 AGTCCTCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCACCTTTC
* * * *
596945 ATTCCCCAAAGAGCAGGACA-CTTTTCAAAGCCCACACAAGTGGGTGGCACCTTTC
1 AGTCCTCAAAGAGCAGGACACCTCTT-AAAGCCCACACAAGTTGGTGGCACCTTTC
* * * *
597000 AGTCCTCAAAGAGCAGGACGCCT-TTCAAAGCCCACACGAGTTGGTGGCACTTTTT
1 AGTCCTCAAAGAGCAGGACACCTCTT-AAAGCCCACACAAGTTGGTGGCACCTTTC
* *
597055 ACTCCTCAATGAGCAGGA
1 AGTCCTCAAAGAGCAGGA
597073 TACAATTTAT
Statistics
Matches: 744, Mismatches: 26, Indels: 36
0.92 0.03 0.04
Matches are distributed among these distances:
53 2 0.00
54 19 0.03
55 704 0.95
56 17 0.02
57 2 0.00
ACGTcount: A:0.29, C:0.30, G:0.20, T:0.21
Consensus pattern (55 bp):
AGTCCTCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCACCTTTC
Found at i:597674 original size:1 final size:1
Alignment explanation
Indices: 597668--597718 Score: 75
Period size: 1 Copynumber: 51.0 Consensus size: 1
597658 AAAGTGTTTG
***
597668 AAAAAAAAAAAAAAAAAAAAAAAAAAAAATTGAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
597719 TTTAAATGTA
Statistics
Matches: 47, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
1 47 1.00
ACGTcount: A:0.94, C:0.00, G:0.02, T:0.04
Consensus pattern (1 bp):
A
Found at i:597719 original size:22 final size:22
Alignment explanation
Indices: 597678--597720 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
597668 AAAAAAAAAA
597678 AAAAAAAAAAAAAAAAAAATTG
1 AAAAAAAAAAAAAAAAAAATTG
597700 AAAAAAAAAAAAAAAAAAATT
1 AAAAAAAAAAAAAAAAAAATT
597721 TAAATGTATC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.88, C:0.00, G:0.02, T:0.09
Consensus pattern (22 bp):
AAAAAAAAAAAAAAAAAAATTG
Found at i:597747 original size:21 final size:21
Alignment explanation
Indices: 597723--597779 Score: 105
Period size: 21 Copynumber: 2.7 Consensus size: 21
597713 AAAAAATTTA
597723 AATGTATCGATACATTTGTAG
1 AATGTATCGATACATTTGTAG
*
597744 AATGTATCGATACATTTGTGG
1 AATGTATCGATACATTTGTAG
597765 AATGTATCGATACAT
1 AATGTATCGATACAT
597780 CCTACAAATG
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 35 1.00
ACGTcount: A:0.33, C:0.11, G:0.19, T:0.37
Consensus pattern (21 bp):
AATGTATCGATACATTTGTAG
Found at i:597859 original size:19 final size:19
Alignment explanation
Indices: 597835--597902 Score: 85
Period size: 19 Copynumber: 3.9 Consensus size: 19
597825 AATTCAACAA
597835 TTTGTATCGATACATAAGT
1 TTTGTATCGATACATAAGT
597854 TTTGTATCGATAC--AA--
1 TTTGTATCGATACATAAGT
597869 --TGTATCGATACATAAGT
1 TTTGTATCGATACATAAGT
*
597886 ATTGTATCGATACATAA
1 TTTGTATCGATACATAA
597903 TTAGCTACTG
Statistics
Matches: 43, Mismatches: 0, Indels: 12
0.78 0.00 0.22
Matches are distributed among these distances:
13 11 0.26
15 2 0.05
17 2 0.05
19 28 0.65
ACGTcount: A:0.35, C:0.12, G:0.15, T:0.38
Consensus pattern (19 bp):
TTTGTATCGATACATAAGT
Found at i:597874 original size:13 final size:13
Alignment explanation
Indices: 597856--597880 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
597846 ACATAAGTTT
597856 TGTATCGATACAA
1 TGTATCGATACAA
597869 TGTATCGATACA
1 TGTATCGATACA
597881 TAAGTATTGT
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:597878 original size:32 final size:32
Alignment explanation
Indices: 597837--597899 Score: 117
Period size: 32 Copynumber: 2.0 Consensus size: 32
597827 TTCAACAATT
*
597837 TGTATCGATACATAAGTTTTGTATCGATACAA
1 TGTATCGATACATAAGTATTGTATCGATACAA
597869 TGTATCGATACATAAGTATTGTATCGATACA
1 TGTATCGATACATAAGTATTGTATCGATACA
597900 TAATTAGCTA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.35, C:0.13, G:0.16, T:0.37
Consensus pattern (32 bp):
TGTATCGATACATAAGTATTGTATCGATACAA
Found at i:597960 original size:13 final size:13
Alignment explanation
Indices: 597942--597967 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
597932 CATTTTTCTG
597942 TGTATCGATACAT
1 TGTATCGATACAT
597955 TGTATCGATACAT
1 TGTATCGATACAT
597968 GGATCTTTGT
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:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:597964 original size:33 final size:33
Alignment explanation
Indices: 597922--597988 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
597912 GCCAAGGAAA
***
597922 TGTATCGATACATTTTTCTGTGTATCGATACAT
1 TGTATCGATACATGGATCTGTGTATCGATACAT
*
597955 TGTATCGATACATGGATCTTTGTATCGATACAT
1 TGTATCGATACATGGATCTGTGTATCGATACAT
597988 T
1 T
597989 TGGAAATTTT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.25, C:0.15, G:0.16, T:0.43
Consensus pattern (33 bp):
TGTATCGATACATGGATCTGTGTATCGATACAT
Found at i:600539 original size:52 final size:52
Alignment explanation
Indices: 600454--600622 Score: 168
Period size: 52 Copynumber: 3.2 Consensus size: 52
600444 TTATTTTCGA
* *
600454 GGGGATACTCCAA-CTCTGGTTTTATCGTT-AAAACACTAATTTTTCCACAATC
1 GGGGATACTCCAATC-CTGGTTTTAT-TTTCAAAACACCAATTTTTCCACAATC
* * **
600506 GGGGATACTCTAATCCTGGTTTTATTTTCAAAACGCCAA-TTTTCCTTTAATC
1 GGGGATACTCCAATCCTGGTTTTATTTTCAAAACACCAATTTTTCC-ACAATC
* * *
600558 GGGGATACTCCAACTCC-GATTTTATTTCCAAAAATACCAATTTTT-CACAATC
1 GGGGATACTCCAA-TCCTGGTTTTATTTTC-AAAACACCAATTTTTCCACAATC
*
600610 GAGGATACTCCAA
1 GGGGATACTCCAA
600623 CCTCGTTATT
Statistics
Matches: 97, Mismatches: 14, Indels: 12
0.79 0.11 0.10
Matches are distributed among these distances:
51 8 0.08
52 72 0.74
53 13 0.13
54 4 0.04
ACGTcount: A:0.30, C:0.23, G:0.13, T:0.34
Consensus pattern (52 bp):
GGGGATACTCCAATCCTGGTTTTATTTTCAAAACACCAATTTTTCCACAATC
Found at i:600643 original size:28 final size:28
Alignment explanation
Indices: 600607--600683 Score: 100
Period size: 28 Copynumber: 2.8 Consensus size: 28
600597 ATTTTTCACA
* * *
600607 ATCGAGGATACTCCAACCTCGTTATTTC
1 ATCGGGGATACTCCAACCCCGTTACTTC
600635 ATCGGGGATACTCCAACCCCGTTACTTC
1 ATCGGGGATACTCCAACCCCGTTACTTC
***
600663 CGAGGGGATACTCCAACCCCG
1 ATCGGGGATACTCCAACCCCG
600684 GCTTTATTCC
Statistics
Matches: 43, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
28 43 1.00
ACGTcount: A:0.23, C:0.34, G:0.19, T:0.23
Consensus pattern (28 bp):
ATCGGGGATACTCCAACCCCGTTACTTC
Found at i:600813 original size:76 final size:78
Alignment explanation
Indices: 600637--600838 Score: 214
Period size: 76 Copynumber: 2.6 Consensus size: 78
600627 GTTATTTCAT
* * * *
600637 CGGGGATACTCCAACCCCGTTACTTCCGAGGGGATACTCCAACCCCGGCTTTATTCCCAAAATAT
1 CGGGGATACTCCAACCCCGTTATTTTCGAAGGGATACTCCAACCCC-GATTTATTCCCAAAATAT
* * *
600702 TGATTTCTCATAAT
65 CGATTTCTCACAAC
** * * * *
600716 TAGGGATACTCCAACCTCGTTATTTTCGAAGGGATACTCCAATCCCGATTT-TT-TC-TAATCAT
1 CGGGGATACTCCAACCCCGTTATTTTCGAAGGGATACTCCAACCCCGATTTATTCCCAAAAT-AT
600778 CGATTTCTCACAAC
65 CGATTTCTCACAAC
* *
600792 CGGGGATACTCCAGCCCCGTTATTTTC-AAGGGAACACTCCAACCCCG
1 CGGGGATACTCCAACCCCGTTATTTTCGAAGGG-ATACTCCAACCCCG
600839 TTATTATCTC
Statistics
Matches: 102, Mismatches: 19, Indels: 7
0.80 0.15 0.05
Matches are distributed among these distances:
75 8 0.08
76 49 0.48
77 2 0.02
78 4 0.04
79 39 0.38
ACGTcount: A:0.25, C:0.30, G:0.16, T:0.28
Consensus pattern (78 bp):
CGGGGATACTCCAACCCCGTTATTTTCGAAGGGATACTCCAACCCCGATTTATTCCCAAAATATC
GATTTCTCACAAC
Found at i:604143 original size:52 final size:52
Alignment explanation
Indices: 604065--604193 Score: 224
Period size: 52 Copynumber: 2.5 Consensus size: 52
604055 CGAAATATGA
*
604065 AAATTTGCCTGCATGTATCGATACATT-TAATAGTGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTATAA-AATGTATCGATACATCTGGGC
604117 AAATTTGCCTGCATGTATCGATACATTATAAAATGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTATAAAATGTATCGATACATCTGGGC
*
604169 AAATTTGCCTACATGTATCGATACA
1 AAATTTGCCTGCATGTATCGATACA
604194 AAGATCAGTG
Statistics
Matches: 74, Mismatches: 2, Indels: 2
0.95 0.03 0.03
Matches are distributed among these distances:
52 71 0.96
53 3 0.04
ACGTcount: A:0.32, C:0.18, G:0.17, T:0.33
Consensus pattern (52 bp):
AAATTTGCCTGCATGTATCGATACATTATAAAATGTATCGATACATCTGGGC
Found at i:604206 original size:52 final size:50
Alignment explanation
Indices: 604065--604213 Score: 201
Period size: 52 Copynumber: 2.9 Consensus size: 50
604055 CGAAATATGA
*
604065 AAATTTGCCTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACA--AAATAGTGTATCGATACATCTGGGC
*
604117 AAATTTGCCTGCATGTATCGATACATTATAA-AATGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACA--A-AATAGTGTATCGATACATCTGGGC
*
604169 AAATTTGCCTACATGTATCGATACAAAGATCAGTGTATCGATACA
1 AAATTTGCCTGCATGTATCGATACAAA-AT-AGTGTATCGATACA
604214 ATGTATCGAT
Statistics
Matches: 89, Mismatches: 4, Indels: 8
0.88 0.04 0.08
Matches are distributed among these distances:
49 1 0.01
50 2 0.02
52 84 0.94
53 2 0.02
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.32
Consensus pattern (50 bp):
AAATTTGCCTGCATGTATCGATACAAAATAGTGTATCGATACATCTGGGC
Found at i:604220 original size:13 final size:13
Alignment explanation
Indices: 604202--604226 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
604192 CAAAGATCAG
604202 TGTATCGATACAA
1 TGTATCGATACAA
604215 TGTATCGATACA
1 TGTATCGATACA
604227 TTTTTTGGCA
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:604303 original size:33 final size:33
Alignment explanation
Indices: 604246--604312 Score: 89
Period size: 33 Copynumber: 2.0 Consensus size: 33
604236 AGTAGCTTAA
*
604246 ATTGTATCGATACAAAAAAATATGTATCGTTAC
1 ATTGTATCGATACAAAAAAATATGTATCGATAC
* ***
604279 ATTGTATCGATACAACACTTTATGTATCGATAC
1 ATTGTATCGATACAAAAAAATATGTATCGATAC
604312 A
1 A
604313 AATCGTTGAA
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:0.39, C:0.15, G:0.12, T:0.34
Consensus pattern (33 bp):
ATTGTATCGATACAAAAAAATATGTATCGATAC
Found at i:605830 original size:49 final size:47
Alignment explanation
Indices: 605133--605823 Score: 811
Period size: 49 Copynumber: 14.8 Consensus size: 47
605123 AAGATGAGAA
* * * * * *
605133 AAAGGATGTCAATGTGCTGATTCAAGGCCAGCAACATTGAACTAAAGATGG
1 AAAGG-TGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAA-A--G
605184 AAAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTT----
1 -AAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAG
* * * *
605228 TAAGGTGCCAATGTGCTGATTCAATGCCAGCTACATTGGACTTAAAG
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAG
*
605275 ATAAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAG
1 --AAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAG
* *
605324 CTGAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTT----
1 --AAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAG
* *
605369 AAAGGTG-CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAG
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAG
*
605415 AAGAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTT----
1 -A-AAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAG
* *
605460 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAG
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAG
605507 AAGAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTT----
1 -A-AAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAG
* *
605552 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAG
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAG
*
605599 AAGAAGGTGCCAATATACTGATTCAAGGCCAGCTATATTGGACTT----
1 -A-AAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAG
* *
605644 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAG
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAG
605691 AAGAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTT----
1 -A-AAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAG
* *
605736 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAG
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAG
605783 ACAAGGTGCCAATTATGCTGATTCAAGGCCAGCTATATTGG
1 A-AAGGTGCCAA-TATGCTGATTCAAGGCCAGCTATATTGG
605824 GTTTAAAAGG
Statistics
Matches: 559, Mismatches: 43, Indels: 77
0.82 0.06 0.11
Matches are distributed among these distances:
42 32 0.06
43 203 0.36
44 4 0.01
47 2 0.00
48 19 0.03
49 262 0.47
51 32 0.06
52 5 0.01
ACGTcount: A:0.32, C:0.18, G:0.25, T:0.25
Consensus pattern (47 bp):
AAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAG
Found at i:605830 original size:92 final size:92
Alignment explanation
Indices: 605185--605823 Score: 1024
Period size: 92 Copynumber: 7.0 Consensus size: 92
605175 TAAAGATGGA
* * * *
