Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A09
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: 81831061
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 3560000 characters in sequence are not A, C, G, or T
File 175 of 259
Found at i:56946499 original size:9 final size:10
Alignment explanation
Indices: 56946485--56946540 Score: 64
Period size: 9 Copynumber: 5.7 Consensus size: 10
56946475 GTTATATACG
56946485 TATATATT-T
1 TATATATTAT
56946494 TATATATTAT
1 TATATATTAT
56946504 GTATATATTAT
1 -TATATATTAT
*
56946515 T-TTTATTA-
1 TATATATTAT
56946523 TATATATTAT
1 TATATATTAT
56946533 GTATATAT
1 -TATATAT
56946541 ATCGTATTAT
Statistics
Matches: 40, Mismatches: 2, Indels: 8
0.80 0.04 0.16
Matches are distributed among these distances:
8 1 0.03
9 20 0.50
10 2 0.05
11 17 0.43
ACGTcount: A:0.36, C:0.00, G:0.04, T:0.61
Consensus pattern (10 bp):
TATATATTAT
Found at i:56946508 original size:11 final size:11
Alignment explanation
Indices: 56946484--56946563 Score: 68
Period size: 11 Copynumber: 7.7 Consensus size: 11
56946474 TGTTATATAC
56946484 GTATATATT-T
1 GTATATATTAT
56946494 -TATATATTAT
1 GTATATATTAT
56946504 GTATATATTAT
1 GTATATATTAT
*
56946515 -T-TTTATTA-
1 GTATATATTAT
56946523 -TATATATTAT
1 GTATATATTAT
56946533 GTATATA-TAT
1 GTATATATTAT
56946543 CGTAT-TATTCAT
1 -GTATATATT-AT
56946555 GTATTATAT
1 GTA-TATAT
56946564 CATATATGCA
Statistics
Matches: 58, Mismatches: 2, Indels: 17
0.75 0.03 0.22
Matches are distributed among these distances:
8 1 0.02
9 20 0.34
10 7 0.12
11 24 0.41
12 3 0.05
13 3 0.05
ACGTcount: A:0.34, C:0.03, G:0.06, T:0.57
Consensus pattern (11 bp):
GTATATATTAT
Found at i:56946514 original size:18 final size:17
Alignment explanation
Indices: 56946487--56946563 Score: 59
Period size: 18 Copynumber: 4.4 Consensus size: 17
56946477 TATATACGTA
*
56946487 TATATTTTATATATTATG
1 TATATATTAT-TATTATG
*
56946505 TATATATTATTTTTAT-
1 TATATATTATTATTATG
*
56946521 TATATA-TATTATGTATA
1 TATATATTATTAT-TATG
**
56946538 TATATCGTATTATTCATG
1 TATATATTATTATT-ATG
56946556 TATTATAT
1 TA-TATAT
56946564 CATATATGCA
Statistics
Matches: 47, Mismatches: 7, Indels: 9
0.75 0.11 0.14
Matches are distributed among these distances:
15 5 0.11
16 9 0.19
17 11 0.23
18 19 0.40
19 3 0.06
ACGTcount: A:0.34, C:0.03, G:0.05, T:0.58
Consensus pattern (17 bp):
TATATATTATTATTATG
Found at i:56946521 original size:20 final size:20
Alignment explanation
Indices: 56946484--56946540 Score: 66
Period size: 20 Copynumber: 2.9 Consensus size: 20
56946474 TGTTATATAC
56946484 GTATATATT-TTATATATTA
1 GTATATATTATTATATATTA
*
56946503 TGTATATATTATT-TTTATTA
