Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008417.1 Hibiscus syriacus cultivar Beakdansim tig00111197_pilon, whole genome shotgun sequence
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: 1004101
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 4 of 5
Found at i:639931 original size:31 final size:32
Alignment explanation
Indices: 639871--639931 Score: 106
Period size: 32 Copynumber: 1.9 Consensus size: 32
639861 TGACAAAATG
*
639871 ACACAAACAAAAGAGAAGAAATAAGTTAGTGT
1 ACACAAACAAAAGAGAAGAAACAAGTTAGTGT
639903 ACACAAACAAAAGAGAA-AAACAAGTTAGT
1 ACACAAACAAAAGAGAAGAAACAAGTTAGT
639932 ACATGTAAAA
Statistics
Matches: 28, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
31 11 0.39
32 17 0.61
ACGTcount: A:0.59, C:0.11, G:0.16, T:0.13
Consensus pattern (32 bp):
ACACAAACAAAAGAGAAGAAACAAGTTAGTGT
Found at i:643272 original size:23 final size:23
Alignment explanation
Indices: 643223--643272 Score: 57
Period size: 23 Copynumber: 2.2 Consensus size: 23
643213 GTTAGGGGAT
* **
643223 TAGGGTTTAAACCCTAATATTTT
1 TAGGGTTTAAACCCTAATACTAC
643246 TAGGGTTTAAAACCCTAAT-CTAC
1 TAGGGTTT-AAACCCTAATACTAC
643269 TAGG
1 TAGG
643273 TTAGGTCCGG
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
23 13 0.57
24 10 0.43
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (23 bp):
TAGGGTTTAAACCCTAATACTAC
Found at i:643407 original size:3 final size:3
Alignment explanation
Indices: 643399--643477 Score: 131
Period size: 3 Copynumber: 26.0 Consensus size: 3
643389 TGTAATTAAT
**
643399 TAA TAA TAA TAAA TAA CGA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA T-AA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
643445 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
643478 AAGACCCGGA
Statistics
Matches: 71, Mismatches: 4, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
3 68 0.96
4 3 0.04
ACGTcount: A:0.66, C:0.01, G:0.01, T:0.32
Consensus pattern (3 bp):
TAA
Found at i:643798 original size:50 final size:50
Alignment explanation
Indices: 643744--643857 Score: 156
Period size: 50 Copynumber: 2.3 Consensus size: 50
643734 GTAGCAGTAA
* *
643744 AGCGCGCCCCCTGAACCGCGTTATACGCTGATTTGGCACCACGTGGGTAT
1 AGCGCGCCCCCTGAACCGCGATATACGCTGATCTGGCACCACGTGGGTAT
** * *
643794 AGCGCGCCCCCTGCCCCGCGATATACGGTGATCTGGCGCCACGTGGGTAT
1 AGCGCGCCCCCTGAACCGCGATATACGCTGATCTGGCACCACGTGGGTAT
* *
643844 TGCACGCCCCCTGA
1 AGCGCGCCCCCTGA
643858 TCTGCGCTAT
Statistics
Matches: 55, Mismatches: 9, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
50 55 1.00
ACGTcount: A:0.16, C:0.36, G:0.29, T:0.19
Consensus pattern (50 bp):
AGCGCGCCCCCTGAACCGCGATATACGCTGATCTGGCACCACGTGGGTAT
Found at i:644342 original size:111 final size:111
Alignment explanation
Indices: 644148--644480 Score: 596
Period size: 111 Copynumber: 3.0 Consensus size: 111
644138 TGGAAATCAT
* *
644148 ATATCTCTACACTTTGTTGATAC-GATAACATTTTAACGTTTTAATTTAATTTAAATTATTAGTA
1 ATATCTCGACACTTTGCTGATACAG-TAACATTTTAACGTTTTAATTTAATTTAAATTATTAGTA
* *
644212 ATATTTAGTTGATTTATTTAATGCATGATTATTAGATTAATAATTAA
65 ATAATTAGTTGATTTATTTAATGCATGATTATTAGATTAAGAATTAA
644259 ATATCTCGACACTTTGCTGATACAGTAACATTTTAACGTTTTAATTTAATTTAAATTATTAGTAA
1 ATATCTCGACACTTTGCTGATACAGTAACATTTTAACGTTTTAATTTAATTTAAATTATTAGTAA
644324 TAATTAGTTGATTTATTTAATGCATGATTATTAGATTAAGAATTAA
66 TAATTAGTTGATTTATTTAATGCATGATTATTAGATTAAGAATTAA
*
644370 ATATCTCGACACTTTGCTGATACAATAACATTTTAACGTTTTAATTTAATTTAAATTATTAGTAA
1 ATATCTCGACACTTTGCTGATACAGTAACATTTTAACGTTTTAATTTAATTTAAATTATTAGTAA
*
644435 TAATTAGTTGATTTATTTAATGCATGATTATTAGAGTAAGAATTAA
66 TAATTAGTTGATTTATTTAATGCATGATTATTAGATTAAGAATTAA
644481 TTTTTGTAAT
Statistics
Matches: 215, Mismatches: 6, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
111 214 1.00
112 1 0.00
ACGTcount: A:0.37, C:0.08, G:0.10, T:0.45
Consensus pattern (111 bp):
ATATCTCGACACTTTGCTGATACAGTAACATTTTAACGTTTTAATTTAATTTAAATTATTAGTAA
TAATTAGTTGATTTATTTAATGCATGATTATTAGATTAAGAATTAA
Found at i:648455 original size:20 final size:20
Alignment explanation
Indices: 648364--648443 Score: 54
Period size: 20 Copynumber: 4.0 Consensus size: 20
648354 ATATAACAGG
* *
648364 TTAAAATTTGACAAATCCAA
1 TTAAAATTTGACAAAACCGA
** * *
648384 TTTTAATTTAACAAAA-CAA
1 TTAAAATTTGACAAAACCGA
* *
648403 GTAACGAATTTGACTAAACCGA
1 TTAA--AATTTGACAAAACCGA
*
648425 TTAAAAATTGACAAAACCG
1 TTAAAATTTGACAAAACCG
648444 GTTTTAATTT
Statistics
Matches: 44, Mismatches: 13, Indels: 6
0.70 0.21 0.10
Matches are distributed among these distances:
19 4 0.09
20 25 0.57
21 10 0.23
22 5 0.11
ACGTcount: A:0.49, C:0.15, G:0.09, T:0.28
Consensus pattern (20 bp):
TTAAAATTTGACAAAACCGA
Found at i:649982 original size:197 final size:196
Alignment explanation
Indices: 649426--649997 Score: 620
Period size: 197 Copynumber: 2.9 Consensus size: 196
649416 AAACCAATTA
* * * *
649426 AAAATTGACAAAACCGGTTTCAATTTGAGAAAACTTGTAAAGAGCTACCAGAATTGTTGAAATTT
1 AAAATTGACAAAACCAGTTTCAATTTGACAAAACTGGTAAAGAGCTACCGGAA-TGTTG-AATTT
* * * *
649491 GTATCGATGCTTTTATAAGTATGTATACCAAAGTATCGGTACTATAGGAATTTAAAAGAAATGAA
64 GTATCGATACTTTTATAAGTATATGTACCAAAGTATCGGTACTTTAGGAATTTAAAAGAAAT-AA
* * * * * * * *
649556 AAAAGGAAAACGTGTCGAAAGTATGGATATCTCACACACATGTATAGATACATGACAATATAACA
128 AAAATGAAAACGTCTCAAAAGTATCGATACCTTACACAAATGTATCGATACATGACAATATAACA
649621 GGTT
193 GGTT
* * * *
649625 AAAATT-TCATGAAACCAATTTCAATTTGACAAAACCGGTAAAGAGATACCGGAATGGTTGACAT
1 AAAATTGACA--AAACCAGTTTCAATTTGACAAAACTGGTAAAGAGCTACCGGAAT-GTTGA-AT
* *
649689 TTGTATCGATACTTTTATAAATATATGTACCAAAGTATCGGTACTTTAGGAATTTAAAA-TAAT-
62 TTGTATCGATACTTTTATAAGTATATGTACCAAAGTATCGGTACTTTAGGAATTTAAAAGAAATA
* * * * * *
649752 TACAAT-AATAGCGCCT-ATAAACTATCGATACCTTAGACAAATGTATCGATACATGACAATATA
127 AAAAATGAA-AACGTCTCA-AAAGTATCGATACCTTACACAAATGTATCGATACATGACAATATA
*
649815 ACATGTT
190 ACAGGTT
* * * *
649822 GAAAATTGACAAAATCAGTTTCAATTTGACAAAACTGGTAAAGCGCTACTGGATATGTTG-A-TG
1 -AAAATTGACAAAACCAGTTTCAATTTGACAAAACTGGTAAAGAGCTACCGGA-ATGTTGAATTT
* * * *
649885 GTATCGATACTGTTT-TAAGTATATGTACCATAGTGTCAGTACTTTAGGAATTGAAAAGAAATAA
64 GTATCGATACT-TTTATAAGTATATGTACCAAAGTATCGGTACTTTAGGAATTTAAAAGAAATAA
* *
649949 AAAATTGAAAACGTCTCAAAAGTATCAATACCTTACACAAAAGTATCGA
128 AAAA-TGAAAACGTCTCAAAAGTATCGATACCTTACACAAATGTATCGA
649998 GACTTGGGTA
Statistics
Matches: 307, Mismatches: 51, Indels: 32
0.79 0.13 0.08
Matches are distributed among these distances:
194 49 0.16
195 7 0.02
196 5 0.02
197 124 0.40
198 13 0.04
199 13 0.04
200 96 0.31
ACGTcount: A:0.41, C:0.13, G:0.16, T:0.29
Consensus pattern (196 bp):
AAAATTGACAAAACCAGTTTCAATTTGACAAAACTGGTAAAGAGCTACCGGAATGTTGAATTTGT
ATCGATACTTTTATAAGTATATGTACCAAAGTATCGGTACTTTAGGAATTTAAAAGAAATAAAAA
ATGAAAACGTCTCAAAAGTATCGATACCTTACACAAATGTATCGATACATGACAATATAACAGGT
T
Found at i:652057 original size:12 final size:12
Alignment explanation
Indices: 652019--652057 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
652009 GAGGAGGAAT
*
652019 AGGAGGAAGAGA
1 AGGAAGAAGAGA
* *
652031 AGAAAAAAGAGA
1 AGGAAGAAGAGA
652043 AGGAAGAAGAGA
1 AGGAAGAAGAGA
652055 AGG
1 AGG
652058 TAGTAGGGGG
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
12 22 1.00
ACGTcount: A:0.59, C:0.00, G:0.41, T:0.00
Consensus pattern (12 bp):
AGGAAGAAGAGA
Found at i:654735 original size:7 final size:7
Alignment explanation
Indices: 654723--654762 Score: 66
Period size: 7 Copynumber: 6.0 Consensus size: 7
654713 TGATGCGCAC
654723 GGGGGAA
1 GGGGGAA
654730 GGGGGAA
1 GGGGGAA
654737 -GGGGAA
1 GGGGGAA
654743 -GGGGAA
1 GGGGGAA
654749 GGGGGAA
1 GGGGGAA
654756 GGGGGAA
1 GGGGGAA
654763 AACTATCTTG
Statistics
Matches: 32, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
6 12 0.38
7 20 0.62
ACGTcount: A:0.30, C:0.00, G:0.70, T:0.00
Consensus pattern (7 bp):
GGGGGAA
Found at i:654740 original size:6 final size:6
Alignment explanation
Indices: 654724--654759 Score: 54
Period size: 6 Copynumber: 5.7 Consensus size: 6
654714 GATGCGCACG
654724 GGGGAA GGGGGAA GGGGAA GGGGAA GGGGGAA GGGG
1 GGGGAA -GGGGAA GGGGAA GGGGAA -GGGGAA GGGG
654760 GAAAACTATC
Statistics
Matches: 28, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
6 16 0.57
7 12 0.43
ACGTcount: A:0.28, C:0.00, G:0.72, T:0.00
Consensus pattern (6 bp):
GGGGAA
Found at i:654742 original size:13 final size:14
Alignment explanation
Indices: 654723--654762 Score: 66
Period size: 13 Copynumber: 3.0 Consensus size: 14
654713 TGATGCGCAC
654723 GGGGGAAGGGGGAA
1 GGGGGAAGGGGGAA
654737 -GGGGAA-GGGGAA
1 GGGGGAAGGGGGAA
654749 GGGGGAAGGGGGAA
1 GGGGGAAGGGGGAA
654763 AACTATCTTG
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
12 6 0.25
13 12 0.50
14 6 0.25
ACGTcount: A:0.30, C:0.00, G:0.70, T:0.00
Consensus pattern (14 bp):
GGGGGAAGGGGGAA
Found at i:656436 original size:18 final size:19
Alignment explanation
Indices: 656413--656448 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
656403 CTTGAAGGTA
*
656413 ATGAAGTTA-CCATAAATC
1 ATGAAGTCATCCATAAATC
656431 ATGAAGTCATCCATAAAT
1 ATGAAGTCATCCATAAAT
656449 ACTTAGATTC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 8 0.50
19 8 0.50
ACGTcount: A:0.44, C:0.17, G:0.11, T:0.28
Consensus pattern (19 bp):
ATGAAGTCATCCATAAATC
Found at i:671342 original size:3 final size:3
Alignment explanation
Indices: 671334--671411 Score: 149
Period size: 3 Copynumber: 26.3 Consensus size: 3
671324 GTTTATGTAT
671334 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT- TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
671381 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
671412 AAATAATACA
Statistics
Matches: 74, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
2 2 0.03
3 72 0.97
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:674483 original size:239 final size:240
Alignment explanation
Indices: 674060--674546 Score: 935
Period size: 239 Copynumber: 2.0 Consensus size: 240
674050 GAAGGCTAGA
674060 AATA-TGGAACGAAGAGTCCTACATGAAGTAGAAAACAATGCAGATGTATCTGTAATATGTTTAA
1 AATATTGGAACGAAGAGTCCTACATGAAGTAGAAAACAATGCAGATGTATCTGTAATATGTTTAA
*
674124 GCTTTGTAATTAAACTTCGTTTCTGGTATAAAAGTTGTTATAAGAAATCATTTCATATTAACACT
66 GCTTTGTAATAAAACTTCGTTTCTGGTATAAAAGTTGTTATAAGAAATCATTTCATATTAACACT
674189 TTGCATCATGCATATGCATATTACTTTTTCACATTGTATTTTAGATATATTTATCATATTCATTA
131 TTGCATCATGCATATGCATATTACTTTTTCACATTGTATTTTAGATATATTTATCATATTCATTA
674254 ATAAAACATCTATATTAATT-AAAGGGGTTTTTTGTTTTTCGAAG
196 ATAAAACATCTATATTAATTAAAAGGGGTTTTTTGTTTTTCGAAG
674298 AATATTGGAACGAAGAGTCCTACATGAAGTAGAAAACAATGCAGATGTATCTGTAATATGTTTAA
1 AATATTGGAACGAAGAGTCCTACATGAAGTAGAAAACAATGCAGATGTATCTGTAATATGTTTAA
674363 GCTTTGTAATAAAACTTCGTTTCTGGTATAAAAGTTGTTATAAGAAATCATTTCAGTATTAACAC
66 GCTTTGTAATAAAACTTCGTTTCTGGTATAAAAGTTGTTATAAGAAATCATTTCA-TATTAACAC
674428 TTTGCATCATGCATATGCATATTAC-TTTTCACATTGTATTTTAGATATATTTATCATATTCATT
130 TTTGCATCATGCATATGCATATTACTTTTTCACATTGTATTTTAGATATATTTATCATATTCATT
674492 AATAAAACATCTATATTAATTAAAAGGGGTTTTTTGTTTTTCGAAG
195 AATAAAACATCTATATTAATTAAAAGGGGTTTTTTGTTTTTCGAAG
674538 AATATTGGA
1 AATATTGGA
674547 CACCTCTAAG
Statistics
Matches: 245, Mismatches: 1, Indels: 4
0.98 0.00 0.02
Matches are distributed among these distances:
238 4 0.02
239 174 0.71
240 67 0.27
ACGTcount: A:0.35, C:0.11, G:0.14, T:0.39
Consensus pattern (240 bp):
AATATTGGAACGAAGAGTCCTACATGAAGTAGAAAACAATGCAGATGTATCTGTAATATGTTTAA
GCTTTGTAATAAAACTTCGTTTCTGGTATAAAAGTTGTTATAAGAAATCATTTCATATTAACACT
TTGCATCATGCATATGCATATTACTTTTTCACATTGTATTTTAGATATATTTATCATATTCATTA
ATAAAACATCTATATTAATTAAAAGGGGTTTTTTGTTTTTCGAAG
Found at i:677450 original size:15 final size:15
Alignment explanation
Indices: 677426--677456 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
677416 AATGAGAAAA
*
677426 ACATTTTCAAATAAG
1 ACATTCTCAAATAAG
677441 ACATTCTCAAATAAG
1 ACATTCTCAAATAAG
677456 A
1 A
677457 AGGGTCCTTG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.48, C:0.16, G:0.06, T:0.29
Consensus pattern (15 bp):
ACATTCTCAAATAAG
Found at i:678044 original size:38 final size:39
Alignment explanation
Indices: 678001--678172 Score: 233
Period size: 38 Copynumber: 4.5 Consensus size: 39
677991 TACAACTTGG
* * *
678001 AATGTTGGGACATTTTGAAGGTTCATATCAGCATGAAA-
1 AATGTTGGGACATTTTGAAGGCTCATATCAACAAGAAAT
* *
678039 AATGTTGGGTCATTTGGAAGGCTCATATCAACAAGAAAT
1 AATGTTGGGACATTTTGAAGGCTCATATCAACAAGAAAT
* * * *
678078 CATGTTGGGACATTTTAAAGGCTCACATCAACATGAAA-