605185 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTT------TAAGGTGCCAATGTGC
1 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAAGAAGGTGCCAATATGC
* *
605244 TGATTCAATGCCAGCTACATTGGACTTAAAGAT
66 TGATTCAAGGCCAGCTATATTGGAC-T-----T
* * * **
605277 AAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGCTGAAGGTGCCAATATGC
1 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAAGAAGGTGCCAATATGC
*
605342 TGATTCAAGGCCAGCGATATTGGACTT
66 TGATTCAAGGCCAGCTATATTGGACTT
605369 AAAGGTG-CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAAGAAGGTGCCAATATGC
1 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAAGAAGGTGCCAATATGC
*
605433 TGATTCAAGGCCAGCGATATTGGACTT
66 TGATTCAAGGCCAGCTATATTGGACTT
605460 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAAGAAGGTGCCAATATGC
1 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAAGAAGGTGCCAATATGC
605525 TGATTCAAGGCCAGCTATATTGGACTT
66 TGATTCAAGGCCAGCTATATTGGACTT
*
605552 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAAGAAGGTGCCAATATAC
1 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAAGAAGGTGCCAATATGC
605617 TGATTCAAGGCCAGCTATATTGGACTT
66 TGATTCAAGGCCAGCTATATTGGACTT
605644 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAAGAAGGTGCCAATATGC
1 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAAGAAGGTGCCAATATGC
605709 TGATTCAAGGCCAGCTATATTGGACTT
66 TGATTCAAGGCCAGCTATATTGGACTT
*
605736 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAG-ACAAGGTGCCAATTATG
1 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAAGAAGGTGCCAA-TATG
605800 CTGATTCAAGGCCAGCTATATTGG
65 CTGATTCAAGGCCAGCTATATTGG
605824 GTTTAAAAGG
Statistics
Matches: 524, Mismatches: 15, Indels: 16
0.94 0.03 0.03
Matches are distributed among these distances:
91 97 0.19
92 390 0.74
97 1 0.00
98 36 0.07
ACGTcount: A:0.31, C:0.18, G:0.25, T:0.25
Consensus pattern (92 bp):
AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAAGAAGGTGCCAATATGC
TGATTCAAGGCCAGCTATATTGGACTT
Found at i:605916 original size:33 final size:34
Alignment explanation
Indices: 605862--605952 Score: 87
Period size: 35 Copynumber: 2.7 Consensus size: 34
605852 TGAGCTTTTG
* * *
605862 AAAAGGGTGCCACTA-ACTTGTGGGCTT-AAAAGG
1 AAAAGAGTGCCAC-AGAGTTGTGGGCTTAAAAAGA
* * *
605895 AAAATAGTGCTACAGAGTTGTGAGCTTACAAAAGA
1 AAAAGAGTGCCACAGAGTTGTGGGCTTA-AAAAGA
*
605930 AAAAGAGTGCCACTGAGTTGTGG
1 AAAAGAGTGCCACAGAGTTGTGG
605953 ACTTTGGAAA
Statistics
Matches: 45, Mismatches: 10, Indels: 4
0.76 0.17 0.07
Matches are distributed among these distances:
32 1 0.02
33 20 0.44
35 24 0.53
ACGTcount: A:0.36, C:0.13, G:0.29, T:0.22
Consensus pattern (34 bp):
AAAAGAGTGCCACAGAGTTGTGGGCTTAAAAAGA
Found at i:605964 original size:30 final size:30
Alignment explanation
Indices: 605930--606343 Score: 302
Period size: 30 Copynumber: 13.9 Consensus size: 30
605920 TTACAAAAGA
* *
605930 AAAAGAGTGCCACTGAGTTGTGGACTTTGG
1 AAAAGAGTGCCACTGACTTGTGGGCTTTGG
* *
605960 AAAAGA-TGCCACCGACTTGTGGGCTTCGG
1 AAAAGAGTGCCACTGACTTGTGGGCTTTGG
* * *
605989 AAAAGGGTGCCACTAATTTGTGGGC-TT-G
1 AAAAGAGTGCCACTGACTTGTGGGCTTTGG
606017 --AAG-GTTGCCACTGACTTGTGGGCTTT-G
1 AAAAGAG-TGCCACTGACTTGTGGGCTTTGG
* * *
606044 AAAAGGGTGCCACTAACTTGTGGGCTTTTG
1 AAAAGAGTGCCACTGACTTGTGGGCTTTGG
* * *
606074 AAAAGGGTGCCACTAACTTGTGGGCTTAGAAGG
1 AAAAGAGTGCCACTGACTTGTGGGCTT---TGG
* * * * * * *
606107 AAAAAAAGTGCTACAGAGTTGTGAGCTTACAAAAGA
1 -AAAAGAGTGCCACTGACTTGTGGGCTT-----TGG
* * *
606143 AAAAGAGTGCCACGGAGTTGTGGACTTTGG
1 AAAAGAGTGCCACTGACTTGTGGGCTTTGG
* * *
606173 -AAAGA-TG-CACCGACTTATGGGCTTCGG
1 AAAAGAGTGCCACTGACTTGTGGGCTTTGG
* *
606200 AAAAGGGTGCCACTGATTTGTGGGCTTT-G
1 AAAAGAGTGCCACTGACTTGTGGGCTTTGG
*
606229 --AAG-GTTGCCACTGACTTGTGGGCTTTTG
1 AAAAGAG-TGCCACTGACTTGTGGGCTTTGG
* * *
606257 AAAAGGGTGCCACTAACTTGTGGGCTTTTG
1 AAAAGAGTGCCACTGACTTGTGGGCTTTGG
*
606287 AAAAAAGATGCCACTGACTTGTGGGCTTT-G
1 AAAAGAG-TGCCACTGACTTGTGGGCTTTGG
*
606317 AAAAGATTGCCACTGAC-TGTGGGCTTT
1 AAAAGAGTGCCACTGACTTGTGGGCTTT
606344 TGAAGGGTGA
Statistics
Matches: 315, Mismatches: 47, Indels: 46
0.77 0.12 0.11
Matches are distributed among these distances:
25 1 0.00
26 20 0.06
27 41 0.13
28 18 0.06
29 66 0.21
30 101 0.32
31 21 0.07
33 1 0.00
34 20 0.06
35 22 0.07
36 4 0.01
ACGTcount: A:0.26, C:0.16, G:0.31, T:0.27
Consensus pattern (30 bp):
AAAAGAGTGCCACTGACTTGTGGGCTTTGG
Found at i:606065 original size:55 final size:58
Alignment explanation
Indices: 605930--606342 Score: 200
Period size: 57 Copynumber: 6.9 Consensus size: 58
605920 TTACAAAAGA
* * * * * * *
605930 AAAAGAGTGCCACTGAGTTGTGGACTTTGGAAAAGATGCCACCGACTTGTGGGCTTCGG
1 AAAAGGGTGCCACTAACTTGTGGGCTTT-GAAAGGGTGCCACTGACTTGTGGGCTTCGG
* * *
605989 AAAAGGGTGCCACTAATTTGTGGGC-TTG-AAGGTTGCCACTGACTTGTGGGCTT-TG
1 AAAAGGGTGCCACTAACTTGTGGGCTTTGAAAGGGTGCCACTGACTTGTGGGCTTCGG
* *
606044 AAAAGGGTGCCACTAACTTGTGGGCTTTTGAAAAGGGTGCCACTAACTTGTGGGCTTAGAAGG
1 AAAAGGGTGCCACTAACTTGTGGGC-TTTG-AAAGGGTGCCACTGACTTGTGGGCTT---CGG
** * * * * * * * * *
606107 AAAAAAAGTGCTAC-AGAGTTGTGAGCTTACAAAAGAAAAAGAGTGCCACGGAGTTGTGGACTTT
1 -AAAAGGGTGCCACTA-ACTTGTGGGCTT-----TG--AAAGGGTGCCACTGACTTGTGGGCTTC
606171 GG
57 GG
* ** * * * *
606173 -AAA-GATG-CACCGACTTATGGGCTTCGGAAAAGGGTGCCACTGATTTGTGGGCTT-TG
1 AAAAGGGTGCCACTAACTTGTGGGCTT-TG-AAAGGGTGCCACTGACTTGTGGGCTTCGG
* * * * *
606229 --AAGGTTGCCACTGACTTGTGGGCTTTTGAAAAGGGTGCCACTAACTTGTGGGCTTTTGA
1 AAAAGGGTGCCACTAACTTGTGGGC-TTTG-AAAGGGTGCCACTGACTTGTGGGC-TTCGG
* * * **
606288 AAAAAGATGCCACTGACTTGTGGGCTTTGAAAAGATTGCCACTGAC-TGTGGGCTT
1 AAAAGGGTGCCACTAACTTGTGGGCTTTG-AAAGGGTGCCACTGACTTGTGGGCTT
606343 TTGAAGGGTG
Statistics
Matches: 279, Mismatches: 51, Indels: 49
0.74 0.13 0.13
Matches are distributed among these distances:
55 27 0.10
56 26 0.09
57 64 0.23
58 9 0.03
59 51 0.18
60 18 0.06
61 21 0.08
62 11 0.04
63 6 0.02
64 21 0.08
66 2 0.01
68 1 0.00
69 22 0.08
ACGTcount: A:0.26, C:0.16, G:0.31, T:0.27
Consensus pattern (58 bp):
AAAAGGGTGCCACTAACTTGTGGGCTTTGAAAGGGTGCCACTGACTTGTGGGCTTCGG
Found at i:606080 original size:85 final size:86
Alignment explanation
Indices: 605937--606106 Score: 245
Period size: 85 Copynumber: 2.0 Consensus size: 86
605927 AGAAAAAGAG
* *
605937 TGCCACTGAGTTGTGGACTTTGGAAAAGATGCCACCGACTTGTGGGCTTCGGAAAAGGGTGCCAC
1 TGCCACTGACTTGTGGACTTTGGAAAAGATGCCACCAACTTGTGGGCTTCGGAAAAGGGTGCCAC
*
606002 TAATTTGTGGGCTT-GAAGGT
66 TAACTTGTGGGCTTAGAAGGT
* * * **
606022 TGCCACTGACTTGTGGGCTTT-GAAAAGGGTGCCACTAACTTGTGGGCTTTTGAAAAGGGTGCCA
1 TGCCACTGACTTGTGGACTTTGGAAAA-GATGCCACCAACTTGTGGGCTTCGGAAAAGGGTGCCA
606086 CTAACTTGTGGGCTTAGAAGG
65 CTAACTTGTGGGCTTAGAAGG
606107 AAAAAAAGTG
Statistics
Matches: 75, Mismatches: 8, Indels: 3
0.87 0.09 0.03
Matches are distributed among these distances:
84 5 0.07
85 65 0.87
86 5 0.07
ACGTcount: A:0.22, C:0.18, G:0.32, T:0.28
Consensus pattern (86 bp):
TGCCACTGACTTGTGGACTTTGGAAAAGATGCCACCAACTTGTGGGCTTCGGAAAAGGGTGCCAC
TAACTTGTGGGCTTAGAAGGT
Found at i:606236 original size:212 final size:213
Alignment explanation
Indices: 605838--606314 Score: 807
Period size: 213 Copynumber: 2.2 Consensus size: 213
605828 AAAAGGAGAC
* *
605838 GCCACCAACTTGTGTGAGCTTTTGAAAAGGGTGCCACTAACTTGTGGGCTTAAAAGGAAAATAGT
1 GCCACTAACTTGTG-G-GCTTTTGAAAAGGGTGCCACTAACTTGTGGGCTTAAAAGGAAAAAAGT
*
605903 GCTACAGAGTTGTGAGCTTACAAAAGAAAAAGAGTGCCACTGAGTTGTGGACTTTGGAAAAGATG
64 GCTACAGAGTTGTGAGCTTACAAAAGAAAAAGAGTGCCACGGAGTTGTGGACTTTGGAAAAGATG
*
605968 CCACCGACTTGTGGGCTTCGGAAAAGGGTGCCACTAATTTGTGGGCTTGAAGGTTGCCACTGACT
129 CCACCGACTTATGGGCTTCGGAAAAGGGTGCCACTAATTTGTGGGCTTGAAGGTTGCCACTGACT
606033 TGTGGGC-TTTGAAAAGGGT
194 TGTGGGCTTTTGAAAAGGGT
*
606052 GCCACTAACTTGTGGGCTTTTGAAAAGGGTGCCACTAACTTGTGGGCTTAGAAGGAAAAAAAGTG
1 GCCACTAACTTGTGGGCTTTTGAAAAGGGTGCCACTAACTTGTGGGCTTAAAAGG-AAAAAAGTG
606117 CTACAGAGTTGTGAGCTTACAAAAGAAAAAGAGTGCCACGGAGTTGTGGACTTTGG-AAAGATG-
65 CTACAGAGTTGTGAGCTTACAAAAGAAAAAGAGTGCCACGGAGTTGTGGACTTTGGAAAAGATGC
*
606180 CACCGACTTATGGGCTTCGGAAAAGGGTGCCACTGATTTGTGGGCTTTGAAGGTTGCCACTGACT
130 CACCGACTTATGGGCTTCGGAAAAGGGTGCCACTAATTTGTGGGC-TTGAAGGTTGCCACTGACT
606245 TGTGGGCTTTTGAAAAGGGT
194 TGTGGGCTTTTGAAAAGGGT
* * *
606265 GCCACTAACTTGTGGGCTTTTGAAAAAAGATGCCACTGACTTGTGGGCTT
1 GCCACTAACTTGTGGGCTTTTG-AAAAGGGTGCCACTAACTTGTGGGCTT
606315 TGAAAAGATT
Statistics
Matches: 250, Mismatches: 9, Indels: 8
0.94 0.03 0.03
Matches are distributed among these distances:
211 43 0.17
212 72 0.29
213 98 0.39
214 37 0.15
ACGTcount: A:0.27, C:0.16, G:0.30, T:0.26
Consensus pattern (213 bp):
GCCACTAACTTGTGGGCTTTTGAAAAGGGTGCCACTAACTTGTGGGCTTAAAAGGAAAAAAGTGC
TACAGAGTTGTGAGCTTACAAAAGAAAAAGAGTGCCACGGAGTTGTGGACTTTGGAAAAGATGCC
ACCGACTTATGGGCTTCGGAAAAGGGTGCCACTAATTTGTGGGCTTGAAGGTTGCCACTGACTTG
TGGGCTTTTGAAAAGGGT
Found at i:606245 original size:57 final size:56
Alignment explanation
Indices: 606143--606347 Score: 207
Period size: 57 Copynumber: 3.6 Consensus size: 56
606133 TTACAAAAGA
* * * * * *
606143 AAAAGAGTGCCACGGAGTTGTGGACTTTGGAAAGATG-CACCGACTTATGGGCTTCGG
1 AAAAGAGTGCCACTGA-TTGTGGGCTTTTGAAAGATGCCACTGACTTGTGGGCTT-TG
* * *
606200 AAAAGGGTGCCACTGATTTGTGGGC-TTTGAAGGTTGCCACTGACTTGTGGGCTTTTG
1 AAAAGAGTGCCACTGA-TTGTGGGCTTTTGAAAGATGCCACTGACTTGTGGGC-TTTG
* *
606257 AAAAGGGTGCCACTAACTTGTGGGCTTTTGAAAAAAGATGCCACTGACTTGTGGGCTTTG
1 AAAAGAGTGCCACTGA-TTGTGGGCTTTTG---AAAGATGCCACTGACTTGTGGGCTTTG
* *
606317 AAAAGATTGCCACTGACTGTGGGCTTTTGAA
1 AAAAGAGTGCCACTGATTGTGGGCTTTTGAA
606348 GGGTGAGGAA
Statistics
Matches: 124, Mismatches: 18, Indels: 13
0.80 0.12 0.08
Matches are distributed among these distances:
56 10 0.08
57 58 0.47
58 6 0.05
59 12 0.10
60 17 0.14
61 21 0.17
ACGTcount: A:0.24, C:0.17, G:0.31, T:0.28
Consensus pattern (56 bp):
AAAAGAGTGCCACTGATTGTGGGCTTTTGAAAGATGCCACTGACTTGTGGGCTTTG
Found at i:607636 original size:53 final size:55
Alignment explanation
Indices: 607350--608162 Score: 977
Period size: 53 Copynumber: 15.3 Consensus size: 55
607340 TCCGCTTTTT
**
607350 AGTCCTCAAAAGAGCAGGACACCTCTT-AAAGCCCACACAAGTTGGTGGCACCTTCC
1 AGTCCTC-AAAGAGCAGGACACCT-TTCAAAGCCCACACAAGTTGGTGGCATTTTCC
* * *
607406 AGTCCTC-AAGAGCAGGACACCTCTAAAAGCCCACACAAGTTGGTGGCACCTTT-C
1 AGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCA-TTTTCC
607460 AGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCATTTTCC
1 AGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCATTTTCC
*
607515 AGTCCTCAAAGAGCAGGACACCTTTTAAAGCCCACACAAGTTGGTGGCATTTTCC
1 AGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCATTTTCC
607570 AGTCCTC-AAGAGCAGGACA-CTTTCAAAGCCCACACAAGTTGGTGGC-TTTTCC
1 AGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCATTTTCC
*
607622 AGTCCTCAACGAGCAGGACA-CTCTT-AAAGCCCACA-AA-TTGGTGGCATCTTT-C
1 AGTCCTCAAAGAGCAGGACACCT-TTCAAAGCCCACACAAGTTGGTGGCAT-TTTCC
* * **
607674 AGTCCCCAAAGAGCAGGACACC-CTCTAAAGCCCACA-AAGTTGGTGG-ACCTTCTC
1 AGTCCTCAAAGAGCAGGACACCTTTC-AAAGCCCACACAAGTTGGTGGCATTTTC-C
*
607728 AGTCCTCAAAGAGCAGG-CACCTTTC-AAGCCCACACAAGTTGGTGGCATTGTCC
1 AGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCATTTTCC
**
607781 AGT-CTCAAAGAGCA-GACACCTCTT-AAAGCCCACACAAGTTGGTGGCACCTT-C
1 AGTCCTCAAAGAGCAGGACACCT-TTCAAAGCCCACACAAGTTGGTGGCATTTTCC
* * * *
607833 AGTCCCCAAAGAGCA-GACACCTCT-AAAGCCCACACAAGTTGGGGGCACTTT-C
1 AGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCATTTTCC
607885 AGTCCTC-AAGAGCAGGACACCTTTC-AAGCCCACACAAGTTGGTGGCATTTTCC
1 AGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCATTTTCC
*
607938 AGTCCTC-AAGAACAGG-CACCTTTCAAAGCCCAC-CAAGTTGGTGGCATTTTCC
1 AGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCATTTTCC
**
607990 AGTCCTCAAAGAGCA-GACACCTCTT-AAAGCCCACACAAG-TGGTGGCA-CCT-C
1 AGTCCTCAAAGAGCAGGACACCT-TTCAAAGCCCACACAAGTTGGTGGCATTTTCC
* * **
608041 A-TCC-CAAAGAGCAGGACACTTTTCAAAGCCCACAC-AG-GGGTGGGCACCTT-C
1 AGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGT-GGCATTTTCC
* * * *
608092 AGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACGAGTT-GTGGCCTTTT-T
1 AGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCATTTTCC
* *
608145 ACTCCTCAATGAGCAGGA
1 AGTCCTCAAAGAGCAGGA
608163 TACAATTTAT
Statistics
Matches: 675, Mismatches: 45, Indels: 77
0.85 0.06 0.10
Matches are distributed among these distances:
49 16 0.02
50 24 0.04
51 23 0.03
52 170 0.25