1 -GTATATATTATTATATATTA
56946523 -TATATATTATGTATATAT
1 GTATATATTAT-TATATAT
56946541 ATCGTATTAT
Statistics
Matches: 32, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
18 10 0.31
19 1 0.03
20 19 0.59
21 2 0.06
ACGTcount: A:0.35, C:0.00, G:0.05, T:0.60
Consensus pattern (20 bp):
GTATATATTATTATATATTA
Found at i:56952228 original size:43 final size:45
Alignment explanation
Indices: 56952180--56952281 Score: 136
Period size: 43 Copynumber: 2.3 Consensus size: 45
56952170 GCCACCCAGC
* ** *
56952180 CTTATCTCTCTAAGGTAGCAAGAGAGCAGGTTGAAGATTG-AG-T
1 CTTATCTCTCTAAGGTAGCAAGAAAGCAGACTAAAGATTGAAGAT
*
56952223 CTTATCTTTCTAAGGTAGCAAGAAAGCAGACTAAAGATTGAAGAT
1 CTTATCTCTCTAAGGTAGCAAGAAAGCAGACTAAAGATTGAAGAT
*
56952268 CTTATCTCCCTAAG
1 CTTATCTCTCTAAG
56952282 CAGTAGTGGA
Statistics
Matches: 50, Mismatches: 7, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
43 35 0.70
44 2 0.04
45 13 0.26
ACGTcount: A:0.33, C:0.17, G:0.22, T:0.28
Consensus pattern (45 bp):
CTTATCTCTCTAAGGTAGCAAGAAAGCAGACTAAAGATTGAAGAT
Found at i:56952412 original size:43 final size:45
Alignment explanation
Indices: 56952357--56952452 Score: 135
Period size: 43 Copynumber: 2.2 Consensus size: 45
56952347 GCCACCCAGC
**
56952357 CTTATCTCTCTGAGGTAGCAAGAGAA-CAGGTTGAAGATTG-AG-T
1 CTTATCTCTCTGAGGTAGCAAGA-AAGCAGACTGAAGATTGAAGAT
*
56952400 CTTATCTTTCTGAGGTAGCAAGAAAGCAGACTGAAGATTGAAGAT
1 CTTATCTCTCTGAGGTAGCAAGAAAGCAGACTGAAGATTGAAGAT
56952445 CTTATCTC
1 CTTATCTC
56952453 CCTAAGCAGT
Statistics
Matches: 46, Mismatches: 4, Indels: 4
0.85 0.07 0.07
Matches are distributed among these distances:
42 2 0.04
43 34 0.74
44 2 0.04
45 8 0.17
ACGTcount: A:0.31, C:0.16, G:0.24, T:0.29
Consensus pattern (45 bp):
CTTATCTCTCTGAGGTAGCAAGAAAGCAGACTGAAGATTGAAGAT
Found at i:56952449 original size:177 final size:177
Alignment explanation
Indices: 56952153--56952979 Score: 1138
Period size: 177 Copynumber: 4.7 Consensus size: 177
56952143 ACTAAATCGA
*
56952153 CAATGGAGCAGATTTAAGCCACCCAGCCTTATCTCTCTAAGGTAGCAAGAGAGCAGGTTGAAGAT
1 CAATGGAGCAGATTTAAGCCACCCAGCCTTATCTCTCTGAGGTAGCAAGAGAGCAGGTTGAAGAT
* *
56952218 TGAGTCTTATCTTTCTAAGGTAGCAAGAAAGCAGACTAAAGATTGAAGATCTTATCTCCCTAAGC
66 TGAGTCTTATCTTTCTGAGGTAGCAAGAAAGCAGACTGAAGATTGAAGATCTTATCTCCCTAAGC
* *
56952283 AGTAGTGGAGTAGATC-ACAGATGGTAAATCTTATCTCCATGTATCAG
131 AGTAGTGGAGCAGATCGA-AGATGGTGAATCTTATCTCCATGTATCAG
* *
56952330 CAATGGAGCAAATTTAAGCCACCCAGCCTTATCTCTCTGAGGTAGCAAGAGAACAGGTTGAAGAT
1 CAATGGAGCAGATTTAAGCCACCCAGCCTTATCTCTCTGAGGTAGCAAGAGAGCAGGTTGAAGAT
56952395 TGAGTCTTATCTTTCTGAGGTAGCAAGAAAGCAGACTGAAGATTGAAGATCTTATCTCCCTAAGC
66 TGAGTCTTATCTTTCTGAGGTAGCAAGAAAGCAGACTGAAGATTGAAGATCTTATCTCCCTAAGC