1 AATGTTGGGACATTTTGAAGGCTCATATCAACAAGAAAT
*
678116 AATGTTGGG-CATTTAGAAGGCTCATATCAACAAGAAAT
1 AATGTTGGGACATTTTGAAGGCTCATATCAACAAGAAAT
678154 AATGTTGGGACATTTTGAA
1 AATGTTGGGACATTTTGAA
678173 CGTTCGTATC
Statistics
Matches: 114, Mismatches: 17, Indels: 5
0.84 0.12 0.04
Matches are distributed among these distances:
37 24 0.21
38 50 0.44
39 40 0.35
ACGTcount: A:0.36, C:0.13, G:0.22, T:0.29
Consensus pattern (39 bp):
AATGTTGGGACATTTTGAAGGCTCATATCAACAAGAAAT
Found at i:678159 original size:76 final size:77
Alignment explanation
Indices: 678001--678169 Score: 277
Period size: 76 Copynumber: 2.2 Consensus size: 77
677991 TACAACTTGG
* * * * *
678001 AATGTTGGGACATTTTGAAGGTTCATATCAGCATGAAAAATGTTGGGTCATTTGGAAGGCTCATA
1 AATGTTGGGACATTTTAAAGGCTCACATCAACATGAAAAATGTTGGGTCATTTAGAAGGCTCATA
678066 TCAACAAGAAAT
66 TCAACAAGAAAT
*
678078 CATGTTGGGACATTTTAAAGGCTCACATCAACATGAAAAATGTTGGG-CATTTAGAAGGCTCATA
1 AATGTTGGGACATTTTAAAGGCTCACATCAACATGAAAAATGTTGGGTCATTTAGAAGGCTCATA
678142 TCAACAAGAAAT
66 TCAACAAGAAAT
678154 AATGTTGGGACATTTT
1 AATGTTGGGACATTTT
678170 GAACGTTCGT
Statistics
Matches: 85, Mismatches: 7, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
76 43 0.51
77 42 0.49
ACGTcount: A:0.36, C:0.13, G:0.22, T:0.30
Consensus pattern (77 bp):
AATGTTGGGACATTTTAAAGGCTCACATCAACATGAAAAATGTTGGGTCATTTAGAAGGCTCATA
TCAACAAGAAAT
Found at i:679425 original size:90 final size:90
Alignment explanation
Indices: 679272--679533 Score: 391
Period size: 90 Copynumber: 2.9 Consensus size: 90
679262 AAGATTGCAT
* * *
679272 ATTTGGTCTCCCTGGAAGAGTAGTGGAAACAAATCAACATCGAGTATGATCTCCACGAAAGAGTA
1 ATTTGGTCTCCCCGGAAGAGTAGTGGAAGCAAATCAACCTCGAGTATGATCTCCACGAAAGAGTA
679337 GTGGAACAGATTCTTCTTATTTCAG
66 GTGGAACAGATTCTTCTTATTTCAG
* *
679362 ATTTGGTCTCCCCGGAAGAGTAGTGGAAGCAAATCAACCTCGAGTCTGATCTTCACGAAAGAGTT
1 ATTTGGTCTCCCCGGAAGAGTAGTGGAAGCAAATCAACCTCGAGTATGATCTCCACGAAAGAG-T
* *
679427 A-TGGAACAGATTCTTTTTATTTCAT
65 AGTGGAACAGATTCTTCTTATTTCAG
* * * *
679452 ATTTGGTCTCCACGGAAGAGTAGTGGAAGCGAATCAACCTCGAGTTTGATCTCCACAAAAGAGTA
1 ATTTGGTCTCCCCGGAAGAGTAGTGGAAGCAAATCAACCTCGAGTATGATCTCCACGAAAGAGTA
* *
679517 GTGGAATAAATTCTTCT
66 GTGGAACAGATTCTTCT
679534 CCATCACAGA
Statistics
Matches: 155, Mismatches: 15, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
89 2 0.01
90 151 0.97
91 2 0.01
ACGTcount: A:0.31, C:0.18, G:0.22, T:0.29
Consensus pattern (90 bp):
ATTTGGTCTCCCCGGAAGAGTAGTGGAAGCAAATCAACCTCGAGTATGATCTCCACGAAAGAGTA
GTGGAACAGATTCTTCTTATTTCAG
Found at i:679667 original size:36 final size:36
Alignment explanation
Indices: 679548--679872 Score: 283
Period size: 36 Copynumber: 8.8 Consensus size: 36
679538 CACAGATTTC
679548 AGCCTTCACAGATA-AGTAGTGAAGCAAAGCAATCTT
1 AGCCTTCACAGA-AGAGTAGTGAAGCAAAGCAATCTT
* ** *
679584 TGTATTCACAGAAGAGAGAGTAGTGAAACAAAGAGCAATCTT
1 AGCCTTCAC---AGA-AGAGTAGTGAAGC-AA-AGCAATCTT
* *
679626 GGCCTTCATAGAAGAGTAGTGAAGCAAAGCAATCTT
1 AGCCTTCACAGAAGAGTAGTGAAGCAAAGCAATCTT
* *
679662 AGCCTTCACAGAAGGGTAGTGAAGCAAAGCAATCAT
1 AGCCTTCACAGAAGAGTAGTGAAGCAAAGCAATCTT
* * *
679698 AGCCTTCACAAAAAGAGTAGTGAAGCAAATCAATCTC
1 AGCCTTCAC-AGAAGAGTAGTGAAGCAAAGCAATCTT
* * * **
679735 AGCCTTCACAAAAGAGTAGTAAAGCAAATCAATCAC
1 AGCCTTCACAGAAGAGTAGTGAAGCAAAGCAATCTT
* * *
679771 AACCTTCACAGAAGAGTAGTGAAGCAAATCAATCAT
1 AGCCTTCACAGAAGAGTAGTGAAGCAAAGCAATCTT
* * * * * **
679807 ATCCTTCACAAAAAAAGGAGTGAAGCAAATCAATTCCA
1 AGCCTTCAC-AGAAGAGTAGTGAAGCAAAGCAA-TCTT
* * *
679845 AGCATTCACAAAAAGAGTAGTAAAGCAA
1 AGCCTTCAC-AGAAGAGTAGTGAAGCAA
679873 GATAAAATCA
Statistics
Matches: 244, Mismatches: 36, Indels: 16
0.82 0.12 0.05
Matches are distributed among these distances:
36 121 0.50
37 53 0.22
38 37 0.15
39 7 0.03
40 10 0.04
41 2 0.01
42 14 0.06
ACGTcount: A:0.43, C:0.18, G:0.19, T:0.19
Consensus pattern (36 bp):
AGCCTTCACAGAAGAGTAGTGAAGCAAAGCAATCTT
Found at i:679739 original size:73 final size:73
Alignment explanation
Indices: 679548--679872 Score: 291
Period size: 73 Copynumber: 4.4 Consensus size: 73
679538 CACAGATTTC
* * * ** *
679548 AGCCTTCACAGATA-AGTAGTGAAGCAAAGCAATCTTTGTATTCACAGAAGAGAGAGTAGTGAAA
1 AGCCTTCACAAAAAGAGTAGTGAAGCAAAGCAATCTTAGCCTTCACA-AA-AG-G-GTAGTGAAG
*
679612 CAAAGAGCAATCTT
62 C-AA-AGCAATCAT
* * * *
679626 GGCCTTCA-TAGAAGAGTAGTGAAGCAAAGCAATCTTAGCCTTCACAGAAGGGTAGTGAAGCAAA
1 AGCCTTCACAAAAAGAGTAGTGAAGCAAAGCAATCTTAGCCTTCACAAAAGGGTAGTGAAGCAAA
679690 GCAATCAT
66 GCAATCAT
* * * *
679698 AGCCTTCACAAAAAGAGTAGTGAAGCAAATCAATCTCAGCCTTCACAAAAGAGTAGTAAAGCAAA
1 AGCCTTCACAAAAAGAGTAGTGAAGCAAAGCAATCTTAGCCTTCACAAAAGGGTAGTGAAGCAAA
* *
679763 TCAATCAC
66 GCAATCAT
* * * * * *
679771 AACCTTCAC-AGAAGAGTAGTGAAGCAAATCAATCATATCCTTCACAAAAAAAGG-AGTGAAGCA
1 AGCCTTCACAAAAAGAGTAGTGAAGCAAAGCAATCTTAGCCTTCAC--AAAAGGGTAGTGAAGCA
*
679834 AATCAATTCCA-
64 AAGCAA-T-CAT
* *
679845 AGCATTCACAAAAAGAGTAGTAAAGCAA
1 AGCCTTCACAAAAAGAGTAGTGAAGCAA
679873 GATAAAATCA
Statistics
Matches: 207, Mismatches: 33, Indels: 17
0.81 0.13 0.07
Matches are distributed among these distances:
72 47 0.23
73 79 0.38
74 22 0.11
75 19 0.09
76 2 0.01
77 2 0.01
78 36 0.17
ACGTcount: A:0.43, C:0.18, G:0.19, T:0.19
Consensus pattern (73 bp):
AGCCTTCACAAAAAGAGTAGTGAAGCAAAGCAATCTTAGCCTTCACAAAAGGGTAGTGAAGCAAA
GCAATCAT
Found at i:679768 original size:109 final size:109
Alignment explanation
Indices: 679547--679872 Score: 368
Period size: 109 Copynumber: 2.9 Consensus size: 109
679537 TCACAGATTT
* * **
679547 CAGCCTTCACAGATA-AGTAGTGAAGCAAAGCAATCTTTGTATTCACAGAAGAGAGAGTAGTGAA
1 CAGCCTTCACAGA-AGAGTAGTGAAGCAAAGCAATCATAGCCTTCACA-AA-A-AGAGTAGTGAA
* * ** * * * *
679611 ACAAAGAGCAATCTTGGCCTTCATAGAAGAGTAGTGAAGCAAAGCAATCT
62 GC-AA-ATCAATCTCAGCCTTCACAAAAGAGTAGTAAAGCAAAGCAATCA
* *
679661 TAGCCTTCACAGAAGGGTAGTGAAGCAAAGCAATCATAGCCTTCACAAAAAGAGTAGTGAAGCAA
1 CAGCCTTCACAGAAGAGTAGTGAAGCAAAGCAATCATAGCCTTCACAAAAAGAGTAGTGAAGCAA
*
679726 ATCAATCTCAGCCTTCACAAAAGAGTAGTAAAGCAAATCAATCA
66 ATCAATCTCAGCCTTCACAAAAGAGTAGTAAAGCAAAGCAATCA
* * * * *
679770 CAACCTTCACAGAAGAGTAGTGAAGCAAATCAATCATATCCTTCACAAAAAAAGGAGTGAAGCAA
1 CAGCCTTCACAGAAGAGTAGTGAAGCAAAGCAATCATAGCCTTCACAAAAAGAGTAGTGAAGCAA
*
679835 ATCAAT-TCCAAGCATTCACAAAAAGAGTAGTAAAGCAA
66 ATCAATCT-C-AGCCTTCAC-AAAAGAGTAGTAAAGCAA
679873 GATAAAATCA
Statistics
Matches: 185, Mismatches: 23, Indels: 11
0.84 0.11 0.05
Matches are distributed among these distances:
108 1 0.01
109 101 0.55
110 10 0.05
111 30 0.16
112 1 0.01
113 3 0.02
114 39 0.21
ACGTcount: A:0.43, C:0.19, G:0.19, T:0.19
Consensus pattern (109 bp):
CAGCCTTCACAGAAGAGTAGTGAAGCAAAGCAATCATAGCCTTCACAAAAAGAGTAGTGAAGCAA
ATCAATCTCAGCCTTCACAAAAGAGTAGTAAAGCAAAGCAATCA
Found at i:684365 original size:6 final size:6
Alignment explanation
Indices: 684354--684427 Score: 104
Period size: 6 Copynumber: 13.2 Consensus size: 6
684344 CTTGGACTAT
*
684354 CACGAC CACGAC GACGAC CACGAC CACGAC CACGAC CACGAC CACGA-
1 CACGAC CACGAC CACGAC CACGAC CACGAC CACGAC CACGAC CACGAC
684401 CACGA- CACGA- CACGA- CACGA- CACGAC C
1 CACGAC CACGAC CACGAC CACGAC CACGAC C
684428 CGAGATGAGA
Statistics
Matches: 65, Mismatches: 2, Indels: 2
0.94 0.03 0.03
Matches are distributed among these distances:
5 25 0.38
6 40 0.62
ACGTcount: A:0.35, C:0.46, G:0.19, T:0.00
Consensus pattern (6 bp):
CACGAC
Found at i:685078 original size:23 final size:21
Alignment explanation
Indices: 685051--685096 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
685041 CACAACGGAT
685051 TTGGAATAAATCGCAACGCGAAC
1 TTGGAAT--ATCGCAACGCGAAC
* *
685074 TTGGACTATCGCAATGCGAAC
1 TTGGAATATCGCAACGCGAAC
685095 TT
1 TT
685097 CGTCTATCGC
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
21 15 0.71
23 6 0.29
ACGTcount: A:0.33, C:0.22, G:0.22, T:0.24
Consensus pattern (21 bp):
TTGGAATATCGCAACGCGAAC
Found at i:685084 original size:21 final size:21
Alignment explanation
Indices: 685060--685107 Score: 69
Period size: 21 Copynumber: 2.3 Consensus size: 21
685050 TTTGGAATAA
*
685060 ATCGCAACGCGAACTTGGACT
1 ATCGCAACGCGAACTTCGACT
* *
685081 ATCGCAATGCGAACTTCGTCT
1 ATCGCAACGCGAACTTCGACT
685102 ATCGCA
1 ATCGCA
685108 TTGCAATTTA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.27, C:0.29, G:0.21, T:0.23
Consensus pattern (21 bp):
ATCGCAACGCGAACTTCGACT
Found at i:685148 original size:21 final size:21
Alignment explanation
Indices: 685122--685341 Score: 254
Period size: 21 Copynumber: 10.6 Consensus size: 21
685112 AATTTACATA
685122 TTCGCATTGCGATAGTCCAAG
1 TTCGCATTGCGATAGTCCAAG
* *
685143 TTCGCATTGCGATAGT-CGAC
1 TTCGCATTGCGATAGTCCAAG
* *
685163 TATCGCATTGCGAT-TTACATA-
1 T-TCGCATTGCGATAGTCCA-AG
685184 TTCGCATTGCGATAGTCCAAG
1 TTCGCATTGCGATAGTCCAAG
* * *
685205 TTCGCATTGCGACAGT-CGAC
1 TTCGCATTGCGATAGTCCAAG
* *
685225 TATCGCATTGCGAT-TTACATA-
1 T-TCGCATTGCGATAGTCCA-AG
685246 TTCGCATTGCGATAGTCCAAG
1 TTCGCATTGCGATAGTCCAAG
685267 TTCGCATTGCGATAGTCCAAG
1 TTCGCATTGCGATAGTCCAAG
685288 TTCGCATTGCGATAGTCCAAG
1 TTCGCATTGCGATAGTCCAAG
* *
685309 TTCGTATTGCGATAGTCGAAG
1 TTCGCATTGCGATAGTCCAAG
*
685330 TTCGCGTTGCGA
1 TTCGCATTGCGA
685342 ATCTGGAAAC
Statistics
Matches: 171, Mismatches: 18, Indels: 20
0.82 0.09 0.10
Matches are distributed among these distances:
20 34 0.20
21 135 0.79
22 2 0.01
ACGTcount: A:0.23, C:0.23, G:0.23, T:0.31
Consensus pattern (21 bp):
TTCGCATTGCGATAGTCCAAG
Found at i:685148 original size:62 final size:62
Alignment explanation
Indices: 685082--685342 Score: 334
Period size: 62 Copynumber: 4.2 Consensus size: 62
685072 ACTTGGACTA
* * * *
685082 TCGCAATGCGAACTTCGTCTATCGCATTGCAATTTACATATTCGCATTGCGATAGTCCAAGT
1 TCGCATTGCGAACGTCGACTATCGCATTGCGATTTACATATTCGCATTGCGATAGTCCAAGT
685144 TCGCATTGCGATA-GTCGACTATCGCATTGCGATTTACATATTCGCATTGCGATAGTCCAAGT
1 TCGCATTGCGA-ACGTCGACTATCGCATTGCGATTTACATATTCGCATTGCGATAGTCCAAGT
685206 TCGCATTGCG-ACAGTCGACTATCGCATTGCGATTTACATATTCGCATTGCGATAGTCCAAGT
1 TCGCATTGCGAAC-GTCGACTATCGCATTGCGATTTACATATTCGCATTGCGATAGTCCAAGT
* * * * * *
685268 TCGCATTGCGATA-GTCCAAGT-TCGCATTGCGATAGTCCA-AGTTCGTATTGCGATAGTCGAAG
1 TCGCATTGCGA-ACGT-CGACTATCGCATTGCGAT-TTACATA-TTCGCATTGCGATAGTCCAAG
685330 T
62 T
*
685331 TCGCGTTGCGAA
1 TCGCATTGCGAA
685343 TCTGGAAACT
Statistics
Matches: 180, Mismatches: 11, Indels: 16
0.87 0.05 0.08
Matches are distributed among these distances:
60 1 0.01
62 141 0.78
63 37 0.21
64 1 0.01
ACGTcount: A:0.24, C:0.23, G:0.22, T:0.31
Consensus pattern (62 bp):
TCGCATTGCGAACGTCGACTATCGCATTGCGATTTACATATTCGCATTGCGATAGTCCAAGT
Found at i:685209 original size:83 final size:86
Alignment explanation
Indices: 685122--685327 Score: 275
Period size: 83 Copynumber: 2.5 Consensus size: 86
685112 AATTTACATA
*
685122 TTCGCATTGCGATAGTCCAAGTTCGCATTGCGATAGTCGAC-TA-TCGCATTGCGAT-TTACATA
1 TTCGCATTGCGATAGTCCAAGTTCGCATTGCGATAGTCGACATATTCGCATTGCGATAGTACA-A
685184 -TTCGCATTGCGATAGTCCAAG
65 GTTCGCATTGCGATAGTCCAAG
* * * * *
685205 TTCGCATTGCGACAGT-CGACTATCGCATTGCGAT--T-TACATATTCGCATTGCGATAGTCCAA
1 TTCGCATTGCGATAGTCCAAGT-TCGCATTGCGATAGTCGACATATTCGCATTGCGATAGTACAA
685266 GTTCGCATTGCGATAGTCCAAG
65 GTTCGCATTGCGATAGTCCAAG
*
685288 TTCGCATTGCGATAGTCCAAGTTCGTATTGCGATAGTCGA
1 TTCGCATTGCGATAGTCCAAGTTCGCATTGCGATAGTCGA
685328 AGTTCGCGTT
Statistics
Matches: 103, Mismatches: 11, Indels: 15
0.80 0.09 0.12
Matches are distributed among these distances:
80 2 0.02
81 3 0.03
82 16 0.16
83 77 0.75
84 3 0.03
85 1 0.01
86 1 0.01
ACGTcount: A:0.24, C:0.23, G:0.22, T:0.31
Consensus pattern (86 bp):
TTCGCATTGCGATAGTCCAAGTTCGCATTGCGATAGTCGACATATTCGCATTGCGATAGTACAAG
TTCGCATTGCGATAGTCCAAG
Found at i:685245 original size:124 final size:125
Alignment explanation
Indices: 685100--685341 Score: 373
Period size: 124 Copynumber: 1.9 Consensus size: 125
685090 CGAACTTCGT
*
685100 CTATCGCATTGCAATTTACATATTCGCATTGCGATAGTCCAAGTTCGCATTGCGATAGT-CGACT
1 CTATCGCATTGCAATTTACATATTCGCATTGCGATAGTCCAAGTTCGCATTGCGATAGTCCAACT
*
685164 ATCGCATTGCGAT-TTACATA-TTCGCATTGCGATAGTCCAAGTTCGCATTGCGACAGTCGA
66 -TCGCATTGCGATAGTACA-AGTTCGCATTGCGATAGTCCAAGTTCGCATTGCGACAGTCGA
* *
685224 CTATCGCATTGCGATTTACATATTCGCATTGCGATAGTCCAAGTTCGCATTGCGATAGTCCAAGT
1 CTATCGCATTGCAATTTACATATTCGCATTGCGATAGTCCAAGTTCGCATTGCGATAGTCCAACT
* * * *
685289 TCGCATTGCGATAGTCCAAGTTCGTATTGCGATAGTCGAAGTTCGCGTTGCGA
66 TCGCATTGCGATAGTACAAGTTCGCATTGCGATAGTCCAAGTTCGCATTGCGA
685342 ATCTGGAAAC
Statistics
Matches: 107, Mismatches: 8, Indels: 5