53 229 0.34
54 102 0.15
55 104 0.15
56 7 0.01
ACGTcount: A:0.29, C:0.31, G:0.21, T:0.20
Consensus pattern (55 bp):
AGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCATTTTCC
Found at i:607843 original size:105 final size:105
Alignment explanation
Indices: 607350--608138 Score: 933
Period size: 105 Copynumber: 7.4 Consensus size: 105
607340 TCCGCTTTTT
607350 AGTCCTCAAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCACCTTCCAGTCCTC-A
1 AGTCCTC-AAAGAGCAGGACACCT-TTAAAGCCCACACAAGTTGGTGGCACCTTCCAGTCCTCAA
*
607414 AGAGCAGGACACCTCTAAAAGCCCACACAAGTTGGTGGCACCTTTC
64 AGAGCAGG-CACCT-TTAAAGCCCACACAAGTTGGTGGCA--TTTC
**
607460 AGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAA
1 AGTCCTCAAAGAGCAGGACACCTTT-AAAGCCCACACAAGTTGGTGGCACCTTCCAGTCCTCAAA
607525 GAGCAGGACACCTTTTAAAGCCCACACAAGTTGGTGGCATTTTCC
65 GAGCAGG-CACC-TTTAAAGCCCACACAAGTTGGTGGCA-TTT-C
** *
607570 AGTCCTC-AAGAGCAGGACA-CTTTCAAAGCCCACACAAGTTGGTGGC-TTTTCCAGTCCTCAAC
1 AGTCCTCAAAGAGCAGGACACCTTT-AAAGCCCACACAAGTTGGTGGCACCTTCCAGTCCTCAAA
607632 GAGCAGG-ACACTCTTAAAGCCCACA-AA-TTGGTGGCATCTTTC
65 GAGCAGGCAC-CT-TTAAAGCCCACACAAGTTGGTGGCA--TTTC
* *
607674 AGTCCCCAAAGAGCAGGACACCCTCTAAAGCCCACA-AAGTTGGTGG-ACCTTCTCAGTCCTCAA
1 AGTCCTCAAAGAGCAGGACA-CCTTTAAAGCCCACACAAGTTGGTGGCACCTTC-CAGTCCTCAA
*
607737 AGAGCAGGCACCTTTCAAGCCCACACAAGTTGGTGGCATTGTCC
64 AGAGCAGGCACCTTTAAAGCCCACACAAGTTGGTGGCATT-T-C
*
607781 AGT-CTCAAAGAGCA-GACACCTCTTAAAGCCCACACAAGTTGGTGGCACCTT-CAGTCCCCAAA
1 AGTCCTCAAAGAGCAGGACACCT-TTAAAGCCCACACAAGTTGGTGGCACCTTCCAGTCCTCAAA
* * *
607843 GAGCAGACACCTCTAAAGCCCACACAAGTTGGGGGCACTTTC
65 GAGCAGGCACCTTTAAAGCCCACACAAGTTGGTGGCA-TTTC
* **
607885 AGTCCTC-AAGAGCAGGACACCTTTCAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTC-AAG
1 AGTCCTCAAAGAGCAGGACACCTTTAAAGCCCACACAAGTTGGTGGCACCTTCCAGTCCTCAAAG
*
607948 AACAGGCACCTTTCAAAGCCCAC-CAAGTTGGTGGCATTTTCC
66 AGCAGGCACCTTT-AAAGCCCACACAAGTTGGTGGCA-TTT-C
607990 AGTCCTCAAAGAGCA-GACACCTCTTAAAGCCCACACAAG-TGGTGGCACC-T-CA-TCC-CAAA
1 AGTCCTCAAAGAGCAGGACACCT-TTAAAGCCCACACAAGTTGGTGGCACCTTCCAGTCCTCAAA
* * *
608049 GAGCAGGACACTTTTCAAAGCCCACAC-AG-GGGTGGGCACCTTC
65 GAGCAGG-CACCTTT-AAAGCCCACACAAGTTGGT-GGCA-TTTC
* *
608092 AGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACGAGTT-GTGGC
1 AGTCCTCAAAGAGCAGGACACCTTT-AAAGCCCACACAAGTTGGTGGC
608139 CTTTTTACTC
Statistics
Matches: 606, Mismatches: 38, Indels: 77
0.84 0.05 0.11
Matches are distributed among these distances:
101 1 0.00
102 32 0.05
103 50 0.08
104 87 0.14
105 154 0.25
106 89 0.15
107 45 0.07
108 29 0.05
109 65 0.11
110 53 0.09
111 1 0.00
ACGTcount: A:0.29, C:0.31, G:0.21, T:0.20
Consensus pattern (105 bp):
AGTCCTCAAAGAGCAGGACACCTTTAAAGCCCACACAAGTTGGTGGCACCTTCCAGTCCTCAAAG
AGCAGGCACCTTTAAAGCCCACACAAGTTGGTGGCATTTC
Found at i:608763 original size:1 final size:1
Alignment explanation
Indices: 608757--608803 Score: 67
Period size: 1 Copynumber: 47.0 Consensus size: 1
608747 TAAGTGTTTG
***
608757 AAAAAAAAAAAAAAAAAAAAAAAAAAAATTGAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
608804 TTTAAATGTA
Statistics
Matches: 43, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
1 43 1.00
ACGTcount: A:0.94, C:0.00, G:0.02, T:0.04
Consensus pattern (1 bp):
A
Found at i:608804 original size:19 final size:18
Alignment explanation
Indices: 608757--608805 Score: 75
Period size: 19 Copynumber: 2.8 Consensus size: 18
608747 TAAGTGTTTG
608757 AAAAAAAAAAAA--AAAA
1 AAAAAAAAAAAATTAAAA
608773 AAAAAAAAAAAATTGAAAA
1 AAAAAAAAAAAATT-AAAA
608792 AAAAAAAAAAAATT
1 AAAAAAAAAAAATT
608806 TAAATGTATC
Statistics
Matches: 30, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
16 12 0.40
19 18 0.60
ACGTcount: A:0.90, C:0.00, G:0.02, T:0.08
Consensus pattern (18 bp):
AAAAAAAAAAAATTAAAA
Found at i:608861 original size:20 final size:21
Alignment explanation
Indices: 608808--608882 Score: 100
Period size: 21 Copynumber: 3.7 Consensus size: 21
608798 AAAAAATTTA
608808 AATGTATCGATACATTTGTAG
1 AATGTATCGATACATTTGTAG
*
608829 AATGTATCGATACATTTGTGG
1 AATGTATCGATACATTTGTAG
** *
608850 AATGTA-CGATACA-TCCTAC
1 AATGTATCGATACATTTGTAG
608869 AATGTATCGATACA
1 AATGTATCGATACA
608883 GGCCCAAACG
Statistics
Matches: 48, Mismatches: 5, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
19 8 0.17
20 14 0.29
21 26 0.54
ACGTcount: A:0.35, C:0.15, G:0.17, T:0.33
Consensus pattern (21 bp):
AATGTATCGATACATTTGTAG
Found at i:608941 original size:19 final size:19
Alignment explanation
Indices: 608917--608983 Score: 76
Period size: 19 Copynumber: 3.9 Consensus size: 19
608907 AATTCAACAA
608917 TTTGTATCGATACATAAGT
1 TTTGTATCGATACATAAGT
608936 TTTGTATCGATAC--AA--
1 TTTGTATCGATACATAAGT
608951 --TGTATCGATACATAAGT
1 TTTGTATCGATACATAAGT
*
608968 ATTGTAT-GATACATAA
1 TTTGTATCGATACATAA
608984 TTAGGCTACT
Statistics
Matches: 42, Mismatches: 0, Indels: 13
0.76 0.00 0.24
Matches are distributed among these distances:
13 11 0.26
15 2 0.05
17 2 0.05
18 9 0.21
19 18 0.43
ACGTcount: A:0.36, C:0.10, G:0.15, T:0.39
Consensus pattern (19 bp):
TTTGTATCGATACATAAGT
Found at i:608956 original size:13 final size:13
Alignment explanation
Indices: 608938--608962 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
608928 ACATAAGTTT
608938 TGTATCGATACAA
1 TGTATCGATACAA
608951 TGTATCGATACA
1 TGTATCGATACA
608963 TAAGTATTGT
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:608960 original size:32 final size:31
Alignment explanation
Indices: 608919--608980 Score: 106
Period size: 32 Copynumber: 2.0 Consensus size: 31
608909 TTCAACAATT
*
608919 TGTATCGATACATAAGTTTTGTATCGATACAA
1 TGTATCGATACATAAGTATTGTAT-GATACAA
608951 TGTATCGATACATAAGTATTGTATGATACA
1 TGTATCGATACATAAGTATTGTATGATACA
608981 TAATTAGGCT
Statistics
Matches: 29, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
31 6 0.21
32 23 0.79
ACGTcount: A:0.35, C:0.11, G:0.16, T:0.37
Consensus pattern (31 bp):
TGTATCGATACATAAGTATTGTATGATACAA
Found at i:611476 original size:26 final size:26
Alignment explanation
Indices: 611447--611512 Score: 98
Period size: 25 Copynumber: 2.6 Consensus size: 26
611437 TCTTCACAAT
611447 CGGGGATACTCCAACCCCGTTAATCA
1 CGGGGATACTCCAACCCCGTTAATCA
* **
611473 CGGGGATACTCCAA-CCCGTTATTTT
1 CGGGGATACTCCAACCCCGTTAATCA
611498 CGGGGATACTCCAAC
1 CGGGGATACTCCAAC
611513 TCTGGTTTTT
Statistics
Matches: 36, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
25 22 0.61
26 14 0.39
ACGTcount: A:0.24, C:0.32, G:0.21, T:0.23
Consensus pattern (26 bp):
CGGGGATACTCCAACCCCGTTAATCA
Found at i:611690 original size:28 final size:29
Alignment explanation
Indices: 611658--611728 Score: 90
Period size: 29 Copynumber: 2.5 Consensus size: 29
611648 TTCACAATCA
* * **
611658 GGATACTCCAACCTCGTTA-TTTCATCGG
1 GGATACTCCAACCCCGTAACTTTCAGAGG
*
611686 GGATACTCCAACCCCGTAACTTTCCGAGG
1 GGATACTCCAACCCCGTAACTTTCAGAGG
611715 GGATACTCCAACCC
1 GGATACTCCAACCC
611729 GGCTTTATTC
Statistics
Matches: 37, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
28 17 0.46
29 20 0.54
ACGTcount: A:0.24, C:0.34, G:0.18, T:0.24
Consensus pattern (29 bp):
GGATACTCCAACCCCGTAACTTTCAGAGG
Found at i:611717 original size:107 final size:106
Alignment explanation
Indices: 611606--611808 Score: 250
Period size: 107 Copynumber: 1.9 Consensus size: 106
611596 TCCTTTAATC
* * *
611606 GGGGATACTCCAACTCCGATTTTATTTCC-AAAATACCAATTTTTCACAATCA-GGATACTCCAA
1 GGGGATACTCCAAC-CCGACTTTATTCCCAAAAAT-CCAATTTCTCACAATCAGGGATACTCCAA
611669 CCTCGTTATTTCATCG-GGGATACTCCAACCCCGTAACTTTCCGA
64 CCTCGTTATTT--TCGAGGGATACTCCAACCCCGTAACTTTCCGA
* *** * *
611713 GGGGATACTCCAACCCGGCTTTATTCCCAAAAATTTGATTTCTCATAATTAGGGATACTCCAACC
1 GGGGATACTCCAACCCGACTTTATTCCCAAAAATCCAATTTCTCACAATCAGGGATACTCCAACC
*
611778 TCGTTATTTTCGAAGGGATACTCCAATCCCG
66 TCGTTATTTTCG-AGGGATACTCCAACCCCG
611809 ATTTTTCTAA
Statistics
Matches: 82, Mismatches: 10, Indels: 8
0.82 0.10 0.08
Matches are distributed among these distances:
105 3 0.04
106 22 0.27
107 57 0.70
ACGTcount: A:0.28, C:0.28, G:0.15, T:0.30
Consensus pattern (106 bp):
GGGGATACTCCAACCCGACTTTATTCCCAAAAATCCAATTTCTCACAATCAGGGATACTCCAACC
TCGTTATTTTCGAGGGATACTCCAACCCCGTAACTTTCCGA
Found at i:611898 original size:27 final size:26
Alignment explanation
Indices: 611844--611898 Score: 67
Period size: 27 Copynumber: 2.0 Consensus size: 26
611834 AACCGGGGAT
*
611844 ACTCCAGCCCCGTATTTTCCAAGGAAC
1 ACTCCAACCCCGTATTTTCCAA-GAAC
611871 ACTCCAACCCCGTTATTATTCCAA-AAC
1 ACTCCAACCCCG-TATT-TTCCAAGAAC
611898 A
1 A
611899 TTAAATTTCT
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
27 15 0.60
28 4 0.16
29 6 0.24
ACGTcount: A:0.31, C:0.36, G:0.09, T:0.24
Consensus pattern (26 bp):
ACTCCAACCCCGTATTTTCCAAGAAC
Found at i:617329 original size:15 final size:15
Alignment explanation
Indices: 617305--617360 Score: 71
Period size: 15 Copynumber: 3.8 Consensus size: 15
617295 CCTTCTCTTC
617305 AAGC-AAAAAAAAAA
1 AAGCAAAAAAAAAAA
617319 AAGCAAAAAAAAAAA
1 AAGCAAAAAAAAAAA
* *
617334 AAACAAAAAAAACAA
1 AAGCAAAAAAAAAAA
617349 AA-CAAAGAAAAA
1 AAGCAAA-AAAAA
617361 GAGAGAAAAG
Statistics
Matches: 38, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
14 8 0.21
15 30 0.79
ACGTcount: A:0.86, C:0.09, G:0.05, T:0.00
Consensus pattern (15 bp):
AAGCAAAAAAAAAAA
Found at i:617376 original size:1 final size:1
Alignment explanation
Indices: 617309--617360 Score: 50
Period size: 1 Copynumber: 52.0 Consensus size: 1
617299 CTCTTCAAGC
** * * * *
617309 AAAAAAAAAAAAGCAAAAAAAAAAAAAACAAAAAAAACAAAACAAAGAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
617361 GAGAGAAAAG
Statistics
Matches: 40, Mismatches: 11, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
1 40 1.00
ACGTcount: A:0.88, C:0.08, G:0.04, T:0.00
Consensus pattern (1 bp):
A
Found at i:618419 original size:26 final size:26
Alignment explanation
Indices: 618389--618478 Score: 83
Period size: 26 Copynumber: 3.3 Consensus size: 26
618379 AAGTTGGTGG
618389 CACCTTTCAGTCCTCAAAGAGCAGGA
1 CACCTTTCAGTCCTCAAAGAGCAGGA
* * * * **
618415 CACCTCTTAAAGCCCACACAAGTTGGTGG-
1 CACCT-TT-CAGTCCTCA-AAG-AGCAGGA
618444 CACCTTTCAGTCCTCAAAGAGCAGGA
1 CACCTTTCAGTCCTCAAAGAGCAGGA
618470 CACCTTTCA
1 CACCTTTCA
618479 AAGCCCACAC
Statistics
Matches: 47, Mismatches: 12, Indels: 10
0.68 0.17 0.14
Matches are distributed among these distances:
25 3 0.06
26 17 0.36
27 8 0.17
28 8 0.17
29 8 0.17
30 3 0.06
ACGTcount: A:0.29, C:0.32, G:0.18, T:0.21
Consensus pattern (26 bp):
CACCTTTCAGTCCTCAAAGAGCAGGA
Found at i:618426 original size:55 final size:55
Alignment explanation
Indices: 618342--619184 Score: 1273
Period size: 55 Copynumber: 15.3 Consensus size: 55
618332 TCCGCTTTTT
618342 AGTCCTCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCACCTTTC
1 AGTCCTCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCACCTTTC
618397 AGTCCTCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCACCTTTC
1 AGTCCTCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCACCTTTC
*
618452 AGTCCTCAAAGAGCAGGACACCT-TTCAAAGCCCACACAAGTTGGTGGCA-TTTTCC
1 AGTCCTCAAAGAGCAGGACACCTCTT-AAAGCCCACACAAGTTGGTGGCACCTTT-C
* *
618507 AGTCCTCAAAGAGCAGGACACCTTTTAAAGCCCACACAAGTTGGTGGCA-TTTTCC
1 AGTCCTCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCACCTTT-C
*
618562 AGTCCTCAAAGAGCAGGACACCT-TTCAAAGCCCACACAAGTTGGTGGCA-TTTTCC
1 AGTCCTCAAAGAGCAGGACACCTCTT-AAAGCCCACACAAGTTGGTGGCACCTTT-C
* *
618617 AGTCCTCAACGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCATCTTTC
1 AGTCCTCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCACCTTTC
*
618672 AGTCCCCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCACCTTTC
1 AGTCCTCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCACCTTTC
618727 AGTCCTCAAAGAGCAGGACACCT-TTCAAAGCCCACACAAGTTGGTGGCA--TTGTCC
1 AGTCCTCAAAGAGCAGGACACCTCTT-AAAGCCCACACAAGTTGGTGGCACCTT-T-C
618782 AGTCCTCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCACCTTTC
1 AGTCCTCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCACCTTTC
*
618837 AGTCCCCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCACCTTTC
1 AGTCCTCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCACCTTTC
*
618892 AGTCCTCAAAGAGCAGGACACCT-TTCAAAGCCCACACAAGTTGGTGGCA-TTTTCC
1 AGTCCTCAAAGAGCAGGACACCTCTT-AAAGCCCACACAAGTTGGTGGCACCTTT-C