* * *
56952460 AGTAGTAGAGCAGATCGCAGATGGTGAATCTTATCTCCATGTATCGG
131 AGTAGTGGAGCAGATCGAAGATGGTGAATCTTATCTCCATGTATCAG
* * *
56952507 GAATGGAGCAGATTTAAGCCACCCAGTCTTATCTCTTTGAGGTAGCAAGAGAGCAGGTTGAAGAT
1 CAATGGAGCAGATTTAAGCCACCCAGCCTTATCTCTCTGAGGTAGCAAGAGAGCAGGTTGAAGAT
* *
56952572 TGAGTCTTATCTTTCTGAGGTAGCAAGGAAGC--A-TGAAGATTAAAGATCTTATCTCCCTAAGC
66 TGAGTCTTATCTTTCTGAGGTAGCAAGAAAGCAGACTGAAGATTGAAGATCTTATCTCCCTAAGC
* * *
56952634 AGTAGCGGAGCAGATCGAAAATGGCGAATCTTATCTCCATGTATCAG
131 AGTAGTGGAGCAGATCGAAGATGGTGAATCTTATCTCCATGTATCAG
* * * * **
56952681 CAATGGAGCAGATTTTAGCCA-CTAGTCTTATCTCTCTGAGGTAGCAAGAGAGCAGGTCGGCGAT
1 CAATGGAGCAGATTTAAGCCACCCAGCCTTATCTCTCTGAGGTAGCAAGAGAGCAGGTTGAAGAT
*
56952745 TGTAGTCTTATC-TTCTTGAGGTAGCAAGGAAA-CAGACTGAAGATTGAAGATC-TATCTCTCTA
66 TG-AGTCTTATCTTTC-TGAGGTAGCAA-GAAAGCAGACTGAAGATTGAAGATCTTATCTCCCTA
* *
56952807 AGCAGTAGTGGAGCAGATCGAATATGGTGAATTTTATCTCCATGTATCAG
128 AGCAGTAGTGGAGCAGATCGAAGATGGTGAATCTTATCTCCATGTATCAG
* * * * * * * **
56952857 CAATGAAGCAGATGTTAA--CA-CTAGCCTTATCTTTTTGAGGAAGCAAGAGAACAGATTGGTGA
1 CAATGGAGCAGAT-TTAAGCCACCCAGCCTTATCTCTCTGAGGTAGCAAGAGAGCAGGTTGAAGA
* * * * *
56952919 TTGTAGTCTTATATTCCTGAGGTAGCAAGGAAGCAGACT-AATGATTGTAGATTTTATCTCC
65 TTG-AGTCTTATCTTTCTGAGGTAGCAAGAAAGCAGACTGAA-GATTGAAGATCTTATCTCC
56952980 TTGAGAAAAC
Statistics
Matches: 585, Mismatches: 53, Indels: 25
0.88 0.08 0.04
Matches are distributed among these distances:
173 43 0.07
174 114 0.19
175 78 0.13
176 76 0.13
177 274 0.47
ACGTcount: A:0.31, C:0.18, G:0.24, T:0.28
Consensus pattern (177 bp):
CAATGGAGCAGATTTAAGCCACCCAGCCTTATCTCTCTGAGGTAGCAAGAGAGCAGGTTGAAGAT
TGAGTCTTATCTTTCTGAGGTAGCAAGAAAGCAGACTGAAGATTGAAGATCTTATCTCCCTAAGC
AGTAGTGGAGCAGATCGAAGATGGTGAATCTTATCTCCATGTATCAG
Found at i:56955002 original size:31 final size:32
Alignment explanation
Indices: 56954940--56955002 Score: 76
Period size: 31 Copynumber: 2.0 Consensus size: 32
56954930 AACATAGTTT
* *
56954940 TTTTTAAAAATTTATTTATATACATAATTATG
1 TTTTTAAAAATCTATTTACATACATAATTATG
*
56954972 TTTTT-AAAATCTA-TTACATATATAACTTATG
1 TTTTTAAAAATCTATTTACATACATAA-TTATG
56955003 ATAAAATTAA
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
30 10 0.37
31 12 0.44
32 5 0.19
ACGTcount: A:0.40, C:0.06, G:0.03, T:0.51
Consensus pattern (32 bp):
TTTTTAAAAATCTATTTACATACATAATTATG
Found at i:56957930 original size:20 final size:20
Alignment explanation
Indices: 56957896--56957944 Score: 64
Period size: 20 Copynumber: 2.5 Consensus size: 20
56957886 AGGTTTATAC
56957896 TAAGTAAAT-GAATGGAAAG
1 TAAGTAAATGGAATGGAAAG
*
56957915 TAAGTAAATGGAATGGTAAG
1 TAAGTAAATGGAATGGAAAG
* *