0.89 0.07 0.04
Matches are distributed among these distances:
124 71 0.66
125 36 0.34
ACGTcount: A:0.24, C:0.23, G:0.22, T:0.31
Consensus pattern (125 bp):
CTATCGCATTGCAATTTACATATTCGCATTGCGATAGTCCAAGTTCGCATTGCGATAGTCCAACT
TCGCATTGCGATAGTACAAGTTCGCATTGCGATAGTCCAAGTTCGCATTGCGACAGTCGA
Found at i:688395 original size:30 final size:29
Alignment explanation
Indices: 688357--688415 Score: 77
Period size: 31 Copynumber: 2.0 Consensus size: 29
688347 ATTAATAAAT
688357 AAATATT-AA-AAATATATAATTTTTCATAA
1 AAATATTAAATAAAT-TATAATTTTT-ATAA
688386 AAATGATTAAATAAATTATAATTTTTATAA
1 AAAT-ATTAAATAAATTATAATTTTTATAA
688416 TATTTAATAT
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
29 4 0.15
30 7 0.26
31 12 0.44
32 4 0.15
ACGTcount: A:0.54, C:0.02, G:0.02, T:0.42
Consensus pattern (29 bp):
AAATATTAAATAAATTATAATTTTTATAA
Found at i:689800 original size:3 final size:3
Alignment explanation
Indices: 689792--689883 Score: 96
Period size: 3 Copynumber: 30.7 Consensus size: 3
689782 TTATTTATTA
* *
689792 AAT AAT AAT AAT ATAT AAT ATT AAT ATT AAT AAT AAT -AT AAT AAT
1 AAT AAT AAT AAT A-AT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
* * ** **
689837 ACT AAT AAT AAT ACT AAT AAT TTT AAT AAT AAT TTT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
689884 ATTTAAATGA
Statistics
Matches: 71, Mismatches: 16, Indels: 4
0.78 0.18 0.04
Matches are distributed among these distances:
2 2 0.03
3 66 0.93
4 3 0.04
ACGTcount: A:0.58, C:0.02, G:0.00, T:0.40
Consensus pattern (3 bp):
AAT
Found at i:690328 original size:75 final size:76
Alignment explanation
Indices: 690013--690590 Score: 854
Period size: 75 Copynumber: 7.7 Consensus size: 76
690003 GAAATGTTGA
* *
690013 AAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGG-TTTGAAAACATCAAAAAGCTCCCGA
1 AAACATCATGCACTGCAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCTCCCGA
690077 AGGCTTTTTGG
66 AGGCTTTTTGG
* * *
690088 AAACATCATGCACTGTAGGACTTACAGATGACCC-TAGGCTTT-AAAACATCAAAAAGCTCCCAA
1 AAACATCATGCACTGCAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCTCCCGA
690151 AGGCTTTTTGG
66 AGGCTTTTTGG
690162 AAACATCATGCACTGCAGGACTTACAGATGACCCTG-AGGCTTTGAAAACATCAAAAAGCTCCCG
1 AAACATCATGCACTGCAGGACTTACAGATGACCC-GAAGGCTTTGAAAACATCAAAAAGCTCCCG
690226 AAGGCTTTTTGG
65 AAGGCTTTTTGG
* * *
690238 AAACATCATGCACTGTAGGACTTACAGACGACCCTG-AGGCTTTGAGAACATC-AAAAGCTCCCG
1 AAACATCATGCACTGCAGGACTTACAGATGACCC-GAAGGCTTTGAAAACATCAAAAAGCTCCCG
690301 AAGGCTTTTTGG
65 AAGGCTTTTTGG
* * *
690313 AAATATCATGCACTGTAGGACTTACAGACGACCCTG-AGGCTTTGAAAACATCAAAAAGCTCCCG
1 AAACATCATGCACTGCAGGACTTACAGATGACCC-GAAGGCTTTGAAAACATCAAAAAGCTCCCG
690377 AAGGCTTTTTGG
65 AAGGCTTTTTGG
690389 AAACATCATGCACTGCAGGACTTACAGATGACCCGAAGGCTTT-AAAACATC-AAAAGCTCCCGA
1 AAACATCATGCACTGCAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCTCCCGA
690452 AGGCTTTTTGG
66 AGGCTTTTTGG
* * * * **
690463 AAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGTTTTGAAAATATCAAAAAGCT-TTG
1 -AAACATCATGCACTGCAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCTCCCG
*
690527 AAGGCTTTTTGA
65 AAGGCTTTTTGG
* * *
690539 AAACATCCTGCACT-CAGGGCTTACGGATGACCCGAAGGCTTTGAAAACATCA
1 AAACATCATGCACTGCAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCA
690591 TGCACTGAAG
Statistics
Matches: 468, Mismatches: 26, Indels: 19
0.91 0.05 0.04
Matches are distributed among these distances:
74 124 0.26
75 177 0.38
76 160 0.34
77 7 0.01
ACGTcount: A:0.34, C:0.22, G:0.21, T:0.23
Consensus pattern (76 bp):
AAACATCATGCACTGCAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCTCCCGA
AGGCTTTTTGG
Found at i:690356 original size:151 final size:150
Alignment explanation
Indices: 690013--690590 Score: 864
Period size: 151 Copynumber: 3.9 Consensus size: 150
690003 GAAATGTTGA
*
690013 AAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGG-TTTGAAAACATCAAAAAGCTCCCGA
1 AAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCTCCCGA
* *
690077 AGGCTTTTTGGAAACATCATGCACTGTAGGACTTACAGATGACCC-TAGGCTTTAAAACATCAAA
66 AGGCTTTTTGGAAACATCATGCACTGCAGGACTTACAGATGACCCGAAGGCTTTAAAACATC-AA
*
690141 AAGCTCCCAAAGGCTTTTTGG
130 AAGCTCCCGAAGGCTTTTTGG
*
690162 AAACATCATGCACTGCAGGACTTACAGATGACCCTG-AGGCTTTGAAAACATCAAAAAGCTCCCG
1 AAACATCATGCACTGAAGGACTTACAGATGACCC-GAAGGCTTTGAAAACATCAAAAAGCTCCCG
* * *
690226 AAGGCTTTTTGGAAACATCATGCACTGTAGGACTTACAGACGACCCTG-AGGCTTTGAGAACATC
65 AAGGCTTTTTGGAAACATCATGCACTGCAGGACTTACAGATGACCC-GAAGGCTTT-AAAACATC
690290 AAAAGCTCCCGAAGGCTTTTTGG
128 AAAAGCTCCCGAAGGCTTTTTGG
* * *
690313 AAATATCATGCACTGTAGGACTTACAGACGACCCTG-AGGCTTTGAAAACATCAAAAAGCTCCCG
1 AAACATCATGCACTGAAGGACTTACAGATGACCC-GAAGGCTTTGAAAACATCAAAAAGCTCCCG
690377 AAGGCTTTTTGGAAACATCATGCACTGCAGGACTTACAGATGACCCGAAGGCTTTAAAACATCAA
65 AAGGCTTTTTGGAAACATCATGCACTGCAGGACTTACAGATGACCCGAAGGCTTTAAAACATCAA
690442 AAGCTCCCGAAGGCTTTTTGG
130 AAGCTCCCGAAGGCTTTTTGG
* * * **
690463 AAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGTTTTGAAAATATCAAAAAGCT-TTG
1 -AAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCTCCCG
* * * *
690527 AAGGCTTTTTGAAAACATCCTGCACT-CAGGGCTTACGGATGACCCGAAGGCTTTGAAAACATCA
65 AAGGCTTTTTGGAAACATCATGCACTGCAGGACTTACAGATGACCCGAAGGCTTT-AAAACATCA
690591 TGCACTGAAG
Statistics
Matches: 397, Mismatches: 23, Indels: 17
0.91 0.05 0.04
Matches are distributed among these distances:
149 61 0.15
150 136 0.34
151 193 0.49
152 7 0.02
ACGTcount: A:0.34, C:0.22, G:0.21, T:0.23
Consensus pattern (150 bp):
AAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCTCCCGA
AGGCTTTTTGGAAACATCATGCACTGCAGGACTTACAGATGACCCGAAGGCTTTAAAACATCAAA
AGCTCCCGAAGGCTTTTTGG
Found at i:690595 original size:44 final size:44
Alignment explanation
Indices: 690534--690634 Score: 159
Period size: 44 Copynumber: 2.3 Consensus size: 44
690524 TTGAAGGCTT
* * *
690534 TTTGAAAACATCCTGCACT-CAGGGCTTACGGATGACCCGAAGG
1 TTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGG
690577 CTTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGG
1 -TTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGG
690622 TTTGAAAACATCA
1 TTTGAAAACATCA
690635 AAAGCTCCCG
Statistics
Matches: 53, Mismatches: 3, Indels: 2
0.91 0.05 0.03
Matches are distributed among these distances:
44 31 0.58
45 22 0.42
ACGTcount: A:0.33, C:0.23, G:0.23, T:0.22
Consensus pattern (44 bp):
TTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGG
Found at i:690603 original size:119 final size:118
Alignment explanation
Indices: 690447--690707 Score: 366
Period size: 119 Copynumber: 2.2 Consensus size: 118
690437 ATCAAAAGCT
690447 CCCGAAGGCTTTTTGGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGTTTTGAAAA
1 CCCGAAGGC--TTT-GAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGG-TTTGAAAA
* ** * * *
690512 TATCAAAAAGCT-TTGAAGGCTTTTTGAAAACATCCTGCACT-CAGGGCTTACGGATGA
62 CATC-AAAAGCTCCCGAAGGC-TTTTGAAAACATCATGCACTGCAGGACTTACAGATGA
690569 CCCGAAGGCTTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGTTTGAAAACATC
1 CCCGAAGGCTTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGTTTGAAAACATC
* *
690634 AAAAGCTCCCGAAGGCTTTTGGAAACATCATGCACTGTAGGACTTACAGATGA
66 AAAAGCTCCCGAAGGCTTTTGAAAACATCATGCACTGCAGGACTTACAGATGA
*
690687 CCCTAAGG-TTTGAAAACATCA
1 CCCGAAGGCTTTGAAAACATCA
690708 AAAAGCTCCC
Statistics
Matches: 128, Mismatches: 9, Indels: 9
0.88 0.06 0.06
Matches are distributed among these distances:
117 38 0.30
118 37 0.29
119 41 0.32
120 3 0.02
122 9 0.07
ACGTcount: A:0.33, C:0.21, G:0.22, T:0.23
Consensus pattern (118 bp):
CCCGAAGGCTTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGTTTGAAAACATC
AAAAGCTCCCGAAGGCTTTTGAAAACATCATGCACTGCAGGACTTACAGATGA
Found at i:690744 original size:74 final size:75
Alignment explanation
Indices: 690569--690906 Score: 530
Period size: 74 Copynumber: 4.6 Consensus size: 75
690559 TTACGGATGA
* * * *
690569 CCCGAAGGC--TTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGG-TTTGAAAAC
1 CCCGAAGGCTTTTTGGAAACATCATGCACTGTAGGACTTACAGATGACCCTAAGGCTTTGAAAAC
690631 ATCAAAAGCT
66 ATCAAAAGCT
690641 CCCGAAGGC-TTTTGGAAACATCATGCACTGTAGGACTTACAGATGACCCTAAGG-TTTGAAAAC
1 CCCGAAGGCTTTTTGGAAACATCATGCACTGTAGGACTTACAGATGACCCTAAGGCTTTGAAAAC
690704 ATCAAAAAGCT
66 ATC-AAAAGCT
*
690715 CCCGAAGGCTTTTTGG-AACATCATGCACTGTAGGACTTACAGATGACCCTAAGGCTTTAAAAAC
1 CCCGAAGGCTTTTTGGAAACATCATGCACTGTAGGACTTACAGATGACCCTAAGGCTTTGAAAAC
690779 ATCAAAAGCT
66 ATCAAAAGCT
* * *
690789 CCCAAAGGCTTTTTGGAAACATCATGCACTGCAGGACTTA-AGATGACCCTGAGGCTTTGAAAAC
1 CCCGAAGGCTTTTTGGAAACATCATGCACTGTAGGACTTACAGATGACCCTAAGGCTTTGAAAAC
690853 A-CAAAAAGCT
66 ATC-AAAAGCT
690863 CCCGAAGGCTTTTTGGAAACATCATGCACTGTAGGACTTACAGA
1 CCCGAAGGCTTTTTGGAAACATCATGCACTGTAGGACTTACAGA
690907 CGTGGGAAAT
Statistics
Matches: 248, Mismatches: 11, Indels: 11
0.92 0.04 0.04
Matches are distributed among these distances:
72 9 0.04
73 53 0.21
74 144 0.58
75 42 0.17
ACGTcount: A:0.34, C:0.22, G:0.21, T:0.22
Consensus pattern (75 bp):
CCCGAAGGCTTTTTGGAAACATCATGCACTGTAGGACTTACAGATGACCCTAAGGCTTTGAAAAC
ATCAAAAGCT
Found at i:690771 original size:192 final size:194
Alignment explanation
Indices: 690373--690782 Score: 596
Period size: 192 Copynumber: 2.1 Consensus size: 194
690363 TCAAAAAGCT
* *
690373 CCCGAAGGCTTTTTGGAAACATCATGCACTGCAGGACTTACAGATGACCCGAAGGCTTTAAAACA
1 CCCGAAGGC--TTTGAAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTAAAACA
*
690438 TCAAAAGCTCCCGAAGGCTTTTTGGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGG
64 TCAAAAGCTCCCGAAGGCTTTTTGGAAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGG
* ** * * *
690503 TTTTGAAAATATCAAAAAGCTTTGAAGGCTTTTTGAAAACATCCTGCACTCAGGGCTTACGGATG
129 TTTTGAAAACATCAAAAAGCTCCGAAGGCTTTTTGAAAACATCATGCACTCAGGACTTACAGATG
690568 A
194 A
*
690569 CCCGAAGGCTTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGG-TTTGAAAACAT
1 CCCGAAGGCTTTGAAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTT-AAAACAT
* *
690633 CAAAAGCTCCCGAAGGC-TTTTGG-AAACATCATGCACTGTAGGACTTACAGATGACCCTAAGG-
65 CAAAAGCTCCCGAAGGCTTTTTGGAAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGT
* *
690695 TTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTG-GAACATCATGCACTGTAGGACTTACAGAT
130 TTTGAAAACATCAAAAAGCT-CCGAAGGCTTTTTGAAAACATCATGCACT-CAGGACTTACAGAT
690759 GA
193 GA
* *
690761 CCCTAAGGCTTTAAAAACATCA
1 CCCGAAGGCTTTGAAAACATCA
690783 AAAGCTCCCA
Statistics
Matches: 195, Mismatches: 16, Indels: 10
0.88 0.07 0.05
Matches are distributed among these distances:
191 31 0.16
192 81 0.42
193 9 0.05
194 65 0.33
196 9 0.05
ACGTcount: A:0.34, C:0.22, G:0.21, T:0.23
Consensus pattern (194 bp):
CCCGAAGGCTTTGAAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTAAAACATC
AAAAGCTCCCGAAGGCTTTTTGGAAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGTT
TTGAAAACATCAAAAAGCTCCGAAGGCTTTTTGAAAACATCATGCACTCAGGACTTACAGATGA
Found at i:690811 original size:266 final size:269
Alignment explanation
Indices: 690297--690853 Score: 790
Period size: 266 Copynumber: 2.1 Consensus size: 269
690287 ATCAAAAGCT
* * *
690297 CCCGAAGGCTTTTTGGAAATATCATGCACTGTAGGACTTACAGACGACCCTGAGGCTTTGAAAAC
1 CCCGAAGGC--TTTGAAAACATCATGCACTGAAGGACTTACAGACGACCCTGAGGCTTTGAAAAC
690362 ATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGCAGGACTTACAGATGACCCGAAG
64 ATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGCAGGACTTACAGATGACCCGAAG
*
690427 GCTTTAAAACATCAAAAGCTCCCGAAGGCTTTTTGGAAAACATCATGCACTGAAGGGCTTACAGA
129 GCTTTAAAACATCAAAAGCTCCCGAAGGCTTTTTGG-AAACATCATGCACTGAAGGACTTACAGA
* * * *** *
690492 TGACCCGAAGGTTTTGAAAATATCAAAAAGCTTTGAAGGCTTTTTGAAAACATCCTGCACT-CAG
193 TGACCCGAAGGCTTTAAAAACATCAAAAAGCTCCAAAGGCTTTTTGAAAACATCATGCACTGCAG
* *
690556 GGCTTACGGATGA
258 GACTTA-AGATGA
* *
690569 CCCGAAGGCTTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCC-GAAGG-TTTGAAAACA
1 CCCGAAGGCTTTGAAAACATCATGCACTGAAGGACTTACAGACGACCCTG-AGGCTTTGAAAACA
* *
690632 TC-AAAAGCTCCCGAAGGC-TTTTGGAAACATCATGCACTGTAGGACTTACAGATGACCCTAAGG
65 TCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGCAGGACTTACAGATGACCCGAAGG
*
690695 -TTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGG-AACATCATGCACTGTAGGACTTACAGA
130 CTTT-AAAACATC-AAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGA
* *
690758 TGACCCTAAGGCTTTAAAAACATC-AAAAGCTCCCAAAGGCTTTTTGGAAACATCATGCACTGCA
193 TGACCCGAAGGCTTTAAAAACATCAAAAAGCT-CCAAAGGCTTTTTGAAAACATCATGCACTGCA