* *
618947 AGTCCTCAAAGAACAGGACACCT-TTCAAAGCCCACACAAGTTGGTGGCA-TTTTCC
1 AGTCCTCAAAGAGCAGGACACCTCTT-AAAGCCCACACAAGTTGGTGGCACCTTT-C
619002 AGTCCTCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCACCTTTC
1 AGTCCTCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCACCTTTC
* * * *
619057 ATTCCCCAAAGAGCAGGACA-CTTTTCAAAGCCCACACAAGTGGGTGGCACCTTTC
1 AGTCCTCAAAGAGCAGGACACCTCTT-AAAGCCCACACAAGTTGGTGGCACCTTTC
* * * *
619112 AGTCCTCAAAGAGCAGGACGCCT-TTCAAAGCCCACACGAGTTGGTGGCACTTTTT
1 AGTCCTCAAAGAGCAGGACACCTCTT-AAAGCCCACACAAGTTGGTGGCACCTTTC
* *
619167 ACTCCTCAATGAGCAGGA
1 AGTCCTCAAAGAGCAGGA
619185 TACAATTTAT
Statistics
Matches: 744, Mismatches: 26, Indels: 36
0.92 0.03 0.04
Matches are distributed among these distances:
53 2 0.00
54 19 0.03
55 704 0.95
56 17 0.02
57 2 0.00
ACGTcount: A:0.29, C:0.30, G:0.20, T:0.21
Consensus pattern (55 bp):
AGTCCTCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCACCTTTC
Found at i:619786 original size:1 final size:1
Alignment explanation
Indices: 619780--619828 Score: 71
Period size: 1 Copynumber: 49.0 Consensus size: 1
619770 AAAGTGTTTG
***
619780 AAAAAAAAAAAAAAAAAAAAAAAAAAAATTGAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
619829 TTTAAATGTA
Statistics
Matches: 45, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
1 45 1.00
ACGTcount: A:0.94, C:0.00, G:0.02, T:0.04
Consensus pattern (1 bp):
A
Found at i:619829 original size:21 final size:21
Alignment explanation
Indices: 619790--619830 Score: 82
Period size: 21 Copynumber: 2.0 Consensus size: 21
619780 AAAAAAAAAA
619790 AAAAAAAAAAAAAAAAAATTG
1 AAAAAAAAAAAAAAAAAATTG
619811 AAAAAAAAAAAAAAAAAATT
1 AAAAAAAAAAAAAAAAAATT
619831 TAAATGTATC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.88, C:0.00, G:0.02, T:0.10
Consensus pattern (21 bp):
AAAAAAAAAAAAAAAAAATTG
Found at i:619857 original size:21 final size:21
Alignment explanation
Indices: 619833--619889 Score: 105
Period size: 21 Copynumber: 2.7 Consensus size: 21
619823 AAAAAATTTA
619833 AATGTATCGATACATTTGTAG
1 AATGTATCGATACATTTGTAG
*
619854 AATGTATCGATACATTTGTGG
1 AATGTATCGATACATTTGTAG
619875 AATGTATCGATACAT
1 AATGTATCGATACAT
619890 CCTACAAATG
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 35 1.00
ACGTcount: A:0.33, C:0.11, G:0.19, T:0.37
Consensus pattern (21 bp):
AATGTATCGATACATTTGTAG
Found at i:619969 original size:19 final size:19
Alignment explanation
Indices: 619945--620012 Score: 85
Period size: 19 Copynumber: 3.9 Consensus size: 19
619935 AATTCAACAA
619945 TTTGTATCGATACATAAGT
1 TTTGTATCGATACATAAGT
619964 TTTGTATCGATAC--AA--
1 TTTGTATCGATACATAAGT
619979 --TGTATCGATACATAAGT
1 TTTGTATCGATACATAAGT
*
619996 ATTGTATCGATACATAA
1 TTTGTATCGATACATAA
620013 TTAGCTACTG
Statistics
Matches: 43, Mismatches: 0, Indels: 12
0.78 0.00 0.22
Matches are distributed among these distances:
13 11 0.26
15 2 0.05
17 2 0.05
19 28 0.65
ACGTcount: A:0.35, C:0.12, G:0.15, T:0.38
Consensus pattern (19 bp):
TTTGTATCGATACATAAGT
Found at i:619984 original size:13 final size:13
Alignment explanation
Indices: 619966--619990 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
619956 ACATAAGTTT
619966 TGTATCGATACAA
1 TGTATCGATACAA
619979 TGTATCGATACA
1 TGTATCGATACA
619991 TAAGTATTGT
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:619988 original size:32 final size:32
Alignment explanation
Indices: 619947--620009 Score: 117
Period size: 32 Copynumber: 2.0 Consensus size: 32
619937 TTCAACAATT
*
619947 TGTATCGATACATAAGTTTTGTATCGATACAA
1 TGTATCGATACATAAGTATTGTATCGATACAA
619979 TGTATCGATACATAAGTATTGTATCGATACA
1 TGTATCGATACATAAGTATTGTATCGATACA
620010 TAATTAGCTA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.35, C:0.13, G:0.16, T:0.37
Consensus pattern (32 bp):
TGTATCGATACATAAGTATTGTATCGATACAA
Found at i:620070 original size:13 final size:13
Alignment explanation
Indices: 620052--620077 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
620042 CATTTTTCTG
620052 TGTATCGATACAT
1 TGTATCGATACAT
620065 TGTATCGATACAT
1 TGTATCGATACAT
620078 GGATCTTTGT
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:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:620074 original size:33 final size:33
Alignment explanation
Indices: 620032--620098 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
620022 GCCAAGGAAA
***
620032 TGTATCGATACATTTTTCTGTGTATCGATACAT
1 TGTATCGATACATGGATCTGTGTATCGATACAT
*
620065 TGTATCGATACATGGATCTTTGTATCGATACAT
1 TGTATCGATACATGGATCTGTGTATCGATACAT
620098 T
1 T
620099 TGGAAATTTT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.25, C:0.15, G:0.16, T:0.43
Consensus pattern (33 bp):
TGTATCGATACATGGATCTGTGTATCGATACAT
Found at i:622647 original size:52 final size:52
Alignment explanation
Indices: 622562--622730 Score: 168
Period size: 52 Copynumber: 3.2 Consensus size: 52
622552 TTATTTTCGA
* *
622562 GGGGATACTCCAA-CTCTGGTTTTATCGTT-AAAACACTAATTTTTCCACAATC
1 GGGGATACTCCAATC-CTGGTTTTAT-TTTCAAAACACCAATTTTTCCACAATC
* * **
622614 GGGGATACTCTAATCCTGGTTTTATTTTCAAAACGCCAA-TTTTCCTTTAATC
1 GGGGATACTCCAATCCTGGTTTTATTTTCAAAACACCAATTTTTCC-ACAATC
* * *
622666 GGGGATACTCCAACTCC-GATTTTATTTCCAAAAATACCAATTTTT-CACAATC
1 GGGGATACTCCAA-TCCTGGTTTTATTTTC-AAAACACCAATTTTTCCACAATC
*
622718 GAGGATACTCCAA
1 GGGGATACTCCAA
622731 CCTCGTTATT
Statistics
Matches: 97, Mismatches: 14, Indels: 12
0.79 0.11 0.10
Matches are distributed among these distances:
51 8 0.08
52 72 0.74
53 13 0.13
54 4 0.04
ACGTcount: A:0.30, C:0.23, G:0.13, T:0.34
Consensus pattern (52 bp):
GGGGATACTCCAATCCTGGTTTTATTTTCAAAACACCAATTTTTCCACAATC
Found at i:622751 original size:28 final size:28
Alignment explanation
Indices: 622715--622791 Score: 100
Period size: 28 Copynumber: 2.8 Consensus size: 28
622705 ATTTTTCACA
* * *
622715 ATCGAGGATACTCCAACCTCGTTATTTC
1 ATCGGGGATACTCCAACCCCGTTACTTC
622743 ATCGGGGATACTCCAACCCCGTTACTTC
1 ATCGGGGATACTCCAACCCCGTTACTTC
***
622771 CGAGGGGATACTCCAACCCCG
1 ATCGGGGATACTCCAACCCCG
622792 GCTTTATTCC
Statistics
Matches: 43, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
28 43 1.00
ACGTcount: A:0.23, C:0.34, G:0.19, T:0.23
Consensus pattern (28 bp):
ATCGGGGATACTCCAACCCCGTTACTTC
Found at i:622921 original size:76 final size:78
Alignment explanation
Indices: 622745--622946 Score: 214
Period size: 76 Copynumber: 2.6 Consensus size: 78
622735 GTTATTTCAT
* * * *
622745 CGGGGATACTCCAACCCCGTTACTTCCGAGGGGATACTCCAACCCCGGCTTTATTCCCAAAATAT
1 CGGGGATACTCCAACCCCGTTATTTTCGAAGGGATACTCCAACCCC-GATTTATTCCCAAAATAT
* * *
622810 TGATTTCTCATAAT
65 CGATTTCTCACAAC
** * * * *
622824 TAGGGATACTCCAACCTCGTTATTTTCGAAGGGATACTCCAATCCCGATTT-TT-TC-TAATCAT
1 CGGGGATACTCCAACCCCGTTATTTTCGAAGGGATACTCCAACCCCGATTTATTCCCAAAAT-AT
622886 CGATTTCTCACAAC
65 CGATTTCTCACAAC
* *
622900 CGGGGATACTCCAGCCCCGTTATTTTC-AAGGGAACACTCCAACCCCG
1 CGGGGATACTCCAACCCCGTTATTTTCGAAGGG-ATACTCCAACCCCG
622947 TTATTATCTC
Statistics
Matches: 102, Mismatches: 19, Indels: 7
0.80 0.15 0.05
Matches are distributed among these distances:
75 8 0.08
76 49 0.48
77 2 0.02
78 4 0.04
79 39 0.38
ACGTcount: A:0.25, C:0.30, G:0.16, T:0.28
Consensus pattern (78 bp):
CGGGGATACTCCAACCCCGTTATTTTCGAAGGGATACTCCAACCCCGATTTATTCCCAAAATATC
GATTTCTCACAAC
Found at i:626252 original size:52 final size:52
Alignment explanation
Indices: 626174--626302 Score: 224
Period size: 52 Copynumber: 2.5 Consensus size: 52
626164 CGAAATATGA
*
626174 AAATTTGCCTGCATGTATCGATACATT-TAATAGTGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTATAA-AATGTATCGATACATCTGGGC
626226 AAATTTGCCTGCATGTATCGATACATTATAAAATGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTATAAAATGTATCGATACATCTGGGC
*
626278 AAATTTGCCTACATGTATCGATACA
1 AAATTTGCCTGCATGTATCGATACA
626303 AAGATCAGTG
Statistics
Matches: 74, Mismatches: 2, Indels: 2
0.95 0.03 0.03
Matches are distributed among these distances:
52 71 0.96
53 3 0.04
ACGTcount: A:0.32, C:0.18, G:0.17, T:0.33
Consensus pattern (52 bp):
AAATTTGCCTGCATGTATCGATACATTATAAAATGTATCGATACATCTGGGC
Found at i:626315 original size:52 final size:50
Alignment explanation
Indices: 626174--626322 Score: 201
Period size: 52 Copynumber: 2.9 Consensus size: 50
626164 CGAAATATGA
*
626174 AAATTTGCCTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACA--AAATAGTGTATCGATACATCTGGGC
*
626226 AAATTTGCCTGCATGTATCGATACATTATAA-AATGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACA--A-AATAGTGTATCGATACATCTGGGC
*
626278 AAATTTGCCTACATGTATCGATACAAAGATCAGTGTATCGATACA
1 AAATTTGCCTGCATGTATCGATACAAA-AT-AGTGTATCGATACA
626323 ATGTATCGAT
Statistics
Matches: 89, Mismatches: 4, Indels: 8
0.88 0.04 0.08
Matches are distributed among these distances:
49 1 0.01
50 2 0.02
52 84 0.94
53 2 0.02
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.32
Consensus pattern (50 bp):
AAATTTGCCTGCATGTATCGATACAAAATAGTGTATCGATACATCTGGGC
Found at i:626329 original size:13 final size:13
Alignment explanation
Indices: 626311--626335 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
626301 CAAAGATCAG
626311 TGTATCGATACAA
1 TGTATCGATACAA
626324 TGTATCGATACA
1 TGTATCGATACA
626336 TTTTTTGGCA
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:626412 original size:33 final size:33
Alignment explanation
Indices: 626355--626421 Score: 89
Period size: 33 Copynumber: 2.0 Consensus size: 33
626345 AGTAGCTTAA
*
626355 ATTGTATCGATACAAAAAAATATGTATCGTTAC
1 ATTGTATCGATACAAAAAAATATGTATCGATAC
* ***
626388 ATTGTATCGATACAACACTTTATGTATCGATAC
1 ATTGTATCGATACAAAAAAATATGTATCGATAC
626421 A
1 A
626422 AATCGTTGAA
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:0.39, C:0.15, G:0.12, T:0.34
Consensus pattern (33 bp):
ATTGTATCGATACAAAAAAATATGTATCGATAC
Found at i:627287 original size:55 final size:52
Alignment explanation
Indices: 627187--627924 Score: 404
Period size: 49 Copynumber: 15.6 Consensus size: 52
627177 GAAAAGTGAT
* * * * * **
627187 AAAGATGCCAATATGTTGATTCACGGCCAACAATATTGGGCTTAAAGATGAGAA
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCAACATTGAACTTAAAGATG-G-A
* *
627241 AAAGGATGTCAATGTGCTGATTCAAGGCCAGCAACATTGAACTTAAAGATGGA
1 AAAGG-TGCCAATATGCTGATTCAAGGCCAGCAACATTGAACTTAAAGATGGA
* * *
627294 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTT-----T---
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCAACATTGAACTTAAAGATGGA
* * * *
627338 -AAGGTGCCAATGTGCTGATTCAATGCCAGCTACATTGGACTTAAAGAT---
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCAACATTGAACTTAAAGATGGA
* * * *
627386 AAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGCT-G-
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCAACATTGAACTTAAAGATGGA
* * *
627436 -AAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGAC-T-----T---
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCAACATTGAACTTAAAGATGGA
* * *
627478 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGA---A
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCAACATTGAACTTAAAGATGGA
* * * *
627527 GAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGAC-T-----T---
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCAACATTGAACTTAAAGATGGA
* * *
627570 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGA---A
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCAACATTGAACTTAAAGATGGA
* * * *
627619 GAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGAC-T-----T---
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCAACATTGAACTTAAAGATGGA
* * *
627662 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGA---A
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCAACATTGAACTTAAAGATGGA
* * * * *
627711 GAAGGTGCCAATATACTGATTCAAGGCCAGCTATATTGGAC-T-----T---
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCAACATTGAACTTAAAGATGGA
* * * *
627754 AAAGGTACCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGA---A
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCAACATTGAACTTAAAGATGGA
* * * *
627803 GAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGAC-T-----T---
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCAACATTGAACTTAAAGATGGA
* * *
627846 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTT-AA-A--GA