56957935 AAAATAAATG
1 TAAGTAAATG
56957945 AAGTAGTTCA
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
19 9 0.35
20 17 0.65
ACGTcount: A:0.53, C:0.00, G:0.24, T:0.22
Consensus pattern (20 bp):
TAAGTAAATGGAATGGAAAG
Found at i:56965164 original size:32 final size:29
Alignment explanation
Indices: 56965126--56965189 Score: 74
Period size: 32 Copynumber: 2.1 Consensus size: 29
56965116 CCTAAACTCA
*
56965126 TTTTAAACATATCCATATTATATATTTTAATT
1 TTTTAAAAATATCCATA-T-TAT-TTTTAATT
**
56965158 TTTTAAAAATATTTATATTATTTTTAATT
1 TTTTAAAAATATCCATATTATTTTTAATT
56965187 TTT
1 TTT
56965190 AATTTAAAAT
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
29 11 0.38
30 3 0.10
31 1 0.03
32 14 0.48
ACGTcount: A:0.36, C:0.05, G:0.00, T:0.59
Consensus pattern (29 bp):
TTTTAAAAATATCCATATTATTTTTAATT
Found at i:56965213 original size:25 final size:25
Alignment explanation
Indices: 56965184--56965233 Score: 75
Period size: 25 Copynumber: 2.0 Consensus size: 25
56965174 ATTATTTTTA
*
56965184 ATTTTTAAT-TTAAAATTTATATAT
1 ATTTTTTATATTAAAATTTATATAT
*
56965208 ATTTTTTGTATTAAAATTTATATAT
1 ATTTTTTATATTAAAATTTATATAT
56965233 A
1 A
56965234 GGTAATATAA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
24 7 0.30
25 16 0.70
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.58
Consensus pattern (25 bp):
ATTTTTTATATTAAAATTTATATAT
Found at i:56979291 original size:23 final size:23
Alignment explanation
Indices: 56979265--56979311 Score: 76
Period size: 23 Copynumber: 2.0 Consensus size: 23
56979255 AAATTGTAAT
*
56979265 ATATATTTATTATTAATATATTA
1 ATATATTTATTAATAATATATTA
*
56979288 ATATATTTTTTAATAATATATTA
1 ATATATTTATTAATAATATATTA
56979311 A
1 A
56979312 GAATGTAACA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (23 bp):
ATATATTTATTAATAATATATTA
Found at i:56987531 original size:20 final size:20
Alignment explanation
Indices: 56987479--56987531 Score: 54
Period size: 21 Copynumber: 2.6 Consensus size: 20
56987469 ATCTAATTTT
* *
56987479 TATTTATCTATTTACATTTC
1 TATTTATATATTTACATTCC
*
56987499 TGTTTATTATATTT-CTATTCC
1 TATTTA-TATATTTAC-ATTCC
56987520 TATTTATATATT
1 TATTTATATATT
56987532 AATATTATTT
Statistics
Matches: 27, Mismatches: 4, Indels: 4
0.77 0.11 0.11
Matches are distributed among these distances:
20 12 0.44
21 15 0.56
ACGTcount: A:0.25, C:0.11, G:0.02, T:0.62
Consensus pattern (20 bp):
TATTTATATATTTACATTCC
Found at i:56996295 original size:15 final size:15
Alignment explanation
Indices: 56996262--56996301 Score: 55
Period size: 15 Copynumber: 2.7 Consensus size: 15
56996252 TTATATCAAC
*
56996262 TAAATA-TTAAATTA
1 TAAATATTTTAATTA
*
56996276 CAAATATTTTAATTA