690822 GGACTTAAGATGA
257 GGACTTAAGATGA
690835 CCCTG-AGGCTTTGAAAACA
1 CCC-GAAGGCTTTGAAAACA
690854 CAAAAAGCTC
Statistics
Matches: 259, Mismatches: 20, Indels: 18
0.87 0.07 0.06
Matches are distributed among these distances:
265 7 0.03
266 94 0.36
267 60 0.23
268 39 0.15
269 13 0.05
270 37 0.14
272 9 0.03
ACGTcount: A:0.34, C:0.22, G:0.21, T:0.23
Consensus pattern (269 bp):
CCCGAAGGCTTTGAAAACATCATGCACTGAAGGACTTACAGACGACCCTGAGGCTTTGAAAACAT
CAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGCAGGACTTACAGATGACCCGAAGGC
TTTAAAACATCAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGATGA
CCCGAAGGCTTTAAAAACATCAAAAAGCTCCAAAGGCTTTTTGAAAACATCATGCACTGCAGGAC
TTAAGATGA
Found at i:694101 original size:114 final size:114
Alignment explanation
Indices: 693889--694114 Score: 380
Period size: 114 Copynumber: 2.0 Consensus size: 114
693879 GATCATGCAG
* *
693889 TTCACCTTTCAATTCCAATGATTGGTTCTGGGGTTCATACTAAACCAGATCAGATAACTCAAAGA
1 TTCACCTTTCAAATCCAATGATTGGTTCTGGGGTTCATACCAAACCAGATCAGATAACTCAAAGA
*
693954 ACACTTCCAGAAGATGCTATTGGGTCTCCTTATTTCTACTATGAGCAAA
66 ACACTTCCAGAAGATGCTATTGAGTCTCCTTATTTCTACTATGAGCAAA
* * *
694003 TTCATCTTTCAAATCTAATGATTGGTTTTGGGGTTCATACCAAACCAGATCAGATAACTCAAAGA
1 TTCACCTTTCAAATCCAATGATTGGTTCTGGGGTTCATACCAAACCAGATCAGATAACTCAAAGA
**
694068 ACACTTCCAGAAGATGCTATTGAGTCTTTTTATTTCTACTATGAGCA
66 ACACTTCCAGAAGATGCTATTGAGTCTCCTTATTTCTACTATGAGCA
694115 CATGGCACTT
Statistics
Matches: 104, Mismatches: 8, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
114 104 1.00
ACGTcount: A:0.31, C:0.20, G:0.15, T:0.33
Consensus pattern (114 bp):
TTCACCTTTCAAATCCAATGATTGGTTCTGGGGTTCATACCAAACCAGATCAGATAACTCAAAGA
ACACTTCCAGAAGATGCTATTGAGTCTCCTTATTTCTACTATGAGCAAA
Found at i:696131 original size:10 final size:10
Alignment explanation
Indices: 696118--696145 Score: 56
Period size: 10 Copynumber: 2.8 Consensus size: 10
696108 TTTCTTTTTC
696118 TTTTTTTTGT
1 TTTTTTTTGT
696128 TTTTTTTTGT
1 TTTTTTTTGT
696138 TTTTTTTT
1 TTTTTTTT
696146 CTTCTTTCTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 18 1.00
ACGTcount: A:0.00, C:0.00, G:0.07, T:0.93
Consensus pattern (10 bp):
TTTTTTTTGT
Found at i:702978 original size:3 final size:3
Alignment explanation
Indices: 702970--703087 Score: 173
Period size: 3 Copynumber: 38.7 Consensus size: 3
702960 TTATTTATTA
* *
702970 AAT AAT AAT AAT ATAT AAT ATT AAT ATT AAT AAT AAT AAAT AAT AAT
1 AAT AAT AAT AAT A-AT AAT AAT AAT AAT AAT AAT AAT -AAT AAT AAT
*
703017 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT ACT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
**
703065 AAT AAT TTT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AA
703088 ATTTAAATGA
Statistics
Matches: 103, Mismatches: 10, Indels: 4
0.88 0.09 0.03
Matches are distributed among these distances:
3 97 0.94
4 6 0.06
ACGTcount: A:0.63, C:0.01, G:0.00, T:0.36
Consensus pattern (3 bp):
AAT
Found at i:704896 original size:2 final size:2
Alignment explanation
Indices: 704889--704923 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
704879 AACTTTTTAT
704889 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
704924 TAGTTCATCT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:708124 original size:15 final size:16
Alignment explanation
Indices: 708104--708133 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
708094 CACTATTTAT
708104 TATTTAAAA-AAATAA
1 TATTTAAAATAAATAA
708119 TATTTAAAATAAATA
1 TATTTAAAATAAATA
708134 TTTTAATTAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 9 0.64
16 5 0.36
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (16 bp):
TATTTAAAATAAATAA
Found at i:708499 original size:30 final size:30
Alignment explanation
Indices: 708443--708500 Score: 73
Period size: 30 Copynumber: 1.9 Consensus size: 30
708433 TAAGTCTTCT
** *
708443 AATTTATATAATTAATATTATTTAATTTTA
1 AATTTATATAATTAATAAAATATAATTTTA
708473 AATTTATATAA-TAATAAAATCATAATTT
1 AATTTATATAATTAATAAAAT-ATAATTT
708501 ATATCTTTTT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
29 7 0.29
30 17 0.71
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (30 bp):
AATTTATATAATTAATAAAATATAATTTTA
Found at i:709887 original size:17 final size:18
Alignment explanation
Indices: 709854--709890 Score: 58
Period size: 17 Copynumber: 2.1 Consensus size: 18
709844 AATTTTAAGA
709854 AAATATATTAATTTTTAT
1 AAATATATTAATTTTTAT
*
709872 AAATATA-TACTTTTTAT
1 AAATATATTAATTTTTAT
709889 AA
1 AA
709891 TTTTATAAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 11 0.61
18 7 0.39
ACGTcount: A:0.46, C:0.03, G:0.00, T:0.51
Consensus pattern (18 bp):
AAATATATTAATTTTTAT
Found at i:710306 original size:13 final size:14
Alignment explanation
Indices: 710262--710308 Score: 51
Period size: 15 Copynumber: 3.3 Consensus size: 14
710252 TTAAATAATA
*
710262 ATAATAATTAAATAT
1 ATAA-AATTAAACAT
*
710277 ATTAAAAATAAACAT
1 A-TAAAATTAAACAT
710292 ATAAAATTAAA-AT
1 ATAAAATTAAACAT
710305 ATAA
1 ATAA
710309 CTAAACAGTT
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
13 6 0.21
14 9 0.32
15 10 0.36
16 3 0.11
ACGTcount: A:0.66, C:0.02, G:0.00, T:0.32
Consensus pattern (14 bp):
ATAAAATTAAACAT
Found at i:712477 original size:18 final size:18
Alignment explanation
Indices: 712454--712544 Score: 83
Period size: 20 Copynumber: 4.8 Consensus size: 18
712444 GAATATTTTT
*
712454 TCCCGAATGACCACTATG
1 TCCCGAAGGACCACTATG
712472 TCCCGAAGGACCACTGATTG
1 TCCCGAAGGACCACT-A-TG
* * * *
712492 TTCCAAAGAACTACTATG
1 TCCCGAAGGACCACTATG
*
712510 TCCCGAAGGACCACTGTTTG
1 TCCCGAAGGACCAC--TATG
*
712530 TCCTGAAGGACCACT
1 TCCCGAAGGACCACT
712545 GATAATCCCT
Statistics
Matches: 58, Mismatches: 11, Indels: 8
0.75 0.14 0.10
Matches are distributed among these distances:
18 27 0.47
19 2 0.03
20 29 0.50
ACGTcount: A:0.27, C:0.30, G:0.20, T:0.23
Consensus pattern (18 bp):
TCCCGAAGGACCACTATG
Found at i:713797 original size:29 final size:30
Alignment explanation
Indices: 713726--713785 Score: 104
Period size: 30 Copynumber: 2.0 Consensus size: 30
713716 CAATTTAAGG
713726 CAAAATGGTTTTTGGACTTGAATTGAATTTA
1 CAAAAT-GTTTTTGGACTTGAATTGAATTTA
713757 CAAAATGTTTTTGGACTT-AATTGAATTTA
1 CAAAATGTTTTTGGACTTGAATTGAATTTA
713786 TTCAAAGTTT
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
29 11 0.38
30 12 0.41
31 6 0.21
ACGTcount: A:0.33, C:0.07, G:0.17, T:0.43
Consensus pattern (30 bp):
CAAAATGTTTTTGGACTTGAATTGAATTTA
Found at i:713901 original size:21 final size:21
Alignment explanation
Indices: 713876--713954 Score: 80
Period size: 21 Copynumber: 4.0 Consensus size: 21
713866 TTCAAGATTG
* *
713876 CCCAGGGGGTATAGATTCCCC
1 CCCAGGGGGTACAGATACCCC
713897 CCCAGGGGGTACAGATA---C
1 CCCAGGGGGTACAGATACCCC
713915 CCC---GGGTACAGATACCCC
1 CCCAGGGGGTACAGATACCCC
* *
713933 CCTAAGGGGTACAGATACCCC
1 CCCAGGGGGTACAGATACCCC
713954 C
1 C
713955 TGCAGGTTTT
Statistics
Matches: 49, Mismatches: 3, Indels: 12
0.77 0.05 0.19
Matches are distributed among these distances:
15 11 0.22
18 7 0.14
21 31 0.63
ACGTcount: A:0.24, C:0.35, G:0.27, T:0.14
Consensus pattern (21 bp):
CCCAGGGGGTACAGATACCCC
Found at i:713922 original size:36 final size:36
Alignment explanation
Indices: 713882--713953 Score: 108
Period size: 36 Copynumber: 2.0 Consensus size: 36
713872 ATTGCCCAGG
* * *
713882 GGGTATAGATTCCCCCCCAGGGGGTACAGATACCCC
1 GGGTACAGATACCCCCCCAAGGGGTACAGATACCCC
*
713918 GGGTACAGATACCCCCCTAAGGGGTACAGATACCCC
1 GGGTACAGATACCCCCCCAAGGGGTACAGATACCCC
713954 CTGCAGGTTT
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
36 32 1.00
ACGTcount: A:0.25, C:0.33, G:0.26, T:0.15
Consensus pattern (36 bp):
GGGTACAGATACCCCCCCAAGGGGTACAGATACCCC
Found at i:713923 original size:15 final size:15
Alignment explanation
Indices: 713903--713932 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
713893 CCCCCCCAGG
713903 GGGTACAGATACCCC
1 GGGTACAGATACCCC
713918 GGGTACAGATACCCC
1 GGGTACAGATACCCC
713933 CCTAAGGGGT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.27, C:0.33, G:0.27, T:0.13
Consensus pattern (15 bp):
GGGTACAGATACCCC
Found at i:714016 original size:21 final size:21
Alignment explanation
Indices: 713990--714029 Score: 80
Period size: 21 Copynumber: 1.9 Consensus size: 21
713980 TAGAATGTAT
713990 AGGGGGTACCGATTCCCCCCC
1 AGGGGGTACCGATTCCCCCCC
714011 AGGGGGTACCGATTCCCCC
1 AGGGGGTACCGATTCCCCC
714030 TGTTCAACAG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.15, C:0.40, G:0.30, T:0.15
Consensus pattern (21 bp):
AGGGGGTACCGATTCCCCCCC
Found at i:717342 original size:29 final size:30
Alignment explanation
Indices: 717272--717330 Score: 102
Period size: 30 Copynumber: 2.0 Consensus size: 30
717262 AATTTAAGGA
717272 AAAATGGTTTTTGGACTTGAATTGAATTTAC
1 AAAAT-GTTTTTGGACTTGAATTGAATTTAC
717303 AAAATGTTTTTGGACTT-AATTGAATTTA
1 AAAATGTTTTTGGACTTGAATTGAATTTA
717331 TTCAAAGTTT
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
29 11 0.39
30 12 0.43
31 5 0.18
ACGTcount: A:0.34, C:0.05, G:0.17, T:0.44
Consensus pattern (30 bp):
AAAATGTTTTTGGACTTGAATTGAATTTAC
Found at i:717447 original size:23 final size:23
Alignment explanation
Indices: 717420--717463 Score: 70
Period size: 23 Copynumber: 1.9 Consensus size: 23
717410 TTCAAGATTG
* *
717420 CCCAGGGGGTATAGATTCCCCCC
1 CCCAGGGGGTACAGATACCCCCC
717443 CCCAGGGGGTACAGATACCCC
1 CCCAGGGGGTACAGATACCCC
717464 GGGTACAGAT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.20, C:0.39, G:0.27, T:0.14
Consensus pattern (23 bp):
CCCAGGGGGTACAGATACCCCCC
Found at i:717469 original size:15 final size:15
Alignment explanation
Indices: 717449--717478 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
717439 CCCCCCCAGG
717449 GGGTACAGATACCCC
1 GGGTACAGATACCCC
717464 GGGTACAGATACCCC
1 GGGTACAGATACCCC
717479 CCCAGGGGAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.27, C:0.33, G:0.27, T:0.13
Consensus pattern (15 bp):
GGGTACAGATACCCC
Found at i:717491 original size:21 final size:20
Alignment explanation
Indices: 717439--717500 Score: 71
Period size: 21 Copynumber: 3.2 Consensus size: 20
717429 TATAGATTCC
717439 CCCCCCCAGGGGGTACAGATA
1 CCCCCCCA-GGGGTACAGATA
717460 ---CCCC--GGGTACAGATA
1 CCCCCCCAGGGGTACAGATA
717475 CCCCCCCAGGGGATACAGATA
1 CCCCCCCAGGGG-TACAGATA
717496 CCCCC
1 CCCCC
717501 TGCAGGTTTT
Statistics
Matches: 35, Mismatches: 0, Indels: 12
0.74 0.00 0.26
Matches are distributed among these distances:
15 11 0.31
18 8 0.23
20 3 0.09
21 13 0.37
ACGTcount: A:0.24, C:0.42, G:0.24, T:0.10
Consensus pattern (20 bp):
CCCCCCCAGGGGTACAGATA
Found at i:717573 original size:19 final size:20
Alignment explanation
Indices: 717534--717574 Score: 73
Period size: 20 Copynumber: 2.0 Consensus size: 20
717524 AACAGAATGT
717534 CCAGGGGGTACCGATTCCCC
1 CCAGGGGGTACCGATTCCCC
*
717554 CCAGGGGGTATCGATTCCCC
1 CCAGGGGGTACCGATTCCCC
717574 C
1 C
717575 TGCTCAACAG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.15, C:0.39, G:0.29, T:0.17
Consensus pattern (20 bp):
CCAGGGGGTACCGATTCCCC
Found at i:717636 original size:21 final size:21
Alignment explanation
Indices: 717610--717652 Score: 77
Period size: 21 Copynumber: 2.0 Consensus size: 21
717600 ATTTGAATAT
*
717610 TATGAAGGGGTATCGATTCCC
1 TATGAAGGGGTACCGATTCCC
717631 TATGAAGGGGTACCGATTCCC
1 TATGAAGGGGTACCGATTCCC
717652 T
1 T
717653 CTATTCTGGG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.23, C:0.21, G:0.28, T:0.28
Consensus pattern (21 bp):
TATGAAGGGGTACCGATTCCC
Found at i:717974 original size:34 final size:32
Alignment explanation
Indices: 717935--718004 Score: 104
Period size: 34 Copynumber: 2.1 Consensus size: 32
717925 TTTTGTAAAG
*
717935 GGGAAAGGTTCTAGCTTAGCCCGTGTAAAAGCTA
1 GGGAAAGGTTCTAGCTTAGCCCG-G-AAAAACTA
*
717969 GGGAAAGGTTCTAGTTTAGCCCGGAAAAACTA
1 GGGAAAGGTTCTAGCTTAGCCCGGAAAAACTA
718001 GGGA
1 GGGA
718005 GTTTGTAAGG
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
32 11 0.32
33 1 0.03
34 22 0.65
ACGTcount: A:0.31, C:0.16, G:0.31, T:0.21
Consensus pattern (32 bp):
GGGAAAGGTTCTAGCTTAGCCCGGAAAAACTA
Found at i:721997 original size:4 final size:4
Alignment explanation
Indices: 721990--722448 Score: 909
Period size: 4 Copynumber: 114.8 Consensus size: 4
721980 TATATATATG
721990 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
722038 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