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCAACATTGAACTTAAAGATGGA
*
627894 CAAGGTGCCAATATGCTGATTCAAGGCCAGC
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGC
627925 TATATTGGGT
Statistics
Matches: 580, Mismatches: 57, Indels: 100
0.79 0.08 0.14
Matches are distributed among these distances:
43 226 0.39
44 5 0.01
47 1 0.00
48 35 0.06
49 232 0.40
52 33 0.06
53 6 0.01
54 5 0.01
55 37 0.06
ACGTcount: A:0.33, C:0.18, G:0.25, T:0.25
Consensus pattern (52 bp):
AAAGGTGCCAATATGCTGATTCAAGGCCAGCAACATTGAACTTAAAGATGGA
Found at i:627512 original size:141 final size:138
Alignment explanation
Indices: 627240--627932 Score: 881
Period size: 141 Copynumber: 4.9 Consensus size: 138
627230 AAAGATGAGA
* * * * *
627240 AAAAGGATGTCAATGTGCTGATTCAAGGCCAGCAACATTGAACTTAAAGATGGAAAAGGTGCCAA
1 AAAAGG-TGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTT-AA-A-GG--AAGGTGCCAA
* *
627305 TATGCTGATTCAAGGCCAGCTATATTGGACTTTAAGGTGCCAATGTGCTGATTCAATGCCAGCTA
60 TATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGGTGCCAATGTGCTGATTCAAGGCCAGCTA
627370 CATTGGACTTAAAG
125 CATTGGACTTAAAG
627384 ATAAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGCTGAAGGTGCCAATAT
1 A-AAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAG--GAAGGTGCCAATAT
*
627449 GCTGATTCAAGGCCAGCGATATTGGACTTAAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACAT
63 GCTGATTCAAGGCCAGCTATATTGGACTTAAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACAT
627514 TGGACTTAAAG
128 TGGACTTAAAG
*
627525 AAGAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTT--A--AAGGTGCCAATGTGC
1 AA-AAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGGAAGGTGCCAATATGC
* *
627586 TGATTCAAGGCCAGCTACATTGGACTTAAAGAAGAAGGTGCCAATATGCTGATTCAAGGCCAGCT
65 TGATTCAAGGCCAGCTATATTGGACTT-----A-AAGGTGCCAATGTGCTGATTCAAGGCCAGCT
*
627651 ATATTGGACTT----
124 ACATTGGACTTAAAG
* * * *
627662 -AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAAGAAGGTGCCAATATA
1 AAAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAG--GAAGGTGCCAATATG
*
627726 CTGATTCAAGGCCAGCTATATTGGACTTAAAGGTACCAATGTGCTGATTCAAGGCCAGCTACATT
64 CTGATTCAAGGCCAGCTATATTGGACTTAAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATT
627791 GGACTTAAAG
129 GGACTTAAAG
* *
627801 AAGAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTT--A--AAGGTGCCAATGTGC
1 AA-AAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGGAAGGTGCCAATATGC
* *
627862 TGATTCAAGGCCAGCTACATTGGACTTAAAGACAAGGTGCCAATATGCTGATTCAAGGCCAGCTA
65 TGATTCAAGGCCAGCTATATTGGACTT----A-AAGGTGCCAATGTGCTGATTCAAGGCCAGCTA
*
627927 TATTGG
125 CATTGG
627933 GTTTAAAAGG
Statistics
Matches: 492, Mismatches: 30, Indels: 58
0.85 0.05 0.10
Matches are distributed among these distances:
135 156 0.32
136 2 0.00
137 1 0.00
139 3 0.01
140 38 0.08
141 249 0.51
142 1 0.00
143 3 0.01
144 34 0.07
145 5 0.01
ACGTcount: A:0.32, C:0.18, G:0.25, T:0.25
Consensus pattern (138 bp):
AAAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGGAAGGTGCCAATATGCT
GATTCAAGGCCAGCTATATTGGACTTAAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGG
ACTTAAAG
Found at i:627942 original size:92 final size:92
Alignment explanation
Indices: 627294--627932 Score: 1031
Period size: 92 Copynumber: 7.0 Consensus size: 92
627284 TAAAGATGGA
* * * *
627294 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTT------TAAGGTGCCAATGTGC
1 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAAGAAGGTGCCAATATGC
* *
627353 TGATTCAATGCCAGCTACATTGGACTTAAAGAT
66 TGATTCAAGGCCAGCTATATTGGAC-T-----T
* * * **
627386 AAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGCTGAAGGTGCCAATATGC
1 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAAGAAGGTGCCAATATGC
*
627451 TGATTCAAGGCCAGCGATATTGGACTT
66 TGATTCAAGGCCAGCTATATTGGACTT
627478 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAAGAAGGTGCCAATATGC
1 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAAGAAGGTGCCAATATGC
*
627543 TGATTCAAGGCCAGCGATATTGGACTT
66 TGATTCAAGGCCAGCTATATTGGACTT
627570 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAAGAAGGTGCCAATATGC
1 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAAGAAGGTGCCAATATGC
627635 TGATTCAAGGCCAGCTATATTGGACTT
66 TGATTCAAGGCCAGCTATATTGGACTT
*
627662 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAAGAAGGTGCCAATATAC
1 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAAGAAGGTGCCAATATGC
627727 TGATTCAAGGCCAGCTATATTGGACTT
66 TGATTCAAGGCCAGCTATATTGGACTT
*
627754 AAAGGTACCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAAGAAGGTGCCAATATGC
1 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAAGAAGGTGCCAATATGC
627819 TGATTCAAGGCCAGCTATATTGGACTT
66 TGATTCAAGGCCAGCTATATTGGACTT
*
627846 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAG-ACAAGGTGCCAATATGC
1 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAAGAAGGTGCCAATATGC
627910 TGATTCAAGGCCAGCTATATTGG
66 TGATTCAAGGCCAGCTATATTGG
627933 GTTTAAAAGG
Statistics
Matches: 524, Mismatches: 17, Indels: 13
0.95 0.03 0.02
Matches are distributed among these distances:
91 39 0.07
92 448 0.85
97 1 0.00
98 36 0.07
ACGTcount: A:0.31, C:0.19, G:0.25, T:0.25
Consensus pattern (92 bp):
AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAAGAAGGTGCCAATATGC
TGATTCAAGGCCAGCTATATTGGACTT
Found at i:628026 original size:34 final size:35
Alignment explanation
Indices: 627971--628062 Score: 98
Period size: 35 Copynumber: 2.7 Consensus size: 35
627961 TGAGCTTTTG
* * *
627971 AAAAGGGTGCCACTA-ACTTGTGGGCTTA-AAAGGA
1 AAAAGAGTGCCAC-AGAGTTGTGGGCTTACAAAAGA
* * *
628005 AAAATAGTGCTACAGAGTTGTGAGCTTACAAAAGA
1 AAAAGAGTGCCACAGAGTTGTGGGCTTACAAAAGA
*
628040 AAAAGAGTGCCACTGAGTTGTGG
1 AAAAGAGTGCCACAGAGTTGTGG
628063 ACTTTGGAAA
Statistics
Matches: 46, Mismatches: 10, Indels: 3
0.78 0.17 0.05
Matches are distributed among these distances:
33 1 0.02
34 21 0.46
35 24 0.52
ACGTcount: A:0.37, C:0.13, G:0.28, T:0.22
Consensus pattern (35 bp):
AAAAGAGTGCCACAGAGTTGTGGGCTTACAAAAGA
Found at i:628074 original size:30 final size:30
Alignment explanation
Indices: 628040--628456 Score: 320
Period size: 30 Copynumber: 13.9 Consensus size: 30
628030 TTACAAAAGA
* *
628040 AAAAGAGTGCCACTGAGTTGTGGACTTTGG
1 AAAAGAGTGCCACTGACTTGTGGGCTTTGG
* *
628070 AAAAGA-TGCCACCGACTTGTGGGCTTCGG
1 AAAAGAGTGCCACTGACTTGTGGGCTTTGG
* * *
628099 AAAAGGGTGCCACTAATTTGTGGGC-TT-G
1 AAAAGAGTGCCACTGACTTGTGGGCTTTGG
*
628127 --AAG-GTTGCCACTGACTTGTGGGCTTTTG
1 AAAAGAG-TGCCACTGACTTGTGGGCTTTGG
* * *
628155 AAAAGGGTGCCACTAACTTGTGGGCTTTTG
1 AAAAGAGTGCCACTGACTTGTGGGCTTTGG
* * *
628185 AAAAGGGTGCCACTAACTTGTGGGCTTAGAAGG
1 AAAAGAGTGCCACTGACTTGTGGGCTT---TGG
* * * * * * *
628218 AAAAAAAGTGCTACAGAGTTGTGAGCTTACAAAAGA
1 -AAAAGAGTGCCACTGACTTGTGGGCTT-----TGG
* * *
628254 AAAAGAGTGCCACGGAGTTGTGGACTTTGG
1 AAAAGAGTGCCACTGACTTGTGGGCTTTGG
* * *
628284 AAAAGA-TG-CACCGACTTATGGGCTTCGG
1 AAAAGAGTGCCACTGACTTGTGGGCTTTGG
* *
628312 AAAAGGGTGCCACTGATTTGTGGGCTTT-G
1 AAAAGAGTGCCACTGACTTGTGGGCTTTGG
*
628341 --AAG-GTTGCCACTGACTTGTGGGCTTTTG
1 AAAAGAG-TGCCACTGACTTGTGGGCTTTGG
* * *
628369 AAAAGGGTGCCACTAACTTGTGGGCTTTTG
1 AAAAGAGTGCCACTGACTTGTGGGCTTTGG
* *
628399 AAAAAAGATGCCACTGACTTGTGGGCTTTGA
1 AAAAGAG-TGCCACTGACTTGTGGGCTTTGG
628430 AAAAGA-TGCCACTGACTTGTGGGCTTT
1 AAAAGAGTGCCACTGACTTGTGGGCTTT
628457 TGAAGGGTGA
Statistics
Matches: 318, Mismatches: 48, Indels: 43
0.78 0.12 0.11
Matches are distributed among these distances:
25 1 0.00
26 20 0.06
27 25 0.08
28 23 0.07
29 51 0.16
30 124 0.39
31 27 0.08
33 1 0.00
34 20 0.06
35 22 0.07
36 4 0.01
ACGTcount: A:0.26, C:0.16, G:0.30, T:0.27
Consensus pattern (30 bp):
AAAAGAGTGCCACTGACTTGTGGGCTTTGG
Found at i:628322 original size:58 final size:59
Alignment explanation
Indices: 628040--628456 Score: 285
Period size: 56 Copynumber: 7.0 Consensus size: 59
628030 TTACAAAAGA
* * * * * *
628040 AAAAGAGTGCCACTGAGTTGTGGACTTTGGAAAA-GATGCCACCGACTTGTGGGCTTCGG
1 AAAAGA-TGCCACTGACTTGTGGGCTTCGGAAAAGGGTGCCACTGACTTGTGGGCTTTGG
* * * * *
628099 AAAAGGGTGCCACTAATTTGTGGGCTT--G--AAGGTTGCCACTGACTTGTGGGCTTTTG
1 AAAA-GATGCCACTGACTTGTGGGCTTCGGAAAAGGGTGCCACTGACTTGTGGGCTTTGG
* * ** * *
628155 AAAAGGGTGCCACTAACTTGTGGGCTTTTGAAAAGGGTGCCACTAACTTGTGGGCTTAGAAGG
1 AAAA-GATGCCACTGACTTGTGGGCTTCGGAAAAGGGTGCCACTGACTTGTGGGCTT---TGG
* * * * * * * * * *
628218 AAAAAAAGTGCTACAGAGTTGTGAGCTTACAAAAGAAAAAGAGTGCCACGGAGTTGTGGACTTTG
1 -AAAAGA-TGCCACTGACTTGTGGGCTT-C----GGAAAAGGGTGCCACTGACTTGTGGGCTTTG
628283 G
59 G
* * *
628284 AAAAGATG-CACCGACTTATGGGCTTCGGAAAAGGGTGCCACTGATTTGTGGGCTTT-G
1 AAAAGATGCCACTGACTTGTGGGCTTCGGAAAAGGGTGCCACTGACTTGTGGGCTTTGG
* * ** * *
628341 -AAGGTTGCCACTGACTTGTGGGCTTTTGAAAAGGGTGCCACTAACTTGTGGGCTTTTGAA
1 AAAAGATGCCACTGACTTGTGGGCTTCGGAAAAGGGTGCCACTGACTTGTGGGC-TTTG-G
* * *
628401 AAAAGATGCCACTGACTTGTGGGCTT-TGAAAAAGATGCCACTGACTTGTGGGCTTT
1 AAAAGATGCCACTGACTTGTGGGCTTCGGAAAAGGGTGCCACTGACTTGTGGGCTTT
628457 TGAAGGGTGA
Statistics
Matches: 283, Mismatches: 54, Indels: 42
0.75 0.14 0.11
Matches are distributed among these distances:
55 2 0.01
56 52 0.18
57 41 0.14
58 29 0.10
59 24 0.08
60 48 0.17
61 23 0.08
62 1 0.00
63 13 0.05
64 21 0.07
65 5 0.02
66 2 0.01
69 22 0.08
ACGTcount: A:0.26, C:0.16, G:0.30, T:0.27
Consensus pattern (59 bp):
AAAAGATGCCACTGACTTGTGGGCTTCGGAAAAGGGTGCCACTGACTTGTGGGCTTTGG
Found at i:628344 original size:214 final size:214
Alignment explanation
Indices: 627947--628426 Score: 836
Period size: 214 Copynumber: 2.2 Consensus size: 214
627937 AAAAGGAGAC
* *
627947 GCCACCAACTTGTGTGAGCTTTTGAAAAGGGTGCCACTAACTTGTGGGCTTAAAAGGAAAAATAG
1 GCCACTAACTTGTG-G-GCTTTTGAAAAGGGTGCCACTAACTTGTGGGCTTAAAAGGAAAAAAAG
*
628012 TGCTACAGAGTTGTGAGCTTACAAAAGAAAAAGAGTGCCACTGAGTTGTGGACTTTGGAAAAGAT
64 TGCTACAGAGTTGTGAGCTTACAAAAGAAAAAGAGTGCCACGGAGTTGTGGACTTTGGAAAAGAT
*
628077 GCCACCGACTTGTGGGCTTCGGAAAAGGGTGCCACTAATTTGTGGGCTTGAAGGTTGCCACTGAC
129 GCCACCGACTTATGGGCTTCGGAAAAGGGTGCCACTAATTTGTGGGCTTGAAGGTTGCCACTGAC
628142 TTGTGGGCTTTTGAAAAGGGT
194 TTGTGGGCTTTTGAAAAGGGT
*
628163 GCCACTAACTTGTGGGCTTTTGAAAAGGGTGCCACTAACTTGTGGGCTTAGAAGGAAAAAAAGTG
1 GCCACTAACTTGTGGGCTTTTGAAAAGGGTGCCACTAACTTGTGGGCTTAAAAGGAAAAAAAGTG
628228 CTACAGAGTTGTGAGCTTACAAAAGAAAAAGAGTGCCACGGAGTTGTGGACTTTGGAAAAGATG-
66 CTACAGAGTTGTGAGCTTACAAAAGAAAAAGAGTGCCACGGAGTTGTGGACTTTGGAAAAGATGC
*
628292 CACCGACTTATGGGCTTCGGAAAAGGGTGCCACTGATTTGTGGGCTTTGAAGGTTGCCACTGACT
131 CACCGACTTATGGGCTTCGGAAAAGGGTGCCACTAATTTGTGGGC-TTGAAGGTTGCCACTGACT
628357 TGTGGGCTTTTGAAAAGGGT
195 TGTGGGCTTTTGAAAAGGGT
* * *
628377 GCCACTAACTTGTGGGCTTTTGAAAAAAGATGCCACTGACTTGTGGGCTT
1 GCCACTAACTTGTGGGCTTTTG-AAAAGGGTGCCACTAACTTGTGGGCTT
628427 TGAAAAAGAT
Statistics
Matches: 253, Mismatches: 9, Indels: 5
0.95 0.03 0.02
Matches are distributed among these distances:
213 43 0.17
214 172 0.68
215 25 0.10
216 13 0.05
ACGTcount: A:0.28, C:0.16, G:0.30, T:0.26
Consensus pattern (214 bp):
GCCACTAACTTGTGGGCTTTTGAAAAGGGTGCCACTAACTTGTGGGCTTAAAAGGAAAAAAAGTG
CTACAGAGTTGTGAGCTTACAAAAGAAAAAGAGTGCCACGGAGTTGTGGACTTTGGAAAAGATGC
CACCGACTTATGGGCTTCGGAAAAGGGTGCCACTAATTTGTGGGCTTGAAGGTTGCCACTGACTT
GTGGGCTTTTGAAAAGGGT
Found at i:629908 original size:1 final size:1
Alignment explanation
Indices: 629904--629977 Score: 67
Period size: 1 Copynumber: 74.0 Consensus size: 1
629894 TTTGTTGTTG
* * * * * * * * *
629904 TTTTTTTTTTTGTTTTGTTTTGTTTTTTTTTTGTTTTTTTTTGTTTTTTGTTTTTTGTTTTGTTG
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
629969 TTTTTTTTT
1 TTTTTTTTT
629978 GCGGAGGACG
Statistics
Matches: 55, Mismatches: 18, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
1 55 1.00
ACGTcount: A:0.00, C:0.00, G:0.12, T:0.88
Consensus pattern (1 bp):
T
Found at i:629960 original size:45 final size:44
Alignment explanation
Indices: 629892--629977 Score: 129
Period size: 45 Copynumber: 1.9 Consensus size: 44
629882 ATCCGGACCC
*
629892 TTTTTGTTGTTGTTTTTTTTTTTGTTTTGTTTTGTTTTTTTTTTGT
1 TTTTTGTTGTTGTTTTGTTTTTTGTTTTG--TTGTTTTTTTTTTGT
*
629938 TTTTTTTTGTT-TTTTGTTTTTTGTTTTGTTGTTTTTTTTT
1 TTTTTGTTGTTGTTTTGTTTTTTGTTTTGTTGTTTTTTTTT
629978 GCGGAGGACG
Statistics
Matches: 38, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
43 12 0.32
45 16 0.42
46 10 0.26
ACGTcount: A:0.00, C:0.00, G:0.14, T:0.86