1 TAAATATTTTAATTA
56996291 TAAATATTTTA
1 TAAATATTTTA
56996302 TCATTTCATC
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
14 5 0.23
15 17 0.77
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (15 bp):
TAAATATTTTAATTA
Found at i:56998292 original size:24 final size:24
Alignment explanation
Indices: 56998247--56998294 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
56998237 TCTAGTTAAA
* * *
56998247 AAAATATCGAATTATATCAAAATT
1 AAAATATCAAATCAAATCAAAATT
*
56998271 AAAATATCAAATCAAATTAAAATT
1 AAAATATCAAATCAAATCAAAATT
56998295 TAACGTAATA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.58, C:0.08, G:0.02, T:0.31
Consensus pattern (24 bp):
AAAATATCAAATCAAATCAAAATT
Found at i:57000513 original size:28 final size:28
Alignment explanation
Indices: 57000479--57000534 Score: 103
Period size: 28 Copynumber: 2.0 Consensus size: 28
57000469 ATCAAAATCA
57000479 TTATAATTGTATTTCCTTTCCTAAATTG
1 TTATAATTGTATTTCCTTTCCTAAATTG
*
57000507 TTATAATTGTATTTCCTTTCCTTAATTG
1 TTATAATTGTATTTCCTTTCCTAAATTG
57000535 ATGAATATGG
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.23, C:0.14, G:0.07, T:0.55
Consensus pattern (28 bp):
TTATAATTGTATTTCCTTTCCTAAATTG
Found at i:57000929 original size:18 final size:18
Alignment explanation
Indices: 57000906--57000948 Score: 68
Period size: 18 Copynumber: 2.4 Consensus size: 18
57000896 GAATAGGTTT
* *
57000906 TTAATTAAACAAATTTAA
1 TTAATTAAAAAAATTAAA
57000924 TTAATTAAAAAAATTAAA
1 TTAATTAAAAAAATTAAA
57000942 TTAATTA
1 TTAATTA
57000949 CACCTTGAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.58, C:0.02, G:0.00, T:0.40
Consensus pattern (18 bp):
TTAATTAAAAAAATTAAA
Found at i:57007548 original size:17 final size:17
Alignment explanation
Indices: 57007516--57007547 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
57007506 TTTGACATAT
57007516 AAAAATCATATAAAAAG
1 AAAAATCATATAAAAAG
57007533 AAAAAT-ATATAAAAA
1 AAAAATCATATAAAAA
57007548 AAAGTTGATA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 9 0.60
17 6 0.40
ACGTcount: A:0.75, C:0.03, G:0.03, T:0.19
Consensus pattern (17 bp):
AAAAATCATATAAAAAG
Found at i:57008874 original size:6 final size:6
Alignment explanation
Indices: 57008865--57008921 Score: 62
Period size: 6 Copynumber: 9.3 Consensus size: 6
57008855 TAATTTAGTC
* * *
57008865 ATTTTT ATTTTT ATTTTT ATTTTAAT ATTTCT ATTTCT ATTTTT A-TTTA
1 ATTTTT ATTTTT ATTTTT ATTTT--T ATTTTT ATTTTT ATTTTT ATTTTT
57008914 ATTTTT AT
1 ATTTTT AT
57008922 ATTCTAATTT
Statistics
Matches: 44, Mismatches: 4, Indels: 6
0.81 0.07 0.11
Matches are distributed among these distances:
5 4 0.09
6 35 0.80
8 5 0.11