722086 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
722134 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
722182 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
722230 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
722278 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
722326 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
722374 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
*
722422 CATA CATA CATA TATA CATA CATA CAT
1 CATA CATA CATA CATA CATA CATA CAT
722449 GTCATTATCA
Statistics
Matches: 453, Mismatches: 2, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 453 1.00
ACGTcount: A:0.50, C:0.25, G:0.00, T:0.25
Consensus pattern (4 bp):
CATA
Found at i:722850 original size:18 final size:20
Alignment explanation
Indices: 722834--722969 Score: 154
Period size: 20 Copynumber: 7.0 Consensus size: 20
722824 GACACCACTA
722834 TGTCCCGAAGGACCACT-A-
1 TGTCCCGAAGGACCACTGAT
* *
722852 TGTCCCGAAGGATCATTGAT
1 TGTCCCGAAGGACCACTGAT
* *
722872 TGTTCTGAAGGACCACTGAT
1 TGTCCCGAAGGACCACTGAT
*
722892 TGTTCCGAAGGACCACTGAT
1 TGTCCCGAAGGACCACTGAT
* *
722912 TGTTCCGAAGAACCACT-A-
1 TGTCCCGAAGGACCACTGAT
* *
722930 TGTCCCGAAGGACCATTGTT
1 TGTCCCGAAGGACCACTGAT
*
722950 TGTCCCGAATGACCACTGAT
1 TGTCCCGAAGGACCACTGAT
722970 AATCCCTCGA
Statistics
Matches: 99, Mismatches: 15, Indels: 6
0.82 0.12 0.05
Matches are distributed among these distances:
18 29 0.29
19 2 0.02
20 68 0.69
ACGTcount: A:0.26, C:0.26, G:0.23, T:0.26
Consensus pattern (20 bp):
TGTCCCGAAGGACCACTGAT
Found at i:723108 original size:19 final size:20
Alignment explanation
Indices: 723076--723113 Score: 51
Period size: 19 Copynumber: 1.9 Consensus size: 20
723066 ACATAGCTTT
723076 TCACATAACATTTC-CATAG
1 TCACATAACATTTCACATAG
* *
723095 TCACATAGCTTTTCACATA
1 TCACATAACATTTCACATA
723114 ACATTTCCAT
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
19 12 0.75
20 4 0.25
ACGTcount: A:0.34, C:0.26, G:0.05, T:0.34
Consensus pattern (20 bp):
TCACATAACATTTCACATAG
Found at i:723131 original size:31 final size:31
Alignment explanation
Indices: 723050--723123 Score: 121
Period size: 31 Copynumber: 2.3 Consensus size: 31
723040 ATACCATTAC
*
723050 ACATCTTCACATAATCACATAGCTTTTCACATA
1 ACAT-TTC-CATAGTCACATAGCTTTTCACATA
723083 ACATTTCCATAGTCACATAGCTTTTCACATA
1 ACATTTCCATAGTCACATAGCTTTTCACATA
723114 ACATTTCCAT
1 ACATTTCCAT
723124 TTGCACATGT
Statistics
Matches: 40, Mismatches: 1, Indels: 2
0.93 0.02 0.05
Matches are distributed among these distances:
31 33 0.82
32 3 0.08
33 4 0.10
ACGTcount: A:0.34, C:0.27, G:0.04, T:0.35
Consensus pattern (31 bp):
ACATTTCCATAGTCACATAGCTTTTCACATA
Found at i:723968 original size:2 final size:2
Alignment explanation
Indices: 723961--724011 Score: 93
Period size: 2 Copynumber: 25.0 Consensus size: 2
723951 CATGAATTAG
723961 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
724003 AT AT CAT AT
1 AT AT -AT AT
724012 GATTTACTAC
Statistics
Matches: 48, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
2 46 0.96
3 2 0.04
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:725311 original size:3 final size:3
Alignment explanation
Indices: 725284--725388 Score: 99
Period size: 3 Copynumber: 35.0 Consensus size: 3
725274 ATATAAATTT
* * *
725284 ATA ATA TTA ATA CTA ATA CTA ATA ATA ATA ATA ATA ATA ATA ATAA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT-A
* * *
725330 ATA ATA A-A ATA A-A ATA ATT ATA ATA ATA TTT ATA ATAA ATA A-A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT-A ATA ATA
*
725373 ACTA ATA ATA AAA ATA
1 A-TA ATA ATA ATA ATA
725389 TAAATAAAAA
Statistics
Matches: 82, Mismatches: 14, Indels: 12
0.76 0.13 0.11
Matches are distributed among these distances:
2 6 0.07
3 68 0.83
4 8 0.10
ACGTcount: A:0.64, C:0.03, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:725947 original size:122 final size:122
Alignment explanation
Indices: 725727--726542 Score: 1287
Period size: 122 Copynumber: 6.7 Consensus size: 122
725717 GGATCAAATT
*
725727 AAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTC-TCCTTCTTCAGATGAGTTCTTCTCATTA
1 AAGGTTGAACAAGCTCTTCTCATTATGAACTTCTTCTTCC-TCTTCAGATGAGTTCTTCTCATTA
* * * * *
725791 TGAACACTTCTGGAAATATTAATGTTGATATATCTCCTTCTGTGATAGAATCATGCAA
65 TGAACACTTCTGGAAATGTTGATGCTGATCTATCTCATTCTGTGATAGAATCATGCAA
*
725849 AAGGTTGAACAAGCTCTTCTCATTATGAACTTCTTCTTCCTCTTCAGATGAATTCTTCTCATTAT
1 AAGGTTGAACAAGCTCTTCTCATTATGAACTTCTTCTTCCTCTTCAGATGAGTTCTTCTCATTAT
* * * *
725914 GAACACTTCTGGAAATGTTGATGTTGATCTATCTCCTTCTGTGATAGAGTCATACAA
66 GAACACTTCTGGAAATGTTGATGCTGATCTATCTCATTCTGTGATAGAATCATGCAA
* * *
725971 AAGGTTAAACAAACTCTTCTCATTATGAAATTCTTCTTCCTCTTCAGATGAGTTCTTCTCATTAT
1 AAGGTTGAACAAGCTCTTCTCATTATGAACTTCTTCTTCCTCTTCAGATGAGTTCTTCTCATTAT
* *
726036 GAACACTTCTGGAAATGTTGATGCTGATCTATCTCATTTTGTGATAGAGTCATGCAA
66 GAACACTTCTGGAAATGTTGATGCTGATCTATCTCATTCTGTGATAGAATCATGCAA
* *
726093 AAGGTTGAACACGCTCTTCTCATTATGAACTTATTCTTCCTCTTCAGATGAGTTCTTCTCATTAT
1 AAGGTTGAACAAGCTCTTCTCATTATGAACTTCTTCTTCCTCTTCAGATGAGTTCTTCTCATTAT
* * * *
726158 GAACACTTATGGAAATGTTGATGCTGATATATCTGATTCTGGGATA-AAGTCATGCAA
66 GAACACTTCTGGAAATGTTGATGCTGATCTATCTCATTCTGTGATAGAA-TCATGCAA
* *
726215 AAGGTTGAACAAACTCTTCTCATTATGAAATTCTTCTTCCTCTTCAGATGAGTTCTTCTCATTAT
1 AAGGTTGAACAAGCTCTTCTCATTATGAACTTCTTCTTCCTCTTCAGATGAGTTCTTCTCATTAT
* * *
726280 GAACACTTCTGGAAATGTTGATGTTGATCTATCTCATTTTGTGATAGAGTCATGCAA
66 GAACACTTCTGGAAATGTTGATGCTGATCTATCTCATTCTGTGATAGAATCATGCAA
* *
726337 AAGGTTGAACACGCTCTTCTCATTATGAACTTATTCTTCCTCTTCAGATGAGTTCTTCTCATTAT
1 AAGGTTGAACAAGCTCTTCTCATTATGAACTTCTTCTTCCTCTTCAGATGAGTTCTTCTCATTAT
* *
726402 GAACACTTATGGAAATGTTGATGCTGATCTATCTCATTCTGGGATA-AAGTCATGCAA
66 GAACACTTCTGGAAATGTTGATGCTGATCTATCTCATTCTGTGATAGAA-TCATGCAA
* *
726459 AAGGTTGAACAAGCTCTTCTCATTATGAACTTCTTCTTCCTTTTAAGATGAGTTCTTCTCATTAT
1 AAGGTTGAACAAGCTCTTCTCATTATGAACTTCTTCTTCCTCTTCAGATGAGTTCTTCTCATTAT
726524 GAACACTTCTGGAAATGTT
66 GAACACTTCTGGAAATGTT
726543 AATCCATCGA
Statistics
Matches: 639, Mismatches: 51, Indels: 8
0.92 0.07 0.01
Matches are distributed among these distances:
121 2 0.00
122 633 0.99
123 4 0.01
ACGTcount: A:0.27, C:0.19, G:0.15, T:0.38
Consensus pattern (122 bp):
AAGGTTGAACAAGCTCTTCTCATTATGAACTTCTTCTTCCTCTTCAGATGAGTTCTTCTCATTAT
GAACACTTCTGGAAATGTTGATGCTGATCTATCTCATTCTGTGATAGAATCATGCAA
Found at i:726962 original size:22 final size:22
Alignment explanation
Indices: 726937--727010 Score: 123
Period size: 22 Copynumber: 3.4 Consensus size: 22
726927 ATCTTTCTTT
726937 TTTGAAGAGAGAATCTATCATC
1 TTTGAAGAGAGAATCTATCATC
726959 TTTGAAGAGAGAATCTATCATC
1 TTTGAAGAGAGAATCTATCATC
*
726981 TTTGAAGA-ATGTATCTATCATC
1 TTTGAAGAGA-GAATCTATCATC
727003 TTTGAAGA
1 TTTGAAGA
727011 ATATAGATGT
Statistics
Matches: 50, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
21 1 0.02
22 49 0.98
ACGTcount: A:0.35, C:0.12, G:0.18, T:0.35
Consensus pattern (22 bp):
TTTGAAGAGAGAATCTATCATC
Found at i:728679 original size:42 final size:42
Alignment explanation
Indices: 728615--728706 Score: 141
Period size: 42 Copynumber: 2.2 Consensus size: 42
728605 GATATGAGCT
728615 TTCAAAATGCCCCACATAGATCATTCATGTCTGGAA-TGGGCC
1 TTCAAAATGCCCCACATAGATCATTCATGTCT-GAATTGGGCC
* **
728657 TTCAAAATGCCCCACATGGATCATTTTTGTCTGAATTGGGCC
1 TTCAAAATGCCCCACATAGATCATTCATGTCTGAATTGGGCC
728699 TTCAAAAT
1 TTCAAAAT
728707 ACCTCAGCAT
Statistics
Matches: 46, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
41 3 0.07
42 43 0.93
ACGTcount: A:0.28, C:0.24, G:0.17, T:0.30
Consensus pattern (42 bp):
TTCAAAATGCCCCACATAGATCATTCATGTCTGAATTGGGCC
Found at i:736324 original size:23 final size:22
Alignment explanation
Indices: 736273--736325 Score: 63
Period size: 23 Copynumber: 2.3 Consensus size: 22
736263 TTTGACAAAC
736273 AAATAAAAATAAAAATTAATCTGA
1 AAAT-AAAATAAAAATTAA-CTGA
736297 AAATAAAATAAAACATTAA-TGA
1 AAATAAAATAAAA-ATTAACTGA
736319 AGAATAA
1 A-AATAA
736326 TATATATATA
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
22 4 0.15
23 14 0.52
24 9 0.33
ACGTcount: A:0.68, C:0.04, G:0.06, T:0.23
Consensus pattern (22 bp):
AAATAAAATAAAAATTAACTGA
Found at i:736332 original size:2 final size:2
Alignment explanation
Indices: 736325--736367 Score: 86
Period size: 2 Copynumber: 21.5 Consensus size: 2
736315 ATGAAGAATA
736325 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
736367 A
1 A
736368 AAATCATAAA
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 41 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:736924 original size:17 final size:18
Alignment explanation
Indices: 736891--736927 Score: 58
Period size: 17 Copynumber: 2.1 Consensus size: 18
736881 AATTTTAAGA
736891 AAATATATTAATTTTTAT
1 AAATATATTAATTTTTAT
*
736909 AAATATA-TACTTTTTAT
1 AAATATATTAATTTTTAT
736926 AA
1 AA
736928 TTTTATAAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 11 0.61
18 7 0.39
ACGTcount: A:0.46, C:0.03, G:0.00, T:0.51
Consensus pattern (18 bp):
AAATATATTAATTTTTAT
Found at i:737356 original size:12 final size:13
Alignment explanation
Indices: 737324--737351 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
737314 AAATATATTG
737324 AAAATAAAAATAT
1 AAAATAAAAATAT
737337 AAAATAAAAATAT
1 AAAATAAAAATAT
737350 AA
1 AA
737352 CTAAATAGTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.79, C:0.00, G:0.00, T:0.21
Consensus pattern (13 bp):
AAAATAAAAATAT
Found at i:738691 original size:3 final size:3
Alignment explanation
Indices: 738683--738765 Score: 64
Period size: 3 Copynumber: 27.0 Consensus size: 3
738673 ATATAAATTT
*
738683 ATA ATA ATA ATA ATA ATAA ATAA ATAA ATA A-A ATA A-A ATA ATT ATA
1 ATA ATA ATA ATA ATA AT-A AT-A AT-A ATA ATA ATA ATA ATA ATA ATA
* * *
738729 ATA ATA TTT ATA ATAA ATA A-A ACTA ATA ATA AAA ATA
1 ATA ATA ATA ATA AT-A ATA ATA A-TA ATA ATA ATA ATA
738766 TAAATAAAAA
Statistics
Matches: 66, Mismatches: 8, Indels: 12
0.77 0.09 0.14
Matches are distributed among these distances:
2 6 0.09
3 44 0.67
4 16 0.24
ACGTcount: A:0.67, C:0.01, G:0.00, T:0.31
Consensus pattern (3 bp):
ATA
Found at i:738723 original size:31 final size:30
Alignment explanation
Indices: 738683--738773 Score: 94
Period size: 31 Copynumber: 2.9 Consensus size: 30
738673 ATATAAATTT
738683 ATAATAATAATAATAATAAATAAATAAATAAA
1 ATAA-AATAATAATAATAAATAAATAAAT-AA
* **
738715 ATAAAATAATTATAAT-AATATTTATAATAA
1 ATAAAATAATAATAATAAATAAATA-AATAA
*
738745 ATAAAACTAATAATAAAAATATAAATAAA
1 ATAAAA-TAATAATAATAA-ATAAATAAA
738774 AACAAATAGA
Statistics
Matches: 48, Mismatches: 7, Indels: 8
0.76 0.11 0.13
Matches are distributed among these distances:
30 14 0.29
31 22 0.46
32 7 0.15
33 5 0.10
ACGTcount: A:0.68, C:0.01, G:0.00, T:0.31
Consensus pattern (30 bp):
ATAAAATAATAATAATAAATAAATAAATAA
Found at i:738773 original size:24 final size:26
Alignment explanation
Indices: 738741--738789 Score: 75
Period size: 25 Copynumber: 2.0 Consensus size: 26
738731 AATATTTATA
*
738741 ATAAAT-AAAACTAATA-ATAAAAAT
1 ATAAATAAAAACAAATAGATAAAAAT
738765 ATAAATAAAAACAAATAGATAAAAA
1 ATAAATAAAAACAAATAGATAAAAA
738790 AACTAGTATC
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 6 0.27
25 9 0.41
26 7 0.32
ACGTcount: A:0.73, C:0.04, G:0.02, T:0.20
Consensus pattern (26 bp):
ATAAATAAAAACAAATAGATAAAAAT
Found at i:738841 original size:25 final size:25
Alignment explanation
Indices: 738809--738883 Score: 123
Period size: 25 Copynumber: 3.0 Consensus size: 25
738799 CTTCACATGG
738809 TTAGTCTGACTATCACATTGGACTA
1 TTAGTCTGACTATCACATTGGACTA
* *
738834 TTATTCTGACTATCACAATGGACTA
1 TTAGTCTGACTATCACATTGGACTA
*
738859 TTAGTCTGACTATCACATTGTACTA
1 TTAGTCTGACTATCACATTGGACTA
738884 AGGAGCACGG
Statistics
Matches: 45, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
25 45 1.00
ACGTcount: A:0.29, C:0.20, G:0.13, T:0.37
Consensus pattern (25 bp):
TTAGTCTGACTATCACATTGGACTA
Found at i:742571 original size:74 final size:74
Alignment explanation
Indices: 742442--742628 Score: 254
Period size: 74 Copynumber: 2.5 Consensus size: 74
742432 TTTAAATAAG
*
742442 GAGGTACCGATACCCCTCATAGGGTGTACTGATACCCCTATGCCAATTTTGGCTCCGAGAAAAAC
1 GAGGTACCGATACCCCTCATA-GG-GTACAGATACCCCTATGCCAATTTTGGCTCCGAGAAAAAC
*
742507 AGAATGCCCAA
64 AAAATGCCCAA
* * *
742518 TG-GGTACCGATACCCCTCATAGGGTACCGATACCCTTGTGCCAATTTTGGCTCCGAGAAAAACA
1 -GAGGTACCGATACCCCTCATAGGGTACAGATACCCCTATGCCAATTTTGGCTCCGAGAAAAACA