Consensus pattern (44 bp):
TTTTTGTTGTTGTTTTGTTTTTTGTTTTGTTGTTTTTTTTTTGT
Found at i:629970 original size:32 final size:34
Alignment explanation
Indices: 629898--629978 Score: 123
Period size: 33 Copynumber: 2.5 Consensus size: 34
629888 ACCCTTTTTG
*
629898 TTGTTGTTTTTTTTT-TTGTTTTGTTTTGTTTTT
1 TTGTTGTTTTTTTTTGTTGTTTTGTTTTGTTGTT
*
629931 TTTTTGTTTTTTTTTGTT-TTTTGTTTT-TTGTT
1 TTGTTGTTTTTTTTTGTTGTTTTGTTTTGTTGTT
629963 TTGTTGTTTTTTTTTG
1 TTGTTGTTTTTTTTTG
629979 CGGAGGACGC
Statistics
Matches: 44, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
32 19 0.43
33 23 0.52
34 2 0.05
ACGTcount: A:0.00, C:0.00, G:0.15, T:0.85
Consensus pattern (34 bp):
TTGTTGTTTTTTTTTGTTGTTTTGTTTTGTTGTT
Found at i:643027 original size:52 final size:52
Alignment explanation
Indices: 642949--643077 Score: 224
Period size: 52 Copynumber: 2.5 Consensus size: 52
642939 TGAAATATGA
*
642949 AAATTTGCCTGCATGTATCGATACATT-TAATAGTGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTATAA-AATGTATCGATACATCTGGGC
643001 AAATTTGCCTGCATGTATCGATACATTATAAAATGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTATAAAATGTATCGATACATCTGGGC
*
643053 AAATTTGCCTACATGTATCGATACA
1 AAATTTGCCTGCATGTATCGATACA
643078 AAGATCAGTG
Statistics
Matches: 74, Mismatches: 2, Indels: 2
0.95 0.03 0.03
Matches are distributed among these distances:
52 71 0.96
53 3 0.04
ACGTcount: A:0.32, C:0.18, G:0.17, T:0.33
Consensus pattern (52 bp):
AAATTTGCCTGCATGTATCGATACATTATAAAATGTATCGATACATCTGGGC
Found at i:643090 original size:52 final size:50
Alignment explanation
Indices: 642949--643097 Score: 201
Period size: 52 Copynumber: 2.9 Consensus size: 50
642939 TGAAATATGA
*
642949 AAATTTGCCTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACA--AAATAGTGTATCGATACATCTGGGC
*
643001 AAATTTGCCTGCATGTATCGATACATTATAA-AATGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACA--A-AATAGTGTATCGATACATCTGGGC
*
643053 AAATTTGCCTACATGTATCGATACAAAGATCAGTGTATCGATACA
1 AAATTTGCCTGCATGTATCGATACAAA-AT-AGTGTATCGATACA
643098 ATGTATCGAT
Statistics
Matches: 89, Mismatches: 4, Indels: 8
0.88 0.04 0.08
Matches are distributed among these distances:
49 1 0.01
50 2 0.02
52 84 0.94
53 2 0.02
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.32
Consensus pattern (50 bp):
AAATTTGCCTGCATGTATCGATACAAAATAGTGTATCGATACATCTGGGC
Found at i:643104 original size:13 final size:13
Alignment explanation
Indices: 643086--643110 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
643076 CAAAGATCAG
643086 TGTATCGATACAA
1 TGTATCGATACAA
643099 TGTATCGATACA
1 TGTATCGATACA
643111 TTTGAGTAAT
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:643188 original size:33 final size:33
Alignment explanation
Indices: 643151--643217 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
643141 AGTAGCTTAA
643151 ATTGTATCGATACAAAAAAATATGTATCGATAC
1 ATTGTATCGATACAAAAAAATATGTATCGATAC
* ***
643184 ATTGTATCGATACAACACTTTATGTATCGATAC
1 ATTGTATCGATACAAAAAAATATGTATCGATAC
643217 A
1 A
643218 AATCGTTGAA
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.40, C:0.15, G:0.12, T:0.33
Consensus pattern (33 bp):
ATTGTATCGATACAAAAAAATATGTATCGATAC
Found at i:643191 original size:13 final size:13
Alignment explanation
Indices: 643173--643197 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
643163 CAAAAAAATA
643173 TGTATCGATACAT
1 TGTATCGATACAT
643186 TGTATCGATACA
1 TGTATCGATACA
643198 ACACTTTATG
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:643281 original size:21 final size:21
Alignment explanation
Indices: 643255--643310 Score: 112
Period size: 21 Copynumber: 2.7 Consensus size: 21
643245 GTTGGGACCT
643255 TGTATCGATACATTCTAACAA
1 TGTATCGATACATTCTAACAA
643276 TGTATCGATACATTCTAACAA
1 TGTATCGATACATTCTAACAA
643297 TGTATCGATACATT
1 TGTATCGATACATT
643311 TGGACCAAAA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 35 1.00
ACGTcount: A:0.36, C:0.18, G:0.11, T:0.36
Consensus pattern (21 bp):
TGTATCGATACATTCTAACAA
Found at i:643652 original size:20 final size:20
Alignment explanation
Indices: 643629--643672 Score: 79
Period size: 20 Copynumber: 2.2 Consensus size: 20
643619 AGAATGAATT
*
643629 GATACAATGAACAATGTATC
1 GATACAATGAACAAAGTATC
643649 GATACAATGAACAAAGTATC
1 GATACAATGAACAAAGTATC
643669 GATA
1 GATA
643673 AAAATTGTGA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.48, C:0.14, G:0.16, T:0.23
Consensus pattern (20 bp):
GATACAATGAACAAAGTATC
Found at i:648835 original size:52 final size:52
Alignment explanation
Indices: 648755--648885 Score: 226
Period size: 52 Copynumber: 2.5 Consensus size: 52
648745 CCCGAAATAT
*
648755 GAAAATTTGCCTGCATGTATCGATACATTGAATAGTGTATCGATACATCTGG
1 GAAAATTTGCCTGCATGTATCGATACATTGAATAATGTATCGATACATCTGG
* **
648807 GCAAATTTGCCTGCATGTATCGATACATTTTATAATGTATCGATACATCTGG
1 GAAAATTTGCCTGCATGTATCGATACATTGAATAATGTATCGATACATCTGG
648859 GAAAATTTGCCTGCATGTATCGATACA
1 GAAAATTTGCCTGCATGTATCGATACA
648886 AAGGTCAGTG
Statistics
Matches: 74, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
52 74 1.00
ACGTcount: A:0.31, C:0.17, G:0.19, T:0.34
Consensus pattern (52 bp):
GAAAATTTGCCTGCATGTATCGATACATTGAATAATGTATCGATACATCTGG
Found at i:648898 original size:52 final size:51
Alignment explanation
Indices: 648755--648905 Score: 212
Period size: 52 Copynumber: 2.9 Consensus size: 51
648745 CCCGAAATAT
*
648755 GAAAATTTGCCTGCATGTATCGATACATTGAATAGTGTATCGATACATCTGG
1 GAAAATTTGCCTGCATGTATCGATACAATG-ATAGTGTATCGATACATCTGG
* * * *
648807 GCAAATTTGCCTGCATGTATCGATACATTTTATAATGTATCGATACATCTGG
1 GAAAATTTGCCTGCATGTATCGATACA-ATGATAGTGTATCGATACATCTGG
* *
648859 GAAAATTTGCCTGCATGTATCGATACAAAGGTCAGTGTATCGATACA
1 GAAAATTTGCCTGCATGTATCGATACAATGAT-AGTGTATCGATACA
648906 ATGTATCGAT
Statistics
Matches: 88, Mismatches: 9, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
51 1 0.01
52 85 0.97
53 2 0.02
ACGTcount: A:0.31, C:0.17, G:0.20, T:0.32
Consensus pattern (51 bp):
GAAAATTTGCCTGCATGTATCGATACAATGATAGTGTATCGATACATCTGG
Found at i:648912 original size:13 final size:13
Alignment explanation
Indices: 648894--648918 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
648884 CAAAGGTCAG
648894 TGTATCGATACAA
1 TGTATCGATACAA
648907 TGTATCGATACA
1 TGTATCGATACA
648919 TTTAAGTGAT
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:649003 original size:13 final size:13
Alignment explanation
Indices: 648985--649009 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
648975 AAAATATATA
648985 TGTATCGATACAT
1 TGTATCGATACAT
648998 TGTATCGATACA
1 TGTATCGATACA
649010 ACACTTTATG
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:650033 original size:43 final size:43
Alignment explanation
Indices: 649972--650467 Score: 532
Period size: 43 Copynumber: 11.0 Consensus size: 43
649962 GATGGAAAAT
649972 GTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAG
1 GTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAG
* * * *
650015 GTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGA---GAAG
1 GTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAG
650055 GTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAG
1 GTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAG
* **
650098 GTGCCAATGTGCTGATTCAAGGCCAGCTACGTTGGACTTAAAG
1 GTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAG
* *
650141 ATGAAAATGCCAATACGCTGATTCAAGGCCAGCGATATTGGACTTAAAG
1 --G----TGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAG
* *
650190 GTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAAG
1 GTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTT--A-AAG
* * *
650236 AAGATGCCAATACGCTGATTCAAGGCCAGCAATATTGGGCTTAAAG
1 --G-TGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAG
*
650282 GTGCCAATGTGCTGATTCAAGGCCAGCTATATTGGACTTAAAGAAG
1 GTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTT--A-AAG
*
650328 AAGATGCCAATATGCTGATTCAAGGCCAGCAATATTAGG-CTTAAAG
1 --G-TGCCAATATGCTGATTCAAGGCCAGCTATATT-GGACTTAAAG
* * *
650374 GTGCCAATGTGCTGATTCAAGGCCAGCTACATTGAACTTAAAGAAG
1 GTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTT--A-AAG
* * *
650420 AAGATGCCAATACGCTGATTCAAGGCCAGCAATATTGGGCTTAGAAG
1 --G-TGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTA-AAG
650467 G
1 G
650468 GTTGCCACCG
Statistics
Matches: 383, Mismatches: 41, Indels: 56
0.80 0.09 0.12
Matches are distributed among these distances:
40 36 0.09
42 1 0.00
43 176 0.46
44 2 0.01
45 5 0.01
46 15 0.04
47 8 0.02
48 3 0.01
49 135 0.35
50 2 0.01
ACGTcount: A:0.32, C:0.19, G:0.25, T:0.24
Consensus pattern (43 bp):
GTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAG
Found at i:650076 original size:21 final size:21
Alignment explanation
Indices: 650052--650119 Score: 50
Period size: 21 Copynumber: 3.2 Consensus size: 21
650042 GACATTGGAG
650052 AAGGTGCCAATATGCTGATTC
1 AAGGTGCCAATATGCTGATTC
* ** *
650073 AA-G-GCCAGCTATATTGGACTTA
1 AAGGTGCCA-ATATGCT-GA-TTC
*
650095 AAGGTGCCAATGTGCTGATTC
1 AAGGTGCCAATATGCTGATTC
650116 AAGG
1 AAGG
650120 CCAGCTACGT
Statistics
Matches: 33, Mismatches: 9, Indels: 10
0.63 0.17 0.19
Matches are distributed among these distances:
19 4 0.12
20 5 0.15
21 10 0.30
22 6 0.18
23 4 0.12
24 4 0.12
ACGTcount: A:0.29, C:0.18, G:0.26, T:0.26
Consensus pattern (21 bp):
AAGGTGCCAATATGCTGATTC
Found at i:650213 original size:92 final size:92
Alignment explanation
Indices: 650050--650467 Score: 703
Period size: 92 Copynumber: 4.5 Consensus size: 92
650040 GCGACATTGG
* * *
650050 AGAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGGTGCCAATGTGCTGATT
1 AGAAGATGCCAATACGCTGATTCAAGGCCAGCAATATTGGACTTAAAGGTGCCAATGTGCTGATT
*
650115 CAAGGCCAGCTACGTTGGACTTAAAGA
66 CAAGGCCAGCTACATTGGACTTAAAGA
* * *
650142 TGAAAATGCCAATACGCTGATTCAAGGCCAGCGATATTGGACTTAAAGGTGCCAATGTGCTGATT
1 AGAAGATGCCAATACGCTGATTCAAGGCCAGCAATATTGGACTTAAAGGTGCCAATGTGCTGATT
650207 CAAGGCCAGCTACATTGGACTTAAAGA
66 CAAGGCCAGCTACATTGGACTTAAAGA
*
650234 AGAAGATGCCAATACGCTGATTCAAGGCCAGCAATATTGGGCTTAAAGGTGCCAATGTGCTGATT
1 AGAAGATGCCAATACGCTGATTCAAGGCCAGCAATATTGGACTTAAAGGTGCCAATGTGCTGATT
*
650299 CAAGGCCAGCTATATTGGACTTAAAGA
66 CAAGGCCAGCTACATTGGACTTAAAGA
*
650326 AGAAGATGCCAATATGCTGATTCAAGGCCAGCAATATTAGG-CTTAAAGGTGCCAATGTGCTGAT
1 AGAAGATGCCAATACGCTGATTCAAGGCCAGCAATATT-GGACTTAAAGGTGCCAATGTGCTGAT
*
650390 TCAAGGCCAGCTACATTGAACTTAAAGA
65 TCAAGGCCAGCTACATTGGACTTAAAGA
*
650418 AGAAGATGCCAATACGCTGATTCAAGGCCAGCAATATTGGGCTTAGAAGG
1 AGAAGATGCCAATACGCTGATTCAAGGCCAGCAATATTGGACTTA-AAGG
650468 GTTGCCACCG
Statistics
Matches: 308, Mismatches: 15, Indels: 5
0.94 0.05 0.02
Matches are distributed among these distances:
91 2 0.01
92 300 0.97
93 6 0.02
ACGTcount: A:0.33, C:0.19, G:0.25, T:0.24
Consensus pattern (92 bp):
AGAAGATGCCAATACGCTGATTCAAGGCCAGCAATATTGGACTTAAAGGTGCCAATGTGCTGATT
CAAGGCCAGCTACATTGGACTTAAAGA
Found at i:650319 original size:184 final size:184
Alignment explanation
Indices: 649915--650467 Score: 847
Period size: 184 Copynumber: 3.0 Consensus size: 184
649905 AAGCTGAGAA
* * *
649915 AAAGGATGTCAATGTGCTGATTCAAGGCCAGCTACATTGAATTTAAAGATGGAAAATGTGCCAAT
1 AAAGG-TGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAT-GAAAA--TGCCAAT
* *
649980 ATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGGTGCCAATGTGCTGATTCAAGGCCAGCGAC
62 ATGCTGATTCAAGGCCAGCAATATTGGACTTAAAGGTGCCAATGTGCTGATTCAAGGCCAGCTAC
* * *
650045 ATTGG------AGAAG--G-TGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTT
127 ATTGGACTTAAAGAAGAAGATGCCAATACGCTGATTCAAGGCCAGCAATATTGGGCTT
* *
650094 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACGTTGGACTTAAAGATGAAAATGCCAATACGC
1 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAAATGCCAATATGC
*
650159 TGATTCAAGGCCAGCGATATTGGACTTAAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTG
66 TGATTCAAGGCCAGCAATATTGGACTTAAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTG
650224 GACTTAAAGAAGAAGATGCCAATACGCTGATTCAAGGCCAGCAATATTGGGCTT
131 GACTTAAAGAAGAAGATGCCAATACGCTGATTCAAGGCCAGCAATATTGGGCTT
* * *
650278 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTATATTGGACTTAAAGAAGAAGATGCCAATATGC
1 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAAATGCCAATATGC
650343 TGATTCAAGGCCAGCAATATTAGG-CTTAAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATT
66 TGATTCAAGGCCAGCAATATT-GGACTTAAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATT
*
650407 GAACTTAAAGAAGAAGATGCCAATACGCTGATTCAAGGCCAGCAATATTGGGCTT
130 GGACTTAAAGAAGAAGATGCCAATACGCTGATTCAAGGCCAGCAATATTGGGCTT
650462 AGAAGG
1 A-AAGG
650468 GTTGCCACCG
Statistics
Matches: 346, Mismatches: 17, Indels: 16
0.91 0.04 0.04
Matches are distributed among these distances:
175 74 0.21
177 5 0.01
178 40 0.12
179 5 0.01
181 5 0.01
183 1 0.00
184 210 0.61
185 6 0.02
ACGTcount: A:0.33, C:0.18, G:0.25, T:0.24
Consensus pattern (184 bp):
AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAAATGCCAATATGC
TGATTCAAGGCCAGCAATATTGGACTTAAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTG
GACTTAAAGAAGAAGATGCCAATACGCTGATTCAAGGCCAGCAATATTGGGCTT
Found at i:650534 original size:27 final size:28
Alignment explanation
Indices: 650455--650726 Score: 199
Period size: 27 Copynumber: 9.3 Consensus size: 28
650445 CCAGCAATAT
* * *
650455 TGGGCTTAGAAGGGTTGCCACCGACTTGTG
1 TGGGCTTTGAAAGGTTGCCACTGAC-T-TG
* *
650485 TGGGCTTTAGAAAAGGGTGCCACTGATTTG
1 TGGGCTTT-G-AAAGGTTGCCACTGACTTG
650515 TGGGCTTTG-AAGGTTGCCACTGACTTG
1 TGGGCTTTGAAAGGTTGCCACTGACTTG
* *
650542 TGGGCTTTTAAAGGTTGCCACTAACTTG
1 TGGGCTTTGAAAGGTTGCCACTGACTTG
** * *
650570 TGGGCTGAAAAAGAAAAAGAG-TGCCACGGAGTTG
1 TGGGCT----TTG--AAAG-GTTGCCACTGACTTG
* * * *
650604 TGGACTTTGGAAAAGATGCCACCGACTTG
1 TGGGCTTT-GAAAGGTTGCCACTGACTTG
* * *
650633 TGGGCTTCGGAAAAGGGTGCCACTGATTTG
1 TGGGCTT-TG-AAAGGTTGCCACTGACTTG
650663 TGGGCTTTG-AAGGTTGCCACTGACTTG
1 TGGGCTTTGAAAGGTTGCCACTGACTTG
**
650690 TGGGCTTTGAAAAATATGCCACTGACTTG
1 TGGGCTTTGAAAGGT-TGCCACTGACTTG
*
650719 TGGACTTT
1 TGGGCTTT
650727 TGAAGGGTGA
Statistics
Matches: 193, Mismatches: 33, Indels: 33
0.75 0.13 0.13
Matches are distributed among these distances:
27 49 0.25
28 27 0.14
29 43 0.22
30 39 0.20
31 3 0.02
32 12 0.06
34 19 0.10
35 1 0.01
ACGTcount: A:0.23, C:0.17, G:0.32, T:0.29
Consensus pattern (28 bp):
TGGGCTTTGAAAGGTTGCCACTGACTTG
Found at i:650633 original size:29 final size:29
Alignment explanation
Indices: 650483--650726 Score: 174
Period size: 29 Copynumber: 8.3 Consensus size: 29
650473 CACCGACTTG
* * *
650483 TGTGGGCTTTAGAAAAGGGTGCCACTGATT
1 TGTGGGCTTTGGAAAA-GATGCCACTGACT
* *
650513 TGTGGGCTTT-G-AAGGTTGCCACTGACT
1 TGTGGGCTTTGGAAAAGATGCCACTGACT
* * * *
650540 TGTGGGCTTT-TAAAGGTTGCCACTAACT
1 TGTGGGCTTTGGAAAAGATGCCACTGACT
** * * *
650568 TGTGGGCTGAAAAAGAAAAAGAGTGCCACGGAGT
1 TGTGGGCT----TTGGAAAAGA-TGCCACTGACT
* *
650602 TGTGGACTTTGGAAAAGATGCCACCGACT
1 TGTGGGCTTTGGAAAAGATGCCACTGACT
* * *
650631 TGTGGGCTTCGGAAAAGGGTGCCACTGATT
1 TGTGGGCTTTGGAAAA-GATGCCACTGACT
* *
650661 TGTGGGCTTT-G-AAGGTTGCCACTGACT
1 TGTGGGCTTTGGAAAAGATGCCACTGACT
* *
650688 TGTGGGCTTTGAAAAATATGCCACTGACT
1 TGTGGGCTTTGGAAAAGATGCCACTGACT
*
650717 TGTGGACTTT
1 TGTGGGCTTT
650727 TGAAGGGTGA
Statistics
Matches: 171, Mismatches: 33, Indels: 21
0.76 0.15 0.09
Matches are distributed among these distances:
27 42 0.25
28 27 0.16
29 47 0.27
30 36 0.21
33 4 0.02
34 15 0.09
ACGTcount: A:0.23, C:0.16, G:0.31, T:0.29
Consensus pattern (29 bp):
TGTGGGCTTTGGAAAAGATGCCACTGACT
Found at i:652171 original size:1 final size:1
Alignment explanation
Indices: 652165--652271 Score: 97
Period size: 1 Copynumber: 107.0 Consensus size: 1
652155 ATCCGGACCC
* * * * * ** **
652165 TTTTTTTTTTGTTTTTTTTTTGTTTTTGTTTTTTTGTTTTTTTTTGTTTTTTCGTTTTTTTCGTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
* * * *
652230 TTTTTTTGTTTTGTTTTTTTTTTGTTTTTTTTGTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
652272 GGAGGACGCC
Statistics
Matches: 82, Mismatches: 24, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
1 82 1.00
ACGTcount: A:0.00, C:0.02, G:0.10, T:0.88
Consensus pattern (1 bp):
T
Found at i:652181 original size:9 final size:9
Alignment explanation
Indices: 652167--652270 Score: 119
Period size: 9 Copynumber: 11.9 Consensus size: 9
652157 CCGGACCCTT
652167 TTTTTTTTG
1 TTTTTTTTG
652176 TTTTTTTT-
1 TTTTTTTTG
*
652184 TTGTTTTTG
1 TTTTTTTTG
652193 -TTTTTTTG
1 TTTTTTTTG
652201 TTTTTTTT-
1 TTTTTTTTG
*
652209 TGTTTTTTCG
1 T-TTTTTTTG
*
652219 TTTTTTTCG
1 TTTTTTTTG
652228 TTTTTTTT-
1 TTTTTTTTG
*
652236 TGTTTTGTT-
1 T-TTTTTTTG
652245 TTTTTTTTG
1 TTTTTTTTG
652254 TTTTTTTTG
1 TTTTTTTTG
652263 TTTTTTTT
1 TTTTTTTT
652271 TGGAGGACGC
Statistics
Matches: 83, Mismatches: 6, Indels: 12
0.82 0.06 0.12
Matches are distributed among these distances:
8 22 0.27
9 60 0.72
10 1 0.01
ACGTcount: A:0.00, C:0.02, G:0.11, T:0.88
Consensus pattern (9 bp):
TTTTTTTTG
Found at i:652202 original size:25 final size:24
Alignment explanation
Indices: 652168--652271 Score: 131
Period size: 25 Copynumber: 4.2 Consensus size: 24
652158 CGGACCCTTT
652168 TTTTTTTGTTTTTTTTTTGTTTTTG
1 TTTTTTTG-TTTTTTTTTGTTTTTG
652193 TTTTTTTGTTTTTTTTTGTTTTTTCG
1 TTTTTTTGTTTTTTTTTG-TTTTT-G
652219 TTTTTTTCGTTTTTTTTTG-TTTTG
1 TTTTTTT-GTTTTTTTTTGTTTTTG
*
652243 TTTTTTTTTTGTTTTTTTTGTTTTT-
1 -TTTTTTTGT-TTTTTTTTGTTTTTG
652268 TTTT
1 TTTT
652272 GGAGGACGCC
Statistics
Matches: 72, Mismatches: 1, Indels: 13
0.84 0.01 0.15
Matches are distributed among these distances:
24 16 0.22
25 33 0.46
26 12 0.17
27 11 0.15
ACGTcount: A:0.00, C:0.02, G:0.11, T:0.88
Consensus pattern (24 bp):
TTTTTTTGTTTTTTTTTGTTTTTG
Found at i:652205 original size:35 final size:34
Alignment explanation
Indices: 652166--652269 Score: 131
Period size: 37 Copynumber: 3.0 Consensus size: 34
652156 TCCGGACCCT
652166 TTTTTTTTTGTTTTTTTTTTGTTTTTGTTTTTTTG
1 TTTTTTTTTGTTTTTTTTTT-TTTTTGTTTTTTTG
652201 TTTTTTTTTGTTTTTTCGTTTTTTTCGTT-TTTTTTTG
1 TTTTTTTTTGTTTTTT--TTTTTTT--TTGTTTTTTTG
* *
652238 TTTTGTTTT-TTTTTTGTTTTTTTTGTTTTTTT
1 TTTTTTTTTGTTTTTTTTTTTTTTTGTTTTTTT
652270 TTGGAGGACG
Statistics
Matches: 62, Mismatches: 2, Indels: 12
0.82 0.03 0.16
Matches are distributed among these distances:
32 2 0.03
33 7 0.11
34 6 0.10
35 16 0.26
36 9 0.15
37 20 0.32
38 2 0.03
ACGTcount: A:0.00, C:0.02, G:0.11, T:0.88
Consensus pattern (34 bp):
TTTTTTTTTGTTTTTTTTTTTTTTTGTTTTTTTG
Found at i:652272 original size:35 final size:34
Alignment explanation
Indices: 652165--652271 Score: 146
Period size: 35 Copynumber: 3.2 Consensus size: 34
652155 ATCCGGACCC
*
652165 TTTTTTTTTTGTTTTTTTTTTGTTTTTGTT-TTT
1 TTTTTTTTTTGTTTTTTTTTTGTTTTTTTTGTTT
* * * *
652198 TTGTTTTTTT-TTGTTTTTTCGTTTTTTTCGTTT
1 TTTTTTTTTTGTTTTTTTTTTGTTTTTTTTGTTT
652231 TTTTTTGTTTTGTTTTTTTTTTGTTTTTTTTGTTT
1 TTTTTT-TTTTGTTTTTTTTTTGTTTTTTTTGTTT
652266 TTTTTT
1 TTTTTT
652272 GGAGGACGCC
Statistics
Matches: 62, Mismatches: 9, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
32 15 0.24
33 17 0.27
34 4 0.06
35 26 0.42
ACGTcount: A:0.00, C:0.02, G:0.10, T:0.88
Consensus pattern (34 bp):
TTTTTTTTTTGTTTTTTTTTTGTTTTTTTTGTTT
Found at i:666207 original size:52 final size:51
Alignment explanation
Indices: 666129--666277 Score: 217
Period size: 52 Copynumber: 2.9 Consensus size: 51
666119 CGAAATATGA
*
666129 AAATTTGCCTGCATGTATCGATACATTGAATAGTGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTG-ATAGTGTATCGATACATATGGGC
* * *
666181 AAATTTGCCTGCATGTATTGATACATTTTATAATGTATCGATACATATGGGC
1 AAATTTGCCTGCATGTATCGATACA-TTGATAGTGTATCGATACATATGGGC
**
666233 AAATTTGCCTGCATGTATCGATACAAAGATCAGTGTATCGATACA
1 AAATTTGCCTGCATGTATCGATACATTGAT-AGTGTATCGATACA
666278 ATGTATCGAT
Statistics
Matches: 86, Mismatches: 9, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
51 2 0.02
52 82 0.95
53 2 0.02
ACGTcount: A:0.32, C:0.16, G:0.19, T:0.34
Consensus pattern (51 bp):
AAATTTGCCTGCATGTATCGATACATTGATAGTGTATCGATACATATGGGC
Found at i:666284 original size:13 final size:13
Alignment explanation
Indices: 666266--666290 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
666256 CAAAGATCAG
666266 TGTATCGATACAA
1 TGTATCGATACAA
666279 TGTATCGATACA
1 TGTATCGATACA
666291 TTTAAGTGAT
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:666381 original size:13 final size:13
Alignment explanation
Indices: 666363--666387 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
666353 TATATATATA
666363 TGTATCGATACAT
1 TGTATCGATACAT
666376 TGTATCGATACA
1 TGTATCGATACA
666388 ACACTTTATG
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:667942 original size:117 final size:117
Alignment explanation
Indices: 667724--668069 Score: 431
Period size: 117 Copynumber: 2.9 Consensus size: 117
667714 AGGTTGCAGC
* * * *
667724 TATAATCACTCGTATATTGGCCTAAGTCATTTATTCCAAAAAGGTTGAATAATTTGCTTCATTTA
1 TATAATCGCTCATATATTGGCCTAAGTCATTTATTCAAAAAAAGTTGAATAATTTGCTTCATTTA
* *
667789 AGGTTGAGATACAATCTCCCTAATGAAGTGGATAGTTTCCTTTGGCCGCAAA
66 AGGTTGAGATACAATCTCCCTAACGAAGTGGATAGTTCCCTTTGGCCGCAAA
*
667841 TATGATCGCTCATATATTGGCCTAAGTCATTTATTCAAAAAAAGTTGAATAATTTGCTTCATTTA
1 TATAATCGCTCATATATTGGCCTAAGTCATTTATTCAAAAAAAGTTGAATAATTTGCTTCATTTA
** * **
667906 AGGTTGAGATACAATCTCCCTAACGAAGTGGATAGTTCCCTTTGGTTGTAGC
66 AGGTTGAGATACAATCTCCCTAACGAAGTGGATAGTTCCCTTTGGCCGCAAA
** * * * * * * ** *
667958 TATAATCGCTCATACGTTGGCCTAAATCACTCATTTAAAAAAAATTGAATAATTTACTTTGTTTT
1 TATAATCGCTCATATATTGGCCTAAGTCATTTATTCAAAAAAAGTTGAATAATTTGCTTCATTTA
*** *
668023 AGGTTGAGATTTGATCTCCCTAATCAAAGTGGATAGTTCCTCTTTGG
66 AGGTTGAGATACAATCTCCCTAA-CGAAGTGGATAGTTCC-CTTTGG
668070 GCACATTCTT
Statistics
Matches: 199, Mismatches: 28, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
117 178 0.89
118 15 0.08
119 6 0.03
ACGTcount: A:0.30, C:0.16, G:0.17, T:0.36
Consensus pattern (117 bp):
TATAATCGCTCATATATTGGCCTAAGTCATTTATTCAAAAAAAGTTGAATAATTTGCTTCATTTA
AGGTTGAGATACAATCTCCCTAACGAAGTGGATAGTTCCCTTTGGCCGCAAA
Found at i:668970 original size:24 final size:24
Alignment explanation
Indices: 668943--669019 Score: 64
Period size: 24 Copynumber: 3.2 Consensus size: 24
668933 AAGAGTTGTC
**
668943 CCAAAAGATCTTCTGGGAGCCATG
1 CCAAAAGATCTTCCAGGAGCCATG
* * * *
668967 CCAAAGGTTGTTCCAGGAGTCATG
1 CCAAAAGATCTTCCAGGAGCCATG
* * *
668991 CCAAAAGATGTTCCAAGAGTCATG
1 CCAAAAGATCTTCCAGGAGCCATG
*
669015 TCAAA
1 CCAAA
669020 TGTTGTGCTA
Statistics
Matches: 43, Mismatches: 10, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
24 43 1.00
ACGTcount: A:0.32, C:0.22, G:0.23, T:0.22
Consensus pattern (24 bp):
CCAAAAGATCTTCCAGGAGCCATG
Found at i:671925 original size:18 final size:19
Alignment explanation
Indices: 671902--671946 Score: 74
Period size: 18 Copynumber: 2.4 Consensus size: 19
671892 TTTGTTTAAT
671902 AAAATTAGTATTCCAT-AA
1 AAAATTAGTATTCCATAAA
*
671920 AAAATTAGTATTTCATAAA
1 AAAATTAGTATTCCATAAA
671939 AAAATTAG
1 AAAATTAG
671947 AGAAAGAAGT
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
18 15 0.60
19 10 0.40
ACGTcount: A:0.53, C:0.07, G:0.07, T:0.33
Consensus pattern (19 bp):
AAAATTAGTATTCCATAAA
Found at i:675352 original size:79 final size:79
Alignment explanation
Indices: 675187--675403 Score: 325
Period size: 79 Copynumber: 2.8 Consensus size: 79
675177 CGTAATCGGG
*
675187 GATACTCCAACCCCAGTTTTATTTCTAAAACATCAATTTTTCAT--T-GGGGATACTCCAACCTC
1 GATACTCCAACCCCAGTTTTATTTCTAAAACATCAATTTTTCATAATCGGGGATACTCCAACCCC
675249 GTTATTTTCGAGGA
66 GTTATTTTCGAGGA
* *
675263 GGTACTCCAACCCCGGTTTTATTTCTAAAACATCAATTTTTCATAATCGGGGATACTCCAACCCC
1 GATACTCCAACCCCAGTTTTATTTCTAAAACATCAATTTTTCATAATCGGGGATACTCCAACCCC
675328 GTTATTTTCGAGG-
66 GTTATTTTCGAGGA
* * * * *
675341 GAATGCTCCAACCCCAGTTTTATTTCTAAAACACCAATTCTCCATAATCGAGGATACTCCAAC
1 G-ATACTCCAACCCCAGTTTTATTTCTAAAACATCAATTTTTCATAATCGGGGATACTCCAAC
675404 TCCGATTTTA
Statistics
Matches: 127, Mismatches: 10, Indels: 5
0.89 0.07 0.04
Matches are distributed among these distances:
76 42 0.33
78 2 0.02
79 83 0.65
ACGTcount: A:0.29, C:0.26, G:0.13, T:0.32
Consensus pattern (79 bp):
GATACTCCAACCCCAGTTTTATTTCTAAAACATCAATTTTTCATAATCGGGGATACTCCAACCCC
GTTATTTTCGAGGA
Found at i:675434 original size:130 final size:129
Alignment explanation
Indices: 675261--675503 Score: 328
Period size: 130 Copynumber: 1.9 Consensus size: 129
675251 TATTTTCGAG
* * * * * *
675261 GAGGTACTCCAACCCCGGTTTTATTTCTAAAACATCAATTTTTCATAATCGGGGATACTCCAACC
1 GAGGTACTCCAACCCCGATTTTACTTCCAAAACACCAACTTTTCACAATCGGGGATACTCCAACC
**
675326 CCGTTATTT-TCGAGGGAATGCTCCAACCCCA-GTTTTATTTCTAAAACACCAATTCTCCATAAT