ACGTcount: A:0.23, C:0.04, G:0.00, T:0.74
Consensus pattern (6 bp):
ATTTTT
Found at i:57008893 original size:20 final size:20
Alignment explanation
Indices: 57008870--57008907 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
57008860 TAGTCATTTT
* *
57008870 TATTTTTATTTTTATTTTAA
1 TATTTCTATTTCTATTTTAA
57008890 TATTTCTATTTCTATTTT
1 TATTTCTATTTCTATTTT
57008908 TATTTAATTT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.21, C:0.05, G:0.00, T:0.74
Consensus pattern (20 bp):
TATTTCTATTTCTATTTTAA
Found at i:57008913 original size:25 final size:25
Alignment explanation
Indices: 57008867--57008933 Score: 84
Period size: 25 Copynumber: 2.6 Consensus size: 25
57008857 ATTTAGTCAT
*
57008867 TTTTATTTTTATTTTTATTTTAATA
1 TTTTATTTCTATTTTTATTTTAATA
57008892 TTTCTATTTCTATTTTTA-TTTAAT-
1 TTT-TATTTCTATTTTTATTTTAATA
57008916 TTTTATATTCTAATTTTT
1 TTTTAT-TTCT-ATTTTT
57008934 TTCGTTTGTT
Statistics
Matches: 38, Mismatches: 1, Indels: 6
0.84 0.02 0.13
Matches are distributed among these distances:
23 3 0.08
24 7 0.18
25 15 0.39
26 13 0.34
ACGTcount: A:0.22, C:0.04, G:0.00, T:0.73
Consensus pattern (25 bp):
TTTTATTTCTATTTTTATTTTAATA
Found at i:57008920 original size:32 final size:31
Alignment explanation
Indices: 57008865--57008924 Score: 77
Period size: 32 Copynumber: 1.9 Consensus size: 31
57008855 TAATTTAGTC
* *
57008865 ATTTTTATTTTTATTTTTATTTTAATATTTCT
1 ATTTCTATTTTTATTTATATTTT-ATATTTCT
57008897 ATTTCTATTTTTATTTA-ATTTTTATATT
1 ATTTCTATTTTTATTTATA-TTTTATATT
57008925 CTAATTTTTT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
31 6 0.24
32 19 0.76
ACGTcount: A:0.23, C:0.03, G:0.00, T:0.73
Consensus pattern (31 bp):
ATTTCTATTTTTATTTATATTTTATATTTCT
Found at i:57010549 original size:34 final size:34
Alignment explanation
Indices: 57010510--57010574 Score: 121
Period size: 34 Copynumber: 1.9 Consensus size: 34
57010500 GAGTTCAGAA
*
57010510 TCAGATATCTCACACAACAGTTGTAACGCCCCAG
1 TCAGATATCTCACACAACAATTGTAACGCCCCAG
57010544 TCAGATATCTCACACAACAATTGTAACGCCC
1 TCAGATATCTCACACAACAATTGTAACGCCC
57010575 TAAATTTCTT
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 30 1.00
ACGTcount: A:0.34, C:0.32, G:0.12, T:0.22
Consensus pattern (34 bp):
TCAGATATCTCACACAACAATTGTAACGCCCCAG
Found at i:57021841 original size:21 final size:21
Alignment explanation
Indices: 57021815--57021860 Score: 92
Period size: 21 Copynumber: 2.2 Consensus size: 21
57021805 ACTCGAATTA
57021815 TGAACCTTAAACCTTGAGCCT
1 TGAACCTTAAACCTTGAGCCT
57021836 TGAACCTTAAACCTTGAGCCT
1 TGAACCTTAAACCTTGAGCCT
57021857 TGAA
1 TGAA
57021861 ATTTAAGGTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.30, C:0.26, G:0.15, T:0.28