*
742582 AAATGCCCTA
65 AAATGCCCAA
*
742592 GAGGTACCAATACCCC-C-TAGAGGTACAGATACCCCTA
1 GAGGTACCGATACCCCTCATAG-GGTACAGATACCCCTA
742629 GTCATTTAAC
Statistics
Matches: 99, Mismatches: 9, Indels: 8
0.85 0.08 0.07
Matches are distributed among these distances:
72 3 0.03
73 15 0.15
74 59 0.60
75 2 0.02
76 19 0.19
77 1 0.01
ACGTcount: A:0.30, C:0.29, G:0.20, T:0.21
Consensus pattern (74 bp):
GAGGTACCGATACCCCTCATAGGGTACAGATACCCCTATGCCAATTTTGGCTCCGAGAAAAACAA
AATGCCCAA
Found at i:742629 original size:18 final size:19
Alignment explanation
Indices: 742587--742626 Score: 64
Period size: 19 Copynumber: 2.1 Consensus size: 19
742577 AAACAAAATG
742587 CCCTAGAGGTACCAATACC
1 CCCTAGAGGTACCAATACC
742606 CCCTAGAGGTA-CAGATACC
1 CCCTAGAGGTACCA-ATACC
742625 CC
1 CC
742627 TAGTCATTTA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
18 2 0.10
19 18 0.90
ACGTcount: A:0.30, C:0.38, G:0.17, T:0.15
Consensus pattern (19 bp):
CCCTAGAGGTACCAATACC
Found at i:745544 original size:16 final size:16
Alignment explanation
Indices: 745519--745549 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
745509 AGAGGGTTAC
*
745519 CAAAGCTAAAATTTGA
1 CAAAGATAAAATTTGA
745535 CAAAGATAAAATTTG
1 CAAAGATAAAATTTG
745550 TGATGCATGT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.52, C:0.10, G:0.13, T:0.26
Consensus pattern (16 bp):
CAAAGATAAAATTTGA
Found at i:748363 original size:42 final size:43
Alignment explanation
Indices: 748315--748415 Score: 116
Period size: 42 Copynumber: 2.3 Consensus size: 43
748305 TGTGCACAGT
**
748315 GTATCGATACCCCTAATACAAGTATCGATACCC-CTTT-TCTAG
1 GTATCGATACCCCTAA-ACAAGTATCGATACCCTCTTTGAATAG
* ** *
748357 GTATCGATACCCCTTCAACGTGTATCGATACCCTCTTTGAATAT
1 GTATCGATACCCC-TAAACAAGTATCGATACCCTCTTTGAATAG
748401 GTATCGATACCCCTA
1 GTATCGATACCCCTA
748416 TAAGGGTACT
Statistics
Matches: 49, Mismatches: 7, Indels: 5
0.80 0.11 0.08
Matches are distributed among these distances:
42 27 0.55
43 7 0.14
44 15 0.31
ACGTcount: A:0.27, C:0.29, G:0.13, T:0.32
Consensus pattern (43 bp):
GTATCGATACCCCTAAACAAGTATCGATACCCTCTTTGAATAG
Found at i:748407 original size:23 final size:21
Alignment explanation
Indices: 748314--748414 Score: 89
Period size: 21 Copynumber: 4.7 Consensus size: 21
748304 TTGTGCACAG
748314 TGTATCGATACCCC--TAATACA
1 TGTATCGATACCCCTTTAAT--A
* **
748335 AGTATCGATACCCCTTTTCTA
1 TGTATCGATACCCCTTTAATA
* * **
748356 GGTATCGATACCCCTTCAACG
1 TGTATCGATACCCCTTTAATA
748377 TGTATCGATACCCTCTTTGAATA
1 TGTATCGATACCC-CTTT-AATA
748400 TGTATCGATACCCCT
1 TGTATCGATACCCCT
748415 ATAAGGGTAC
Statistics
Matches: 63, Mismatches: 13, Indels: 7
0.76 0.16 0.08
Matches are distributed among these distances:
21 41 0.65
22 5 0.08
23 17 0.27
ACGTcount: A:0.26, C:0.29, G:0.13, T:0.33
Consensus pattern (21 bp):
TGTATCGATACCCCTTTAATA
Found at i:751036 original size:74 final size:75
Alignment explanation
Indices: 750912--751078 Score: 232
Period size: 74 Copynumber: 2.2 Consensus size: 75
750902 TTTTAAATAC
** *
750912 AGAGGTATTGATACCCCTCATAGGGTGTACCATACCCCTATGCCAATTTTGGCTCTGAGAAAAAC
1 AGAGGTACCGATACCCCTCATAGGGTGTACCATACCCCTATGCCAATTTTGGCTCCGAGAAAAAC
*
750977 TGAATGCCCA
66 AGAATGCCCA
* *
750987 ATG-GGTACCGATACCCCTCATA-GG-GTACCGATACCCTTGTGCCAATTTTGGCTCCGAGAAAA
1 A-GAGGTACCGATACCCCTCATAGGGTGTACC-ATACCCCTATGCCAATTTTGGCTCCGAGAAAA
*
751049 ACAGAATGCCCT
64 ACAGAATGCCCA
751061 AGAGGTACCGATACCCCT
1 AGAGGTACCGATACCCCT
751079 AGTCATTTAA
Statistics
Matches: 82, Mismatches: 7, Indels: 7
0.85 0.07 0.07
Matches are distributed among these distances:
73 6 0.07
74 57 0.70
75 18 0.22
76 1 0.01
ACGTcount: A:0.28, C:0.28, G:0.21, T:0.23
Consensus pattern (75 bp):
AGAGGTACCGATACCCCTCATAGGGTGTACCATACCCCTATGCCAATTTTGGCTCCGAGAAAAAC
AGAATGCCCA
Found at i:762352 original size:20 final size:18
Alignment explanation
Indices: 762329--762397 Score: 66
Period size: 20 Copynumber: 3.6 Consensus size: 18
762319 ACCCAAAGCA
762329 TCGAAACTTTAATGAAAGTT
1 TCGAAACTTT-A-GAAAGTT
*
762349 TCGAAACTCTTGAGATAGTT
1 TCGAAACT-TT-AGAAAGTT
* *
762369 TCGAAACTATAGAAAAGTA
1 TCGAAACTTTAG-AAAGTT
762388 TCGAAACTTT
1 TCGAAACTTT
762398 TTGGGCTTCT
Statistics
Matches: 41, Mismatches: 6, Indels: 5
0.79 0.12 0.10
Matches are distributed among these distances:
18 2 0.05
19 14 0.34
20 22 0.54
21 3 0.07
ACGTcount: A:0.39, C:0.13, G:0.16, T:0.32
Consensus pattern (18 bp):
TCGAAACTTTAGAAAGTT
Found at i:769693 original size:3 final size:3
Alignment explanation
Indices: 769685--769729 Score: 63
Period size: 3 Copynumber: 15.0 Consensus size: 3
769675 TGTAATTATT
* * *
769685 TAA TAA TAA TAA TAA CAA TTA TAA TTA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
769730 ATAAAAATGG
Statistics
Matches: 36, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
3 36 1.00
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.36
Consensus pattern (3 bp):
TAA
Found at i:769771 original size:2 final size:2
Alignment explanation
Indices: 769764--769798 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
769754 GTATCTTCAC
769764 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
769799 GTGTGGCATG
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:776364 original size:21 final size:21
Alignment explanation
Indices: 776339--776380 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
776329 CTCAGATTAA
*
776339 CAGATTATTGTGCAGATGATT
1 CAGATTATTGTGCAGAGGATT
* *
776360 CAGATTGTTGTGTAGAGGATT
1 CAGATTATTGTGCAGAGGATT
776381 ATCCATGTAT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.26, C:0.07, G:0.29, T:0.38
Consensus pattern (21 bp):
CAGATTATTGTGCAGAGGATT
Found at i:788873 original size:20 final size:21
Alignment explanation
Indices: 788832--788874 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 21
788822 CCAAAAATAT
788832 GGTTTTCATAAGAATGAAATCA
1 GGTTTTCATAAGAA-GAAATCA
*
788854 GGTTTTCATATGAA-AAATCA
1 GGTTTTCATAAGAAGAAATCA
788874 G
1 G
788875 ATTGCAACCT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
20 7 0.35
22 13 0.65
ACGTcount: A:0.40, C:0.09, G:0.19, T:0.33
Consensus pattern (21 bp):
GGTTTTCATAAGAAGAAATCA
Found at i:789488 original size:21 final size:21
Alignment explanation
Indices: 789462--789501 Score: 80
Period size: 21 Copynumber: 1.9 Consensus size: 21
789452 ATGCAAACAT
789462 TCTTTCATGCAATTTAACTGA
1 TCTTTCATGCAATTTAACTGA
789483 TCTTTCATGCAATTTAACT
1 TCTTTCATGCAATTTAACT
789502 TATCAAAAGG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.28, C:0.20, G:0.07, T:0.45
Consensus pattern (21 bp):
TCTTTCATGCAATTTAACTGA
Found at i:790254 original size:16 final size:15
Alignment explanation
Indices: 790226--790266 Score: 57
Period size: 15 Copynumber: 2.7 Consensus size: 15
790216 TAAAAAGGAA
*
790226 AAATAATAAAATAAT
1 AAATATTAAAATAAT
790241 AAATATTAATAATAAT
1 AAATATTAA-AATAAT
790257 AAATA-TAAAA
1 AAATATTAAAA
790267 GGGGGTTTTT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
14 2 0.08
15 11 0.46
16 11 0.46
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (15 bp):
AAATATTAAAATAAT
Found at i:793810 original size:2 final size:2
Alignment explanation
Indices: 793805--793852 Score: 87
Period size: 2 Copynumber: 24.0 Consensus size: 2
793795 GATTAAAGTT
793805 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
*
793847 AA TA TA
1 TA TA TA
793853 ATTTCAATTT
Statistics
Matches: 44, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
2 44 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
TA
Found at i:795922 original size:178 final size:178
Alignment explanation
Indices: 795365--795924 Score: 625
Period size: 178 Copynumber: 3.1 Consensus size: 178
795355 ACCATTTTTG
* * * * * *
795365 TCACAAATA-TTTCCCGCCAATTTTTGGTGCAAAAAAAGTCATACAGTGATAAGTTTTGTAACTA
1 TCACAAATATTTTCACTCCATTTTTTGGTGCAAAAAAA-TCGTATAATGATAAGTTTTGTAACTA
* * *
795429 TAAGTTTTAGTAATTATGACAGAAAAAATTATCACAACAAATAATGAGATTCAAGTTTTTTGTGA
65 TAAATTTTAATAATTATTACA-AAAAAATTATCACAACAAATAATGAGATTCAAGTTTTTTGTGA
* * * *
795494 C-AATTTTTTTTGTAGTTATATATTTTAATTATAGTGACAAAATGTATAA
129 CAAATTATATTTGTAGTTATATATTTTAATTATAGTGACAAAATATATTA
* * * ** *
795543 TCACAAAT-GTTTCACTCTACTTTTTGGTGCAAAAAAAAAGTTATATAGTGACACA-TTTTGTAA
1 TCACAAATATTTTCACTCCATTTTTTGGTGCAAAAAAATCG-TATA-A-TGATA-AGTTTTGTAA
* * * * *
795606 CTATAAATTATAATTATTGTTA-AAGAAAAAGTTATCACAAAAAATAATGAGATTTAAAG-TTTT
62 CTATAAATTTTAATAATTATTACAA-AAAAA-TTATCACAACAAATAATGAGA-TTCAAGTTTTT
* *
795669 TATGACAAATCATATTTGTAGTTATATATTTTAATTATAGTGACAAAATATATTA
124 TGTGACAAATTATATTTGTAGTTATATATTTTAATTATAGTGACAAAATATATTA
* * * * *
795724 T-A-AAAAATGTTTCTCTCCATTTTTTGGCGCAAAAAAATCGTATAATGATATGTTTTGCAACTA
1 TCACAAATAT-TTTCACTCCATTTTTTGGTGCAAAAAAATCGTATAATGATAAGTTTTGTAACTA
* *
795787 TAAATTTTAATAATTATTACAAAAAATATTGTCATAACAAATAATGAGATTCAAGTTTTTTGTGA
65 TAAATTTTAATAATTATTACAAAAAA-ATTATCACAACAAATAATGAGATTCAAGTTTTTTGTGA
* * * *
795852 CAAATTATATTTGTAGTCATATATTTTAATTATAATGACAAAATACATTG
129 CAAATTATATTTGTAGTTATATATTTTAATTATAGTGACAAAATATATTA
795902 TCACAAATATTTTC-CTCCATTTT
1 TCACAAATATTTTCACTCCATTTT
795925 ATTCGGTTCA
Statistics
Matches: 316, Mismatches: 49, Indels: 34
0.79 0.12 0.09
Matches are distributed among these distances:
177 5 0.02
178 151 0.48
179 18 0.06
180 67 0.21
181 75 0.24
ACGTcount: A:0.40, C:0.10, G:0.11, T:0.39
Consensus pattern (178 bp):
TCACAAATATTTTCACTCCATTTTTTGGTGCAAAAAAATCGTATAATGATAAGTTTTGTAACTAT
AAATTTTAATAATTATTACAAAAAAATTATCACAACAAATAATGAGATTCAAGTTTTTTGTGACA
AATTATATTTGTAGTTATATATTTTAATTATAGTGACAAAATATATTA
Found at i:796239 original size:20 final size:20
Alignment explanation
Indices: 796202--796240 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
796192 TATTTTTATG
* *
796202 AAAAATTTTAAATTTTAATT
1 AAAAATATTAAATATTAATT
*
796222 AAAAATATTATATATTAAT
1 AAAAATATTAAATATTAAT
796241 AAATTTATAA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (20 bp):
AAAAATATTAAATATTAATT
Found at i:796248 original size:16 final size:15
Alignment explanation
Indices: 796210--796250 Score: 50
Period size: 16 Copynumber: 2.7 Consensus size: 15
796200 TGAAAAATTT
796210 TAAATTT-TAATTAA
1 TAAATTTATAATTAA
796224 -AAATATTATATATTAA
1 TAAAT-TTATA-ATTAA
796240 TAAATTTATAA
1 TAAATTTATAA
796251 AAAAGATTGA
Statistics
Matches: 23, Mismatches: 0, Indels: 7
0.77 0.00 0.23
Matches are distributed among these distances:
13 4 0.17
14 2 0.09
15 3 0.13
16 10 0.43
17 4 0.17
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (15 bp):
TAAATTTATAATTAA
Found at i:796492 original size:21 final size:19
Alignment explanation
Indices: 796466--796513 Score: 51
Period size: 19 Copynumber: 2.4 Consensus size: 19
796456 ATTCAAAAAT
*
796466 AAAAAATTACTAATAAAATAA
1 AAAAAATTA-T-AGAAAATAA
* *
796487 AAAAAAATATAGAAAATAT
1 AAAAAATTATAGAAAATAA
796506 AAAAAATT
1 AAAAAATT
796514 TTATGAGACA
Statistics
Matches: 23, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
19 14 0.61
20 1 0.04
21 8 0.35
ACGTcount: A:0.73, C:0.02, G:0.02, T:0.23
Consensus pattern (19 bp):
AAAAAATTATAGAAAATAA
Found at i:799947 original size:23 final size:23
Alignment explanation
Indices: 799921--799966 Score: 92
Period size: 23 Copynumber: 2.0 Consensus size: 23
799911 GTATACCTAC
799921 TGGTTCTGACTCCTCGCTGTCAT
1 TGGTTCTGACTCCTCGCTGTCAT
799944 TGGTTCTGACTCCTCGCTGTCAT
1 TGGTTCTGACTCCTCGCTGTCAT
799967 CATCGTCGTC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.09, C:0.30, G:0.22, T:0.39
Consensus pattern (23 bp):
TGGTTCTGACTCCTCGCTGTCAT
Found at i:800361 original size:27 final size:27
Alignment explanation
Indices: 800326--800380 Score: 92
Period size: 27 Copynumber: 2.0 Consensus size: 27
800316 TGAAGGCGGT
*
800326 GGCGACGGCATCTGGTAATTGAAAGGC
1 GGCGACGGCATCTGGTAATGGAAAGGC
*
800353 GGCGGCGGCATCTGGTAATGGAAAGGC
1 GGCGACGGCATCTGGTAATGGAAAGGC
800380 G
1 G
800381 ATGGCGACAT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.24, C:0.18, G:0.42, T:0.16
Consensus pattern (27 bp):
GGCGACGGCATCTGGTAATGGAAAGGC
Found at i:800386 original size:27 final size:27
Alignment explanation
Indices: 800331--800391 Score: 86
Period size: 27 Copynumber: 2.3 Consensus size: 27
800321 GCGGTGGCGA
* *
800331 CGGCATCTGGTAATTGAAAGGCGGCGG
1 CGGCATCTGGTAATGGAAAGGCGACGG
*
800358 CGGCATCTGGTAATGGAAAGGCGATGG
1 CGGCATCTGGTAATGGAAAGGCGACGG
*
800385 CGACATC
1 CGGCATC