66 CCGTTATTTCT-GAGGGAACACTCCAA-CCCAGGTTTTATTTCTAAAACACCAATTCTCCATAAT
675389 C
129 C
* * *
675390 GAGGATACTCCAACTCCGATTTTACTTCCAAAACACCGACTTTTCACAATCGGGGATATTCCAAC
1 GAGG-TACTCCAACCCCGATTTTACTTCCAAAACACCAACTTTTCACAATCGGGGATACTCCAAC
* *
675455 CCCGTTATTTCTGAGGGGACACTCCAACCCAGGTTTTATTTTTAAAACA
65 CCCGTTATTTCTGAGGGAACACTCCAACCCAGGTTTTATTTCTAAAACA
675504 TCAAATTTTC
Statistics
Matches: 98, Mismatches: 13, Indels: 5
0.84 0.11 0.04
Matches are distributed among these distances:
129 8 0.08
130 89 0.91
131 1 0.01
ACGTcount: A:0.29, C:0.27, G:0.14, T:0.30
Consensus pattern (129 bp):
GAGGTACTCCAACCCCGATTTTACTTCCAAAACACCAACTTTTCACAATCGGGGATACTCCAACC
CCGTTATTTCTGAGGGAACACTCCAACCCAGGTTTTATTTCTAAAACACCAATTCTCCATAATC
Found at i:675480 original size:79 final size:78
Alignment explanation
Indices: 675392--675926 Score: 509
Period size: 79 Copynumber: 6.9 Consensus size: 78
675382 CCATAATCGA
* * * * *
675392 GGATACTCCAACTCCGATTTTACTTCCAAAACACCGACTTTTCACAATCGGGGATATTCCAACCC
1 GGATACTCCAAC-CCGATTTTATTTCTAAAACACCAAATTTTCACAATCGGGGATACTCCAACCC
675457 CGTTATTTCTGAGG
65 CGTTATTTCTGAGG
* * * *
675471 GGACACTCCAACCCAGGTTTTATTTTTAAAACATCAAATTTT--C-ATCGGGGATACTCCAACCC
1 GGATACTCCAACCC-GATTTTATTTCTAAAACACCAAATTTTCACAATCGGGGATACTCCAACCC
675533 CGTTATTTCTGAGG
65 CGTTATTTCTGAGG
* * * * *
675547 GGACACTACAACCCCGATTTTGTTTCTAAAACATCAACTTTT--C-ATCGGGGATACTCCAACCC
1 GGATACTCCAA-CCCGATTTTATTTCTAAAACACCAAATTTTCACAATCGGGGATACTCCAACCC
*
675609 CATTATTT-TCG-GG
65 CGTTATTTCT-GAGG
** *
675622 GGATACTCCAACCTTAATTTTATTTCTAAAACACC-AATTCTTCACAATTGGGGATACTCCAACC
1 GGATACTCCAACC-CGATTTTATTTCTAAAACACCAAATT-TTCACAATCGGGGATACTCCAACC
* **
675686 CCATTATTTCCAAGG
64 CCGTTATTTCTGAGG
* *** * * * *
675701 GGATACTTCAACCTCGGCCTTATTTCTAAATCATCGATTTTTCACAATCGGGGATACTCCAACCC
1 GGATACTCCAACC-CGATTTTATTTCTAAAACACCAAATTTTCACAATCGGGGATACTCCAACCC
675766 CGTTATTT-TCGAGG
65 CGTTATTTCT-GAGG
* * * * * *
675780 GGATACTCCAACCCCGATTTCATTT-TCAAAATACC-GATTTTTATAATCAGGGATACTCCAACC
1 GGATACTCCAA-CCCGATTTTATTTCT-AAAACACCAAATTTTCACAATCGGGGATACTCCAACC
* *
675843 CTGTTATTTCCGAGG
64 CCGTTATTTCTGAGG
** * * *
675858 GGATACTCCAATCCCGATTTTATTTCTGGAACACCAATTTTTCATAATCGGGGATACTCCAGCCC
1 GGATACTCCAA-CCCGATTTTATTTCTAAAACACCAAATTTTCACAATCGGGGATACTCCAACCC
675923 CGTT
65 CGTT
675927 GTTATCTCCA
Statistics
Matches: 375, Mismatches: 64, Indels: 34
0.79 0.14 0.07
Matches are distributed among these distances:
74 5 0.01
75 31 0.08
76 93 0.25
77 5 0.01
78 92 0.25
79 144 0.38
80 5 0.01
ACGTcount: A:0.27, C:0.27, G:0.15, T:0.31
Consensus pattern (78 bp):
GGATACTCCAACCCGATTTTATTTCTAAAACACCAAATTTTCACAATCGGGGATACTCCAACCCC
GTTATTTCTGAGG
Found at i:675841 original size:157 final size:154
Alignment explanation
Indices: 675392--675926 Score: 528
Period size: 157 Copynumber: 3.4 Consensus size: 154
675382 CCATAATCGA
* * * * * * *
675392 GGATACTCCAACTCCGATTTTACTTCCAAAACACCGACTTTTCACAATCGGGGATATTCCAACCC
1 GGATACTACAAC-CCGATTTTA-TTTCTAAACATCAATTTTTCACAATCGGGGATACTCCAACCC
* * * * ** *
675457 CGTTA-TTTCTGAGGGGACACTCCAACCCAGGTTTTATTTTTAAAACATCAAATTT-TCATCGGG
64 CGTTATTTTC-GAGGGGATACTCCAACCCAGATTTTATTTTCAAAACACCATTTTTATAATCGGG
*
675520 GATACTCCAACCCCGTTATTTCTGAGG
128 GATACTCCAACCCCGTTATTTCCGAGG
* * *
675547 GGACACTACAACCCCGATTTTGTTTCTAAAACATCAACTTTT--C-ATCGGGGATACTCCAACCC
1 GGATACTACAA-CCCGATTTTATTTCT-AAACATCAATTTTTCACAATCGGGGATACTCCAACCC
* * * * *
675609 CATTATTTTCG-GGGGATACTCCAACCTTA-ATTTTA-TTTCTAAAACACCAATTCTTCACAATT
64 CGTTATTTTCGAGGGGATACTCCAACC-CAGATTTTATTTTC-AAAACACC-ATT-TTTATAATC
* *
675671 GGGGATACTCCAACCCCATTATTTCCAAGG
125 GGGGATACTCCAACCCCGTTATTTCCGAGG
* *** *
675701 GGATACTTCAACCTCGGCCTTATTTCTAAATCATCGATTTTTCACAATCGGGGATACTCCAACCC
1 GGATACTACAACC-CGATTTTATTTCTAAA-CATCAATTTTTCACAATCGGGGATACTCCAACCC
* * * *
675766 CGTTATTTTCGAGGGGATACTCCAACCCCGATTTCATTTTCAAAATACCGATTTTTATAATCAGG
64 CGTTATTTTCGAGGGGATACTCCAACCCAGATTTTATTTTCAAAACACC-ATTTTTATAATCGGG
*
675831 GATACTCCAACCCTGTTATTTCCGAGG
128 GATACTCCAACCCCGTTATTTCCGAGG
* * * * *
675858 GGATACTCCAATCCCGATTTTATTTCTGGAACACCAATTTTTCATAATCGGGGATACTCCAGCCC
1 GGATACTACAA-CCCGATTTTATTTCT-AAACATCAATTTTTCACAATCGGGGATACTCCAACCC
675923 CGTT
64 CGTT
675927 GTTATCTCCA
Statistics
Matches: 309, Mismatches: 53, Indels: 34
0.78 0.13 0.09
Matches are distributed among these distances:
150 3 0.01
151 26 0.08
152 25 0.08
153 12 0.04
154 59 0.19
155 29 0.09
156 2 0.01
157 115 0.37
158 34 0.11
159 4 0.01
ACGTcount: A:0.27, C:0.27, G:0.15, T:0.31
Consensus pattern (154 bp):
GGATACTACAACCCGATTTTATTTCTAAACATCAATTTTTCACAATCGGGGATACTCCAACCCCG
TTATTTTCGAGGGGATACTCCAACCCAGATTTTATTTTCAAAACACCATTTTTATAATCGGGGAT
ACTCCAACCCCGTTATTTCCGAGG
Found at i:682216 original size:55 final size:55
Alignment explanation
Indices: 682129--683133 Score: 1020
Period size: 55 Copynumber: 17.4 Consensus size: 55
682119 TCTTTCCTTT
*
682129 CACTCTTT-AGTCCTCAAAAAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGG
1 CACT-TTTCAGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGG
* *
682184 CACTTTTCAGTCCTCAAAGAGCGGGACTCCTTTCAAAGCCCACACAAGTTGGTGG
1 CACTTTTCAGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGG
* * * *
682239 CATTTTTTAGTCCTCAAAGAGCAGGACACCTTTTAAAGCCCACACAAGTTGGTGG
1 CACTTTTCAGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGG
*
682294 CACTTTTCTAGTCCTCAAAGAGCAGGACGCCTTTTCCTTTTAAAACCCACACAAGTTGGTGG
1 CACTTTTC-AGTCCTCAAAGAGCAGGACGCC-TTT-C----AAAGCCCACACAAGTTGGTGG
*
682356 CACCTTTCAGTCCTCAAAGAGCAGGACGCCTTTCAGAA-CCCACACAAGTTGGTGG
1 CACTTTTCAGTCCTCAAAGAGCAGGACGCCTTTCA-AAGCCCACACAAGTTGGTGG
* * *
682411 CATTTTTTAGTCCTCAAAGAGCAGGACGCCTTTTAAAGCCCACACAAGTTGGTGG
1 CACTTTTCAGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGG
*
682466 CACTTTTCTAGTCCTCAAAGAGCAGGACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGA
1 CACTTTTC-AGTCCTCAAAGAGCAGGACGCC-TTT-C----AAAGCCCACACAAGTTGGTGG
*
682528 CACCTTT-AGTCCTCAAAGAGCAGGACGCCTTCGCCTTTCAAAGCCCACACAAGTTGGTGG
1 CACTTTTCAGTCCTCAAAGAGCAGGA------CGCCTTTCAAAGCCCACACAAGTTGGTGG
* * *
682588 CACTTTTCAGTCCTCAAAGAGCAGGACGCCTTTTAAAGCCCACACGAGCTGGTGG
1 CACTTTTCAGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGG
** * * * * *
682643 CACCCTTCGGTCCTCAAAGAGCAGGATGCCTTTTTCTTTTAAGGCCCACATAAGCTGGTGG
1 CACTTTTCAGTCCTCAAAGAGCAGGACGCC--TTTC----AAAGCCCACACAAGTTGGTGG
* *
682704 CAC-CTTCAGTCCTCAAAAAGCAGGACGCCTTTTCCGTTTAAAGCCCACACAAGTTGGTGG
1 CACTTTTCAGTCCTCAAAGAGCAGGACGCC-TTT-C----AAAGCCCACACAAGTTGGTGG
* * * *
682764 CACCTTT-AGTCCTCAAAGAGCAGGACGCCTTCACCTTTTAAAGCCCACACAAGTCGGTGC
1 CACTTTTCAGTCCTCAAAGAGCAGGACG------CCTTTCAAAGCCCACACAAGTTGGTGG
** * *
682824 CACTTCCCAGTCCCCAAAGAGCAGGACGCCTTTCAAAGCCCACACGAGTTGGTGG
1 CACTTTTCAGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGG
*
682879 CA-TTTTCCAGTCCTCAAAGAGCAGGACGCCTCTT-AAAGCCAACACAAGTTGGTGG
1 CACTTTT-CAGTCCTCAAAGAGCAGGACGCCT-TTCAAAGCCCACACAAGTTGGTGG
* * *
682934 CA-TTTTCCCGTCCTCAAAGAGTAGGACGCCTTGCAAAGCCCACACAAGTTGGTGG
1 CACTTTT-CAGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGG
* * ** *
682989 CATTTTTCAGTTCTCAAAGAAAAGGATGCTTTCTCTTTGCAAAGCCCACACAAGTTGGTGG
1 CACTTTTCAGTCCTCAAAGAGCAGGA--C--GC-CTTT-CAAAGCCCACACAAGTTGGTGG
* * *
683050 CA-TCTTCCAGTCCTCAAAAAGCAGGACGCCTTTCCTTTTCAAAGCCCACACGAGTTGGTGG
1 CACT-TTTCAGTCCTCAAAGAGCAGGACG-----CC-TTTCAAAGCCCACACAAGTTGGTGG
*
683111 CACTTTTTAGTCCTCAAAGAGCA
1 CACTTTTCAGTCCTCAAAGAGCA
683134 AGATGCACTT
Statistics
Matches: 812, Mismatches: 81, Indels: 108
0.81 0.08 0.11
Matches are distributed among these distances:
54 8 0.01
55 361 0.44
56 51 0.06
57 10 0.01
59 7 0.01
60 141 0.17
61 163 0.20
62 58 0.07
64 1 0.00
65 6 0.01
66 6 0.01
ACGTcount: A:0.26, C:0.29, G:0.21, T:0.24
Consensus pattern (55 bp):
CACTTTTCAGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGG
Found at i:682416 original size:172 final size:171
Alignment explanation
Indices: 682157--683133 Score: 1154
Period size: 172 Copynumber: 5.6 Consensus size: 171
682147 AAGCAGGACG
* * * *
682157 CCTTTCAAAGCCCACACAAGTTGGTGGCACTTTTCAGTCCTCAAAGAGCGGGACTCCTTTCAAAG
1 CCTTTTAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTCAAAGAGCAGGACGCCTTTCAAAG
*
682222 CCCACACAAGTTGGTGGCATTTTTTAGTCCTCAAAGAGCAGGACACCTTTTAAAGCCCACACAAG
66 CCCACACAAGTTGGTGGCATTTTTTAGTCCTCAAAGAGCAGGACGCCTTTTAAAGCCCACACAAG
682287 TTGGTGGCACTTTTCTAGTCCTCAAAGAGCAGGACGCCTTTT
131 TTGGTGGCACTTTTC-AGTCCTCAAAGAGCAGGACGCCTTTT
*
682329 CCTTTTAAAACCCACACAAGTTGGTGGCACCTTTCAGTCCTCAAAGAGCAGGACGCCTTTCAGAA
1 CCTTTTAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTCAAAGAGCAGGACGCCTTTCA-AA
682394 -CCCACACAAGTTGGTGGCATTTTTTAGTCCTCAAAGAGCAGGACGCCTTTTAAAGCCCACACAA
65 GCCCACACAAGTTGGTGGCATTTTTTAGTCCTCAAAGAGCAGGACGCCTTTTAAAGCCCACACAA
682458 GTTGGTGGCACTTTTCTAGTCCTCAAAGAGCAGGACGCCTTTT
130 GTTGGTGGCACTTTTC-AGTCCTCAAAGAGCAGGACGCCTTTT
*
682501 CCTTTTAAAGCCCACACAAGTTGGTGACACCTTT-AGTCCTCAAAGAGCAGGACGCCTTCGCCTT
1 CCTTTTAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTCAAAGAGCAGGA------CGCCTT
* *
682565 TCAAAGCCCACACAAGTTGGTGGCACTTTTCAGTCCTCAAAGAGCAGGACGCCTTTTAAAGCCCA
60 TCAAAGCCCACACAAGTTGGTGGCATTTTTTAGTCCTCAAAGAGCAGGACGCCTTTTAAAGCCCA
* * ** * *
682630 CACGAGCTGGTGGCACCCTTCGGTCCTCAAAGAGCAGGATGCCTTTT
125 CACAAGTTGGTGGCACTTTTCAGTCCTCAAAGAGCAGGACGCCTTTT
* * * * *
682677 TCTTTTAAGGCCCACATAAGCTGGTGGCACC-TTCAGTCCTCAAAAAGCAGGACGCCTTTTCCGT
1 CCTTTTAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTCAAAGAGCAGGACGCC-TTT-C--
**
682741 TTAAAGCCCACACAAGTTGGTGGCA-CCTTTAGTCCTCAAAGAGCAGGACGCCTTCACCTTTTAA
62 --AAAGCCCACACAAGTTGGTGGCATTTTTTAGTCCTCAAAGAGCAGGACG------CCTTTTAA
* * ** *
682805 AGCCCACACAAGTCGGTGCCACTTCCCAGTCCCCAAAGAGCAGGACGCC-TTT
119 AGCCCACACAAGTTGGTGGCACTTTTCAGTCCTCAAAGAGCAGGACGCCTTTT
* *
682857 -C----AAAGCCCACACGAGTTGGTGGCA-TTTTCCAGTCCTCAAAGAGCAGGACGCCTCTT-AA
1 CCTTTTAAAGCCCACACAAGTTGGTGGCACCTTT-CAGTCCTCAAAGAGCAGGACGCCT-TTCAA
* *** * **
682915 AGCCAACACAAGTTGGTGGCATTTTCCCGTCCTCAAAGAGTAGGACGCCTTGCAAAGCCCACACA
64 AGCCCACACAAGTTGGTGGCATTTTTTAGTCCTCAAAGAGCAGGACGCCTTTTAAAGCCCACACA
* * ** *
682980 AGTTGGTGGCATTTTTCAGTTCTCAAAGAAAAGGATG-C-TTT
129 AGTTGGTGGCACTTTTCAGTCCTCAAAGAGCAGGACGCCTTTT
* * * *
683021 CTCTTTGCAAAGCCCACACAAGTTGGTGGCATCTTCCAGTCCTCAAAAAGCAGGACGCCTTTCCT
1 C-CTTT-TAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTCAAAGAGCAGGACG-----CC-
* *
683086 TTTCAAAGCCCACACGAGTTGGTGGCACTTTTTAGTCCTCAAAGAGCA
58 TTTCAAAGCCCACACAAGTTGGTGGCATTTTTTAGTCCTCAAAGAGCA
683134 AGATGCACTT
Statistics
Matches: 693, Mismatches: 72, Indels: 75
0.82 0.09 0.09
Matches are distributed among these distances:
164 4 0.01
165 43 0.06
166 1 0.00
170 26 0.04
171 82 0.12
172 198 0.29
173 2 0.00
175 46 0.07
176 120 0.17
177 121 0.17
179 1 0.00
180 3 0.00
181 46 0.07
ACGTcount: A:0.26, C:0.29, G:0.21, T:0.24
Consensus pattern (171 bp):
CCTTTTAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTCAAAGAGCAGGACGCCTTTCAAAG
CCCACACAAGTTGGTGGCATTTTTTAGTCCTCAAAGAGCAGGACGCCTTTTAAAGCCCACACAAG
TTGGTGGCACTTTTCAGTCCTCAAAGAGCAGGACGCCTTTT
Found at i:682499 original size:28 final size:28
Alignment explanation
Indices: 682413--682501 Score: 72
Period size: 28 Copynumber: 3.2 Consensus size: 28
682403 GTTGGTGGCA
*
682413 TTTTTTAGTCCTCAAAGAGCAGGACGCC
1 TTTTCTAGTCCTCAAAGAGCAGGACGCC
** * * * ** **
682441 TTTTAAAGCCCACACA-AGTTGGTGGCAC
1 TTTTCTAGTCCTCAAAGAGCAGGACGC-C
682469 TTTTCTAGTCCTCAAAGAGCAGGACGCC
1 TTTTCTAGTCCTCAAAGAGCAGGACGCC
682497 TTTTC
1 TTTTC
682502 CTTTTAAAGC
Statistics
Matches: 41, Mismatches: 18, Indels: 4
0.65 0.29 0.06
Matches are distributed among these distances:
27 6 0.15
28 29 0.71
29 6 0.15
ACGTcount: A:0.25, C:0.26, G:0.20, T:0.29
Consensus pattern (28 bp):
TTTTCTAGTCCTCAAAGAGCAGGACGCC
Found at i:684019 original size:18 final size:19
Alignment explanation
Indices: 683996--684040 Score: 74
Period size: 18 Copynumber: 2.4 Consensus size: 19
683986 TTTGTTTAAT
683996 AAAATTAGTATTCCAT-AA
1 AAAATTAGTATTCCATAAA
*
684014 AAAATTAGTATTTCATAAA
1 AAAATTAGTATTCCATAAA
684033 AAAATTAG
1 AAAATTAG
684041 AGAAAGAAGT
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
18 15 0.60
19 10 0.40
ACGTcount: A:0.53, C:0.07, G:0.07, T:0.33
Consensus pattern (19 bp):
AAAATTAGTATTCCATAAA
Done.