Consensus pattern (21 bp):
TGAACCTTAAACCTTGAGCCT
Found at i:57021857 original size:7 final size:7
Alignment explanation
Indices: 57021815--57021860 Score: 56
Period size: 7 Copynumber: 6.6 Consensus size: 7
57021805 ACTCGAATTA
57021815 TGAACCT
1 TGAACCT
*
57021822 TAAACCT
1 TGAACCT
*
57021829 TGAGCCT
1 TGAACCT
57021836 TGAACCT
1 TGAACCT
*
57021843 TAAACCT
1 TGAACCT
*
57021850 TGAGCCT
1 TGAACCT
57021857 TGAA
1 TGAA
57021861 ATTTAAGGTT
Statistics
Matches: 31, Mismatches: 8, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
7 31 1.00
ACGTcount: A:0.30, C:0.26, G:0.15, T:0.28
Consensus pattern (7 bp):
TGAACCT
Found at i:57021866 original size:21 final size:21
Alignment explanation
Indices: 57021815--57021866 Score: 77
Period size: 21 Copynumber: 2.5 Consensus size: 21
57021805 ACTCGAATTA
*
57021815 TGAACCTTAAACCTTGAGCCT
1 TGAAACTTAAACCTTGAGCCT
*
57021836 TGAACCTTAAACCTTGAGCCT
1 TGAAACTTAAACCTTGAGCCT
*
57021857 TGAAATTTAA
1 TGAAACTTAA
57021867 GGTTTGGATT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
21 29 1.00
ACGTcount: A:0.33, C:0.23, G:0.13, T:0.31
Consensus pattern (21 bp):
TGAAACTTAAACCTTGAGCCT
Found at i:57021959 original size:34 final size:34
Alignment explanation
Indices: 57021900--57021987 Score: 106
Period size: 34 Copynumber: 2.6 Consensus size: 34
57021890 TTAGGGTTTA
**
57021900 AGGTTTAA-GTTTTGAGTTTGGGGTTTGCGATTAT
1 AGGTTTAAGGTTTTGA-TTTAAGGTTTGCGATTAT
* * * *
57021934 GGGTTTATGGTTTTGATTTAAGGTTTGTGGTTAT
1 AGGTTTAAGGTTTTGATTTAAGGTTTGCGATTAT
57021968 AGGTTTAAGGTTTTGATTTA
1 AGGTTTAAGGTTTTGATTTA
57021988 GGATTCAATG
Statistics
Matches: 45, Mismatches: 8, Indels: 2
0.82 0.15 0.04
Matches are distributed among these distances:
34 38 0.84
35 7 0.16
ACGTcount: A:0.18, C:0.01, G:0.31, T:0.50
Consensus pattern (34 bp):
AGGTTTAAGGTTTTGATTTAAGGTTTGCGATTAT
Found at i:57022308 original size:23 final size:25
Alignment explanation
Indices: 57022259--57022312 Score: 65
Period size: 25 Copynumber: 2.2 Consensus size: 25
57022249 GGTGTGTGCC
* * *
57022259 TGGCCGTGTGCGAGACACAGCCGTG
1 TGGCCGTGCGCAAGACACAGACGTG
57022284 TGGCCGTGCGCAAGACAC-GACTGTG
1 TGGCCGTGCGCAAGACACAGAC-GTG
57022309 TGGC
1 TGGC
57022313 GGTGTAGGTG
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
24 2 0.08
25 23 0.92
ACGTcount: A:0.17, C:0.28, G:0.39, T:0.17
Consensus pattern (25 bp):
TGGCCGTGCGCAAGACACAGACGTG
Found at i:57023613 original size:20 final size:19
Alignment explanation
Indices: 57023546--57023619 Score: 69
Period size: 20 Copynumber: 3.7 Consensus size: 19
57023536 TCTGTGGTTA
*
57023546 TGGGTTTAGGGTTTTTATT
1 TGGGTTTAGGGTTTTGATT