800392 ATATATGGTT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 30 1.00
ACGTcount: A:0.25, C:0.20, G:0.38, T:0.18
Consensus pattern (27 bp):
CGGCATCTGGTAATGGAAAGGCGACGG
Found at i:800411 original size:18 final size:18
Alignment explanation
Indices: 800388--800423 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
800378 GCGATGGCGA
*
800388 CATCATATATGGTTGCGG
1 CATCATATATGGCTGCGG
800406 CATCATATATGGCTGCGG
1 CATCATATATGGCTGCGG
800424 TGGCTGCTGG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.22, C:0.19, G:0.28, T:0.31
Consensus pattern (18 bp):
CATCATATATGGCTGCGG
Found at i:802063 original size:106 final size:106
Alignment explanation
Indices: 801931--802253 Score: 538
Period size: 106 Copynumber: 3.0 Consensus size: 106
801921 ATTACAAAAA
801931 TTAATTCTTAATCTAATAATCATGCATTAAATAAATCAACTAATTATTACTAATAATTTAAATTA
1 TTAATTCTTAATCTAATAATCATGCATTAAATAAATCAACTAATTATTACTAATAATTTAAATTA
801996 AAACGTTAAAATGTTACCGTATCAGCAAAGTGTCGAGATAT
66 AAACGTTAAAATGTTACCGTATCAGCAAAGTGTCGAGATAT
802037 TTAATTCTTAATCTAATAATCATGCATTAAATAAATCAACTAATTATTACTAATAATTTAAATTA
1 TTAATTCTTAATCTAATAATCATGCATTAAATAAATCAACTAATTATTACTAATAATTTAAATTA
* *
802102 AAACGTTAAAATGTTACCGTATCAACAAAATGTCGAGATAT
66 AAACGTTAAAATGTTACCGTATCAGCAAAGTGTCGAGATAT
* * *
802143 TTAATTCTTATTCTAATAATCATGCATTAAATAAATCAACAAAATATTACTAATAATTTAAATTA
1 TTAATTCTTAATCTAATAATCATGCATTAAATAAATCAACTAATTATTACTAATAA--T---TTA
* *
802208 AATTAAAACGTTAAAATGTTATCGTATCAGCAAAGTGTAGAGATAT
61 AATTAAAACGTTAAAATGTTACCGTATCAGCAAAGTGTCGAGATAT
802254 ATGATTTCCA
Statistics
Matches: 203, Mismatches: 9, Indels: 5
0.94 0.04 0.02
Matches are distributed among these distances:
106 157 0.77
108 1 0.00
111 45 0.22
ACGTcount: A:0.45, C:0.11, G:0.08, T:0.36
Consensus pattern (106 bp):
TTAATTCTTAATCTAATAATCATGCATTAAATAAATCAACTAATTATTACTAATAATTTAAATTA
AAACGTTAAAATGTTACCGTATCAGCAAAGTGTCGAGATAT
Found at i:802394 original size:12 final size:10
Alignment explanation
Indices: 802379--802419 Score: 57
Period size: 10 Copynumber: 4.1 Consensus size: 10
802369 CTTAACAAGA
*
802379 GAGAGTATTT
1 GAGAGAATTT
802389 GAGAGAAATTT
1 GAGAG-AATTT
802400 -AGAGAATTT
1 GAGAGAATTT
802409 GAGAGAATTT
1 GAGAGAATTT
802419 G
1 G
802420 GTGTGATAAA
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
9 5 0.18
10 19 0.68
11 4 0.14
ACGTcount: A:0.39, C:0.00, G:0.29, T:0.32
Consensus pattern (10 bp):
GAGAGAATTT
Found at i:802662 original size:50 final size:50
Alignment explanation
Indices: 802539--802665 Score: 139
Period size: 50 Copynumber: 2.5 Consensus size: 50
802529 CAGATACGCA
* *
802539 TGTATAGCGCGGATCAGGGGGCGCGCTATACCCACGTGGCGCCAAATCAC
1 TGTATAACGCGGATCAGGGGGCGCGCTATACCCACGTGACGCCAAATCAC
* ** * * *
802589 CGTATGTCGCGGGA-CAGGGGGCGCGTTATACCCACTTGACGCCAAATCAG
1 TGTATAACGC-GGATCAGGGGGCGCGCTATACCCACGTGACGCCAAATCAC
* * *
802639 TGTATAACGCGGTTTAGGAGGCGCGCT
1 TGTATAACGCGGATCAGGGGGCGCGCT
802666 TTACTGCTAC
Statistics
Matches: 61, Mismatches: 14, Indels: 4
0.77 0.18 0.05
Matches are distributed among these distances:
49 2 0.03
50 56 0.92
51 3 0.05
ACGTcount: A:0.21, C:0.27, G:0.33, T:0.19
Consensus pattern (50 bp):
TGTATAACGCGGATCAGGGGGCGCGCTATACCCACGTGACGCCAAATCAC
Found at i:802870 original size:16 final size:16
Alignment explanation
Indices: 802849--802898 Score: 57
Period size: 16 Copynumber: 3.1 Consensus size: 16
802839 TGATCTCAAT
802849 AATAATAATAAAATAA
1 AATAATAATAAAATAA
**
802865 AATAATGCTAAAATTAA
1 AATAATAATAAAA-TAA
*
802882 AATAATAA-ATAATAA
1 AATAATAATAAAATAA
802897 AA
1 AA
802899 ACAACTACGA
Statistics
Matches: 28, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
15 5 0.18
16 14 0.50
17 9 0.32
ACGTcount: A:0.70, C:0.02, G:0.02, T:0.26
Consensus pattern (16 bp):
AATAATAATAAAATAA
Found at i:804787 original size:39 final size:39
Alignment explanation
Indices: 804742--804818 Score: 136
Period size: 39 Copynumber: 2.0 Consensus size: 39
804732 GAGTTCTAAC
804742 TGTATTCTCTATATTTTATTTTATGACTTCATTGGGAAA
1 TGTATTCTCTATATTTTATTTTATGACTTCATTGGGAAA
* *
804781 TGTATTCTCTATATTTTGTTTTATGATTTCATTGGGAA
1 TGTATTCTCTATATTTTATTTTATGACTTCATTGGGAA
804819 CAAACATTGG
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
39 36 1.00
ACGTcount: A:0.23, C:0.09, G:0.14, T:0.53
Consensus pattern (39 bp):
TGTATTCTCTATATTTTATTTTATGACTTCATTGGGAAA
Found at i:805358 original size:30 final size:30
Alignment explanation
Indices: 805322--805385 Score: 103
Period size: 30 Copynumber: 2.1 Consensus size: 30
805312 CGCCCCGCAT
*
805322 CCGCACCGCATCCACCCGA-CCCTCATCCGC
1 CCGCACCGCATCCACCC-ACCCCACATCCGC
805352 CCGCACCGCATCCACCCACCCCACATCCGC
1 CCGCACCGCATCCACCCACCCCACATCCGC
805382 CCGC
1 CCGC
805386 CTAACTAAAT
Statistics
Matches: 32, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
29 1 0.03
30 31 0.97
ACGTcount: A:0.17, C:0.62, G:0.12, T:0.08
Consensus pattern (30 bp):
CCGCACCGCATCCACCCACCCCACATCCGC
Found at i:805381 original size:26 final size:26
Alignment explanation
Indices: 805309--805385 Score: 75
Period size: 30 Copynumber: 2.8 Consensus size: 26
805299 TTGAGACCTT
* *
805309 ACCCGCCCCGCATCCGCACCGCATCC
1 ACCCACCCCACATCCGCACCGCATCC
**
805335 ACCCGACCCTCATCCGCCCGCACCGCATCC
1 ACCC-ACCC-CA--CATCCGCACCGCATCC
805365 ACCCACCCCACATCCGC-CCGC
1 ACCCACCCCACATCCGCACCGC
805386 CTAACTAAAT
Statistics
Matches: 41, Mismatches: 6, Indels: 9
0.73 0.11 0.16
Matches are distributed among these distances:
25 4 0.10
26 9 0.22
27 3 0.07
28 3 0.07
29 4 0.10
30 18 0.44
ACGTcount: A:0.17, C:0.62, G:0.13, T:0.08
Consensus pattern (26 bp):
ACCCACCCCACATCCGCACCGCATCC
Found at i:807645 original size:6 final size:6
Alignment explanation
Indices: 807629--807675 Score: 85
Period size: 6 Copynumber: 7.7 Consensus size: 6
807619 AATCGAGTAT
807629 TTTTAAA TTTTAA TTTTAA TTTTAA TTTTAA TTTTAA TTTTAA TTTT
1 TTTT-AA TTTTAA TTTTAA TTTTAA TTTTAA TTTTAA TTTTAA TTTT
807676 CGCAAATTAA
Statistics
Matches: 40, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
6 36 0.90
7 4 0.10
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (6 bp):
TTTTAA
Found at i:811503 original size:53 final size:53
Alignment explanation
Indices: 811432--811575 Score: 234
Period size: 53 Copynumber: 2.7 Consensus size: 53
811422 TTTCTCGAGA
*
811432 TTGGATTTTAACTTCACGATGAAGGATATCCAACTCAAAGCAACATACAATAT
1 TTGGATTTTAACTTCACGATGAAGGATATCCAACTCAAAGCAACATACAATAC
*
811485 TTGGATTTTAACTTCACGATGAAGGATATCCAACTCAAAGCAATATACAATAC
1 TTGGATTTTAACTTCACGATGAAGGATATCCAACTCAAAGCAACATACAATAC
* * * *
811538 TTGGATTTCAACTTCACAATGAAGGATATTCAAGTCAA
1 TTGGATTTTAACTTCACGATGAAGGATATCCAACTCAA
811576 GGCTTAACTT
Statistics
Matches: 85, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
53 85 1.00
ACGTcount: A:0.39, C:0.18, G:0.14, T:0.29
Consensus pattern (53 bp):
TTGGATTTTAACTTCACGATGAAGGATATCCAACTCAAAGCAACATACAATAC
Found at i:811682 original size:42 final size:43
Alignment explanation
Indices: 811601--811682 Score: 139
Period size: 43 Copynumber: 1.9 Consensus size: 43
811591 CGAAAGGGCC
811601 ATCCACGATTTCAACTCCACGACGGAGGATATCGTGCCCACAA
1 ATCCACGATTTCAACTCCACGACGGAGGATATCGTGCCCACAA
* *
811644 ATCCACGATTTCAACTTCACGGC-GAGGATATCGTGCCCA
1 ATCCACGATTTCAACTCCACGACGGAGGATATCGTGCCCA
811683 TCTACACAAG
Statistics
Matches: 37, Mismatches: 2, Indels: 1
0.93 0.05 0.03
Matches are distributed among these distances:
42 16 0.43
43 21 0.57
ACGTcount: A:0.28, C:0.32, G:0.20, T:0.21
Consensus pattern (43 bp):
ATCCACGATTTCAACTCCACGACGGAGGATATCGTGCCCACAA
Found at i:811984 original size:116 final size:116
Alignment explanation
Indices: 811824--812147 Score: 513
Period size: 116 Copynumber: 2.8 Consensus size: 116
811814 CAATACAATC
* * * *
811824 TTGGATTTCAACTTCACGACGAAGGATATTCAAGTCAAGACTCAACTTCACAACGAAGTGGCCAT
1 TTGGATTTCAACTTCACGACGAAGGATATCCAATTCAAGGCTCAACTTCACAACGAAGGGGCCAT
* * *
811889 CCACGGTTTCAACTTCTCGACGAAGGGAATCGTGCTCACTAGCAACATTCA
66 CCACGGTTTCAACTTCACGACGAAGGGAATCGTGCTCACCAGCAACATTAA
811940 TTGGATTTCAACTTCACGACGAAGGATATCCAATTCAAGGCTCAACTTCACAACGAAGGGGCCAT
1 TTGGATTTCAACTTCACGACGAAGGATATCCAATTCAAGGCTCAACTTCACAACGAAGGGGCCAT
* *
812005 CCACGGTTTTAACTTCACGACGAAGGGAATCGTGCTCACCAGTAACATTAA
66 CCACGGTTTCAACTTCACGACGAAGGGAATCGTGCTCACCAGCAACATTAA
* * * *
812056 TTGGATTTCAACTTCACAACAAAGGATATCCAATTTAAGGCTCAACTTCACAACGAAGGGGTCAT
1 TTGGATTTCAACTTCACGACGAAGGATATCCAATTCAAGGCTCAACTTCACAACGAAGGGGCCAT
* *
812121 CCACAGTTTCAACTTCAAGACGAAGGG
66 CCACGGTTTCAACTTCACGACGAAGGG
812148 TATCATGTTC
Statistics
Matches: 192, Mismatches: 16, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
116 192 1.00
ACGTcount: A:0.32, C:0.25, G:0.19, T:0.24
Consensus pattern (116 bp):
TTGGATTTCAACTTCACGACGAAGGATATCCAATTCAAGGCTCAACTTCACAACGAAGGGGCCAT
CCACGGTTTCAACTTCACGACGAAGGGAATCGTGCTCACCAGCAACATTAA
Found at i:812448 original size:167 final size:167
Alignment explanation
Indices: 812164--812636 Score: 658
Period size: 167 Copynumber: 2.8 Consensus size: 167
812154 GTTCATTTAA
* * * *
812164 AACATAACTTAAGTCGAGAAGGGTTATCTGCCAACCAAATACCTTCGAGTTCGACTATGCTCAGC
1 AACATAGCTTAAGTCGAGAAGGGCTATCTGCCAA-CAAAGACCTTCGAGTTCGACTACGCTCAGC
* * * *
812229 TCCAAGGCACATCATTTGCGGCATAACTCAAGGCTAAAAGGGTTATCTGCCAACAAAAGACCTTC
65 TCAAAGGCACATCATTTACAGCATAACTCAAGGCTAGAAGGGTTATCTGCCAACAAAAGACCTTC
*
812294 GAGTTCGACTACGCTCAGCTCAAAGACACATCATTTGT
130 GAGTTCGACTACGCTCAGCTCAAAGACACATCATTTGC
* * * *
812332 AGCATAGCTTAAGTCGAGAAGGGCTATCTGTCATCAAAGACTTTCGAGTTCGACTACGCTCAGCT
1 AACATAGCTTAAGTCGAGAAGGGCTATCTGCCAACAAAGACCTTCGAGTTCGACTACGCTCAGCT
* ** *
812397 CAAAGGCATATCATTTATTGCATAACTCAAGGCTAGAAGGGTTATCTGCCAACCAAAGACCTTCG
66 CAAAGGCACATCATTTACAGCATAACTCAAGGCTAGAAGGGTTATCTGCCAACAAAAGACCTTCG
* *
812462 AGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGC
131 AGTTCGACTACGCTCAGCTCAAAGACACATCATTTGC
* * * *
812499 AACATAGCTCAAGGCAAGAAGGGCTATTTGCCAACAAAAGACCTTCGAGTTCGACTACGCTCAGC
1 AACATAGCTTAAGTCGAGAAGGGCTATCTGCCAAC-AAAGACCTTCGAGTTCGACTACGCTCAGC
* * * * * * *
812564 TCAAAGGCACATCATTTACAGGATAACTTAAGTCGAGAAGGGCTATCTACCAACAAAATACCTTC
65 TCAAAGGCACATCATTTACAGCATAACTCAAGGCTAGAAGGGTTATCTGCCAACAAAAGACCTTC
812629 GAGTTCGA
130 GAGTTCGA
812637 TTCCATTCAG
Statistics
Matches: 267, Mismatches: 37, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
167 148 0.55
168 119 0.45
ACGTcount: A:0.32, C:0.25, G:0.19, T:0.23
Consensus pattern (167 bp):
AACATAGCTTAAGTCGAGAAGGGCTATCTGCCAACAAAGACCTTCGAGTTCGACTACGCTCAGCT
CAAAGGCACATCATTTACAGCATAACTCAAGGCTAGAAGGGTTATCTGCCAACAAAAGACCTTCG
AGTTCGACTACGCTCAGCTCAAAGACACATCATTTGC
Found at i:812647 original size:84 final size:84
Alignment explanation
Indices: 812156--812707 Score: 602
Period size: 84 Copynumber: 6.6 Consensus size: 84
812146 GGTATCATGT
* * * *
812156 TCATTTAAAACATAACTTAAGTCGAGAAGGGTTATCTGCCAACCAAATACCTTCGAGTTCGACTA
1 TCATTTACAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAACAAAAGACCTTCGAGTTCGACTA
* *
812221 TGCTCAGCTCCAAGGCACA
66 CGCTCAGCTCAAAGGCACA
* * * * * *
812240 TCATTTGCGGCATAACTCAAGGCTAAAAGGGTTATCTGCCAACAAAAGACCTTCGAGTTCGACTA
1 TCATTTACAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAACAAAAGACCTTCGAGTTCGACTA
*
812305 CGCTCAGCTCAAAGACACA
66 CGCTCAGCTCAAAGGCACA
** * * * * *
812324 TCATTTGTAGCATAGCTTAAGTCGAGAAGGGCTATCTGTCATC-AAAGACTTTCGAGTTCGACTA
1 TCATTTACAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAACAAAAGACCTTCGAGTTCGACTA
*
812388 CGCTCAGCTCAAAGGCATA
66 CGCTCAGCTCAAAGGCACA
** * * * *
812407 TCATTTATTGCATAACTCAAGGCTAGAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTCGACTA
1 TCATTTACAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAACAAAAGACCTTCGAGTTCGACTA
*
812472 CGCTCAGCTCCAAGGCACA
66 CGCTCAGCTCAAAGGCACA
* * * * * * * *
812491 TCATTTGCAACATAGCTCAAGGCAAGAAGGGCTATTTGCCAACAAAAGACCTTCGAGTTCGACTA
1 TCATTTACAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAACAAAAGACCTTCGAGTTCGACTA
812556 CGCTCAGCTCAAAGGCACA
66 CGCTCAGCTCAAAGGCACA
* * * * * *
812575 TCATTTACAGGATAACTTAAGTCGAGAAGGGCTATCTACCAACAAAATACCTTCGAGTTCGATTC
1 TCATTTACAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAACAAAAGACCTTCGAGTTCGACTA
** * **
812640 CATTCAGCTCAAGGGCATG
66 CGCTCAGCTCAAAGGCACA
* * ** * *
812659 TCAAATTTACAGTATAGCTTAAGTCGAGAAAAGTTATATGTCAACAAAA
1 TC--ATTTACAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAACAAAA
812708 ACTGACGAGT
Statistics
Matches: 392, Mismatches: 73, Indels: 4
0.84 0.16 0.01
Matches are distributed among these distances:
83 71 0.18
84 284 0.72
86 37 0.09
ACGTcount: A:0.33, C:0.24, G:0.19, T:0.24
Consensus pattern (84 bp):
TCATTTACAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAACAAAAGACCTTCGAGTTCGACTA
CGCTCAGCTCAAAGGCACA
Found at i:812959 original size:4 final size:4
Alignment explanation
Indices: 812950--813004 Score: 57
Period size: 4 Copynumber: 14.5 Consensus size: 4
812940 TTAAAAGATA
812950 TTAT TTAT TTAT TTA- TTA- TTACT ATTAT TTA- TTA- TTA- TTAT TTAT
1 TTAT TTAT TTAT TTAT TTAT TTA-T -TTAT TTAT TTAT TTAT TTAT TTAT
812995 TTAT TTAT TT
1 TTAT TTAT TT
813005 TTATAGGCCT
Statistics
Matches: 47, Mismatches: 0, Indels: 8
0.85 0.00 0.15
Matches are distributed among these distances:
3 15 0.32
4 28 0.60
5 1 0.02
6 3 0.06
ACGTcount: A:0.27, C:0.02, G:0.00, T:0.71
Consensus pattern (4 bp):
TTAT
Found at i:812979 original size:16 final size:17
Alignment explanation
Indices: 812955--812999 Score: 74
Period size: 16 Copynumber: 2.7 Consensus size: 17
812945 AGATATTATT
812955 TATTTATTTATTATTAC
1 TATTTATTTATTATTAC
*
812972 TA-TTATTTATTATTAT
1 TATTTATTTATTATTAC
812988 TATTTATTTATT
1 TATTTATTTATT
813000 TATTTTTATA
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
16 15 0.58
17 11 0.42
ACGTcount: A:0.29, C:0.02, G:0.00, T:0.69
Consensus pattern (17 bp):
TATTTATTTATTATTAC
Found at i:812981 original size:13 final size:12
Alignment explanation
Indices: 812947--813009 Score: 62
Period size: 13 Copynumber: 5.2 Consensus size: 12
812937 AGTTTAAAAG
812947 ATATTATTTATT
1 ATATTATTTATT
812959 -TATT-TATTATT
1 ATATTAT-TTATT
812970 ACTATTATTTATT
1 A-TATTATTTATT
812983 ATTATTATTTATT
1 A-TATTATTTATT
812996 -TATTTATTT-TT
1 ATA-TTATTTATT
813007 ATA
1 ATA
813010 GGCCTCATAT
Statistics
Matches: 44, Mismatches: 1, Indels: 12
0.77 0.02 0.21
Matches are distributed among these distances:
10 1 0.02
11 13 0.30
12 8 0.18
13 21 0.48
14 1 0.02
ACGTcount: A:0.30, C:0.02, G:0.00, T:0.68
Consensus pattern (12 bp):
ATATTATTTATT
Found at i:814935 original size:186 final size:187
Alignment explanation
Indices: 814630--815637 Score: 917
Period size: 186 Copynumber: 5.4 Consensus size: 187
814620 GTATTATCGT
* * * * *
814630 GATAACAAAATAAGTTAAAAACTAAAAATGTTATGAATATTTATACGAAATCTA-ATTGCACTCA
1 GATAACAAAATAAGTTAAAAGCTAAAAATGTTATGAATATCTATAAGAAATC-AGATTGCGCCCA
* * * * * *
814694 AGAATGTTATCGTTCACTAA-AAA-TATAGGTTGTGATCTGGAATGTTAAATTTT-TGTTTAATG
65 AGAATGTTATCGGTCACTAAGAAAGTAT--GTTGCGATTTGAAATGTT-AATTTTATGTGTAATA
* * * * * * * * *
814756 AATTGGGTTGCACATAAAATATTACCAAAGTTT-AGCTGGTGTGACATTAGACATTCCCAC
127 AATTCGGTTGCACCTAAAATGTTACCAGAGTTTAAGCTGATGAGGCATTAGACAATCTCAC
* *
814816 -ATTAACAAAATAAGTTAAAAGCTAAAAATGTTATGAATATTTATACGAAATCAGATTGCGCCCA
1 GA-TAACAAAATAAGTTAAAAGCTAAAAATGTTATGAATATCTATAAGAAATCAGATTGCGCCCA
* * *
814880 AGAATTTTATCGGTCACTAAGAAAGTATGTTGCGATTTGAAATGTTAATTTTTTGTGCAATAAAT
65 AGAATGTTATCGGTCACTAAGAAAGTATGTTGCGATTTGAAATGTTAATTTTATGTGTAATAAAT
* ** *
814945 TGGGTTGTC-CCTAAAATGTTATTAGAGTTTAAGCTGATGAGGCCTTAG-CTAATCTCAC
130 TCGGTTG-CACCTAAAATGTTACCAGAGTTTAAGCTGATGAGGCATTAGAC-AATCTCAC
* * ** *
815003 GATAACAAAATAAGTTAATA--TAAAAAATGTTATGAATATTTATAAGAAATCAGATTGTACTCA
1 GATAACAAAATAAGTTAAAAGCT-AAAAATGTTATGAATATCTATAAGAAATCAGATTGCGCCCA
* * ** * * * * *
815066 AGTATGTTATTGGTCGTTAAGAAAATAGGTTGTGATCTT-AAATATTAATTTTATATGTAATAAA
65 AGAATGTTATCGGTCACTAAGAAAGTATGTTGCGAT-TTGAAATGTTAATTTTATGTGTAATAAA
* * *
815130 TTTGGTTGCACCTAAAATATTA-TAGAGTTTAAGCTGATGAGGCATTA-ACAATCTCAC
129 TTCGGTTGCACCTAAAATGTTACCAGAGTTTAAGCTGATGAGGCATTAGACAATCTCAC
* * * * *
815187 GATAATAAAATAAGTTAAAATCTAAAAATGTTATGAATATCTATTAGAAATCATG-TAGCGCCAA
1 GATAACAAAATAAGTTAAAAGCTAAAAATGTTATGAATATCTATAAGAAATCA-GATTGCGCCCA
* * * * *
815251 AAAATGTTATCGGTCGCTAAGAAAGTAGGTTGCGATCT-AGGATGTTAATTTTATGT-TGAATAA
65 AGAATGTTATCGGTCACTAAGAAAGTATGTTGCGATTTGA-AATGTTAATTTTATGTGT-AATAA
** * *
815314 ATTCAATTGCGCCTAAAATGTTACCAGAGTTTAAGCTGATTG-GGCATTAGACAATCCCAC
128 ATTCGGTTGCACCTAAAATGTTACCAGAGTTTAAGCTGA-TGAGGCATTAGACAATCTCAC
* * ** * * *
815374 AATAACAAAATAAGTTAAAATCTAAAAAAATTATGAATATCTATAAGAAATCAGGTTGCTCCAAA
1 GATAACAAAATAAGTTAAAAGCTAAAAATGTTATGAATATCTATAAGAAATCAGATTGCGCCCAA
** * * *
815439 GAATGTTATTAGT-AGCTAA-AAAGTATGTTGCAATCTCG-AATGTTAATTTTATGTATAATAAA
66 GAATGTTATCGGTCA-CTAAGAAAGTATGTTGCGAT-TTGAAATGTTAATTTTATGTGTAATAAA
** * * * * * * **
815501 TTCAATTGCGCCTAAAATGTTACCTGAATTTAAGTTGATG-GGACCTTAGACATTCTTGC
129 TTCGGTTGCACCTAAAATGTTACCAGAGTTTAAGCTGATGAGG-CATTAGACAATCTCAC
* * * *
815560 GATAACAAAATATGTTAAAAGCTAAAAATGTTATAAATATCTATAATAAATTC-GGTTGCGCCCA
1 GATAACAAAATAAGTTAAAAGCTAAAAATGTTATGAATATCTATAAGAAA-TCAGATTGCGCCCA
* *
815624 ATAATATTATCGGT
65 AGAATGTTATCGGT
815638 GAATAAGTAT
Statistics
Matches: 689, Mismatches: 105, Indels: 56
0.81 0.12 0.07
Matches are distributed among these distances:
184 29 0.04
185 137 0.20
186 393 0.57
187 126 0.18
188 4 0.01
ACGTcount: A:0.39, C:0.11, G:0.16, T:0.34
Consensus pattern (187 bp):
GATAACAAAATAAGTTAAAAGCTAAAAATGTTATGAATATCTATAAGAAATCAGATTGCGCCCAA
GAATGTTATCGGTCACTAAGAAAGTATGTTGCGATTTGAAATGTTAATTTTATGTGTAATAAATT
CGGTTGCACCTAAAATGTTACCAGAGTTTAAGCTGATGAGGCATTAGACAATCTCAC
Found at i:815275 original size:371 final size:371
Alignment explanation
Indices: 814630--815603 Score: 1030
Period size: 371 Copynumber: 2.6 Consensus size: 371
814620 GTATTATCGT
* *
814630 GATAACAAAATAAGTTAA-AAACTAAAAATGTTATGAATATTTATACGAAATCTA-ATTGCACTC
1 GATAACAAAATAAGTTAATATA--AAAAATGTTATGAATATTTATAAGAAATC-AGATTG-ACTC
* * * * * *
814693 AAGAATGTTATCGTTCACTAAAAATATAGGTTGTGATCTGGAATGTTAAATTTT-TGTTTAATGA
62 AAGAATGTTATTGGTCGCTAAAAA-ATAGGTTGTGATCTCGAATGTT-AATTTTATGTATAATAA
* * * * * * *
814757 ATTGGGTTGCACATAAAATATTACCAAAGTTT-AGCTGGTGTGACATTAGACATTCCCAC-ATTA
125 ATTCGGTTGCACCTAAAATATTACTAGAGTTTAAGCTGATG-GGCATTAGACATTCTCACGA-TA
* * * *
814820 ACAAAATAAGTTAAAAGCTAAAAATGTTATGAATATTTA-TACGAAATCAGATTGCGCCCAAGAA
188 ACAAAATAAGTTAAAAGCTAAAAATGTTATGAATATCTATTACGAAATCAGATAGCGCCAAAAAA
* * * * *
814884 TTTTATCGGTCACTAAGAAAGTATGTTGCGAT-TTGAAATGTTAATTTTTTG-TGCAATAAATTG
253 TGTTATCGGTCACTAAGAAAGTAGGTTGCGATCTAG-AATGTTAATTTTATGTTG-AATAAATTC
** ** * *
814947 GGTTGTC-CCTAAAATGTTATTAGAGTTTAAGCTGA-TGAGGCCTTAG-CTAATCTCAC
316 AATTG-CGCCTAAAATGTTACCAGAGTTTAAGCTGATTG-GGCATTAGAC-AATCCCAC
815003 GATAACAAAATAAGTTAATATAAAAAATGTTATGAATATTTATAAGAAATCAGATTGTACTCAAG
1 GATAACAAAATAAGTTAATATAAAAAATGTTATGAATATTTATAAGAAATCAGATTG-ACTCAAG
* * ** * * * *
815068 TATGTTATTGGTCGTTAAGAAAATAGGTTGTGATCTTAAATATTAATTTTATATGTAATAAATTT
65 AATGTTATTGGTCGCTAA-AAAATAGGTTGTGATCTCGAATGTTAATTTTATGTATAATAAATTC
* *
815133 GGTTGCACCTAAAATATTA-TAGAGTTTAAGCTGATGAGGCATTA-ACAATCTCACGATAATAAA
129 GGTTGCACCTAAAATATTACTAGAGTTTAAGCTGATG-GGCATTAGACATTCTCACGATAACAAA
*
815196 ATAAGTTAAAATCTAAAAATGTTATGAATATCTATTA-GAAATCATG-TAGCGCCAAAAAATGTT
193 ATAAGTTAAAAGCTAAAAATGTTATGAATATCTATTACGAAATCA-GATAGCGCCAAAAAATGTT
* *
815259 ATCGGTCGCTAAGAAAGTAGGTTGCGATCTAGGATGTTAATTTTATGTTGAATAAATTCAATTGC
257 ATCGGTCACTAAGAAAGTAGGTTGCGATCTAGAATGTTAATTTTATGTTGAATAAATTCAATTGC
815324 GCCTAAAATGTTACCAGAGTTTAAGCTGATTGGGCATTAGACAATCCCAC
322 GCCTAAAATGTTACCAGAGTTTAAGCTGATTGGGCATTAGACAATCCCAC
* * * * *
815374 AATAACAAAATAAGTTAAAATCTAAAAAA-ATTATGAATATCTATAAGAAATCAGGTTG-CTCCA
1 GATAACAAAATAAGTT--AATATAAAAAATGTTATGAATATTTATAAGAAATCAGATTGACT-C-
* * * * **
815437 AAGAATGTTATTAGTAGCTAAAAAGTATGTTGCAATCTCGAATGTTAATTTTATGTATAATAAAT
62 AAGAATGTTATTGGTCGCTAAAAAATAGGTTGTGATCTCGAATGTTAATTTTATGTATAATAAAT
** * * * * * **
815502 TCAATTGCGCCTAAAATGTTACCT-GAATTTAAGTTGATGGGACCTTAGACATTCTTGCGATAAC
127 TCGGTTGCACCTAAAATATTA-CTAGAGTTTAAGCTGATGGG-CATTAGACATTCTCACGATAAC
* *
815566 AAAATATGTTAAAAGCTAAAAATGTTATAAATATCTAT
190 AAAATAAGTTAAAAGCTAAAAATGTTATGAATATCTAT
815604 AATAAATTCG
Statistics
Matches: 505, Mismatches: 75, Indels: 42
0.81 0.12 0.07
Matches are distributed among these distances:
370 3 0.01
371 238 0.47
372 183 0.36
373 79 0.16
374 2 0.00
ACGTcount: A:0.39, C:0.11, G:0.16, T:0.34
Consensus pattern (371 bp):
GATAACAAAATAAGTTAATATAAAAAATGTTATGAATATTTATAAGAAATCAGATTGACTCAAGA
ATGTTATTGGTCGCTAAAAAATAGGTTGTGATCTCGAATGTTAATTTTATGTATAATAAATTCGG
TTGCACCTAAAATATTACTAGAGTTTAAGCTGATGGGCATTAGACATTCTCACGATAACAAAATA
AGTTAAAAGCTAAAAATGTTATGAATATCTATTACGAAATCAGATAGCGCCAAAAAATGTTATCG
GTCACTAAGAAAGTAGGTTGCGATCTAGAATGTTAATTTTATGTTGAATAAATTCAATTGCGCCT
AAAATGTTACCAGAGTTTAAGCTGATTGGGCATTAGACAATCCCAC
Found at i:815890 original size:76 final size:76
Alignment explanation
Indices: 815723--815891 Score: 196
Period size: 76 Copynumber: 2.2 Consensus size: 76
815713 ATATTTAATC
*
815723 TATGATGATCAATACTTTTAAATATTGAAAAAAAAATTGAAGATAAGATCAAAAGTTAAAATATC
1 TATGATGATCAATACTTTCAAATATTGAAAAAAAAATTGAAGATAAGATCAAAAGTTAAAATATC
* *
815788 AATACTTATGT
66 AATACATATAT
** * * * *** * *
815799 GCTAATGATCGATACTTTCATATATTGGAAAAATTGA-TGAAGATATGATCGAAAGTTAAAATAT
1 TATGATGATCAATACTTTCAAATATT-GAAAAAAAAATTGAAGATAAGATCAAAAGTTAAAATAT
815863 CAATACATATAT
65 CAATACATATAT
*
815875 TATGATGTTCAATACTT
1 TATGATGATCAATACTT
815892 GTTCATTTAT
Statistics
Matches: 74, Mismatches: 18, Indels: 2
0.79 0.19 0.02
Matches are distributed among these distances:
76 67 0.91
77 7 0.09
ACGTcount: A:0.45, C:0.08, G:0.12, T:0.34
Consensus pattern (76 bp):
TATGATGATCAATACTTTCAAATATTGAAAAAAAAATTGAAGATAAGATCAAAAGTTAAAATATC
AATACATATAT
Found at i:816568 original size:2 final size:2
Alignment explanation
Indices: 816563--816596 Score: 50
Period size: 2 Copynumber: 17.0 Consensus size: 2
816553 AAATGGAAAT
* *
816563 TA TA TA TA TA TG TA TG TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
816597 ACATGTTTCT
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.44, C:0.00, G:0.06, T:0.50
Consensus pattern (2 bp):
TA
Found at i:823587 original size:41 final size:41
Alignment explanation
Indices: 823490--823710 Score: 202
Period size: 41 Copynumber: 5.4 Consensus size: 41
823480 TAGAATCGTT
* * ** *
823490 CTTTAGTGGCGTTTTTAAACAAACGCCGC-AATAGGTACATA
1 CTTTAGTGGCGTTTTTAGACAAACGCCGCTAAAACCTA-GTA
* * *
823531 -TATCGTGGCATTTTTAGACAAACGCCGCTAAAACCTAGTA
1 CTTTAGTGGCGTTTTTAGACAAACGCCGCTAAAACCTAGTA
823571 CTTTAGTGGCGTTTTTAGACAAACGCCGCTAAATA-CTCA-TA
1 CTTTAGTGGCGTTTTTAGACAAACGCCGCTAAA-ACCT-AGTA
* * *
823612 CTTTAGTGGTGTTTTTTGACAAATGCCGCTAAAACCTAGTA
1 CTTTAGTGGCGTTTTTAGACAAACGCCGCTAAAACCTAGTA
* * * *
823653 CTTTAGTGGCGTTTTAAGCAAAAATGCTGCTAAATACGC--GTA
1 CTTTAGTGGCGTTTTTAG-ACAAACGCCGCTAAA-AC-CTAGTA
*
823695 CATTAGTGGCGTTTTT
1 CTTTAGTGGCGTTTTT
823711 TATTTATAAA
Statistics
Matches: 150, Mismatches: 21, Indels: 17
0.80 0.11 0.09
Matches are distributed among these distances:
40 28 0.19
41 87 0.58
42 32 0.21
43 2 0.01
44 1 0.01
ACGTcount: A:0.29, C:0.19, G:0.19, T:0.33
Consensus pattern (41 bp):
CTTTAGTGGCGTTTTTAGACAAACGCCGCTAAAACCTAGTA
Found at i:823652 original size:82 final size:82
Alignment explanation
Indices: 823490--823711 Score: 261
Period size: 82 Copynumber: 2.7 Consensus size: 82
823480 TAGAATCGTT
* * * * * *
823490 CTTTAGTGGCGTTTTTAAACAAACGCCGC--AATAGGTACATA-TATCGTGGCATTTTTAGACAA
1 CTTTAGTGGCGTTTTTAGACAAACGCCGCTAAATA-CT-CATACTTTAGTGGCGTTTTTTGACAA
823552 ACGCCGCTAAAACCTAGTA
64 ACGCCGCTAAAACCTAGTA
* *
823571 CTTTAGTGGCGTTTTTAGACAAACGCCGCTAAATACTCATACTTTAGTGGTGTTTTTTGACAAAT
1 CTTTAGTGGCGTTTTTAGACAAACGCCGCTAAATACTCATACTTTAGTGGCGTTTTTTGACAAAC
823636 GCCGCTAAAACCTAGTA
66 GCCGCTAAAACCTAGTA
* * * * * * *
823653 CTTTAGTGGCGTTTTAAGCAAAAATGCTGCTAAATACGCGTACATTAGTGGCGTTTTTT
1 CTTTAGTGGCGTTTTTAG-ACAAACGCCGCTAAATACTCATACTTTAGTGGCGTTTTTT
823712 ATTTATAAAC
Statistics
Matches: 121, Mismatches: 16, Indels: 6
0.85 0.11 0.04
Matches are distributed among these distances:
81 32 0.26
82 52 0.43
83 37 0.31
ACGTcount: A:0.29, C:0.19, G:0.19, T:0.33
Consensus pattern (82 bp):
CTTTAGTGGCGTTTTTAGACAAACGCCGCTAAATACTCATACTTTAGTGGCGTTTTTTGACAAAC
GCCGCTAAAACCTAGTA
Found at i:825901 original size:7 final size:7
Alignment explanation
Indices: 825889--825921 Score: 66
Period size: 7 Copynumber: 4.7 Consensus size: 7
825879 GTAGGTGTTA
825889 TAGGGTT
1 TAGGGTT
825896 TAGGGTT
1 TAGGGTT
825903 TAGGGTT
1 TAGGGTT
825910 TAGGGTT
1 TAGGGTT
825917 TAGGG
1 TAGGG
825922 GTAAGCACGA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 26 1.00
ACGTcount: A:0.15, C:0.00, G:0.45, T:0.39
Consensus pattern (7 bp):
TAGGGTT
Done.