* *
57023565 TAGAGTTT-GGGGTTTGTAGTT
1 T-GGGTTTAGGGTTTTG-A-TT
57023586 ATGGGTTTAGGGTTTTGATT
1 -TGGGTTTAGGGTTTTGATT
57023606 TGGGGTTTAGGGTT
1 T-GGGTTTAGGGTT
57023620 ATAAGTTTAA
Statistics
Matches: 44, Mismatches: 5, Indels: 11
0.73 0.08 0.18
Matches are distributed among these distances:
19 8 0.18
20 20 0.45
21 8 0.18
22 8 0.18
ACGTcount: A:0.12, C:0.00, G:0.38, T:0.50
Consensus pattern (19 bp):
TGGGTTTAGGGTTTTGATT
Found at i:57023619 original size:41 final size:41
Alignment explanation
Indices: 57023522--57023619 Score: 124
Period size: 41 Copynumber: 2.4 Consensus size: 41
57023512 AATATTTAAG
* * * * *
57023522 TTTAGATTTTAAGGTCTGTGGTTATGGGTTTAGGGTTTTTA
1 TTTAGAGTTTAGGGTTTGTAGTTATGGGTTTAGGGTTTTGA
*
57023563 TTTAGAGTTTGGGGTTTGTAGTTATGGGTTTAGGGTTTTGA
1 TTTAGAGTTTAGGGTTTGTAGTTATGGGTTTAGGGTTTTGA
* *
57023604 TTTGGGGTTTAGGGTT
1 TTTAGAGTTTAGGGTT
57023620 ATAAGTTTAA
Statistics
Matches: 48, Mismatches: 9, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
41 48 1.00
ACGTcount: A:0.14, C:0.01, G:0.35, T:0.50
Consensus pattern (41 bp):
TTTAGAGTTTAGGGTTTGTAGTTATGGGTTTAGGGTTTTGA
Found at i:57023621 original size:34 final size:34
Alignment explanation
Indices: 57023570--57023635 Score: 80
Period size: 34 Copynumber: 1.9 Consensus size: 34
57023560 TTATTTAGAG
** *
57023570 TTTGGGGTTTGTAGTTATGGGTTTAGGGTTTTGA
1 TTTGGGGTTTGTAGTTATAAGTTTAAGGTTTTGA
*
57023604 TTTGGGGTTTAG-GGTTATAAGTTTAAGGTTTT
1 TTTGGGGTTT-GTAGTTATAAGTTTAAGGTTTT
57023636 AGTTTAGGAT
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
34 26 0.96
35 1 0.04
ACGTcount: A:0.15, C:0.00, G:0.35, T:0.50
Consensus pattern (34 bp):
TTTGGGGTTTGTAGTTATAAGTTTAAGGTTTTGA
Found at i:57023730 original size:44 final size:43
Alignment explanation
Indices: 57023608--57023708 Score: 116
Period size: 42 Copynumber: 2.3 Consensus size: 43
57023598 TTTTGATTTG
* * * * *
57023608 GGGTTTAGGGTTATAAGTT-TAAGGTTTTAG-TTTAGGATTCAA
1 GGGTTCAGGGTTATGAGTTATGA-GTTTAAGATTTAAGATTCAA
*
57023650 GGGTTCAGGGTTATGAGTTATGAGTTTAAGGTTTAAGATTCAA
1 GGGTTCAGGGTTATGAGTTATGAGTTTAAGATTTAAGATTCAA
57023693 GGGTTCAAGGGTTATG
1 GGGTTC-AGGGTTATG
57023709 GGTTCGAGAT
Statistics
Matches: 51, Mismatches: 5, Indels: 4
0.85 0.08 0.07
Matches are distributed among these distances:
42 23 0.45
43 19 0.37
44 9 0.18
ACGTcount: A:0.26, C:0.04, G:0.32, T:0.39
Consensus pattern (43 bp):
GGGTTCAGGGTTATGAGTTATGAGTTTAAGATTTAAGATTCAA
Found at i:57023740 original size:21 final size:21
Alignment explanation
Indices: 57023716--57023758 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
57023706 ATGGGTTCGA
57023716 GATTTTAAATTTAAGGTTCAG
1 GATTTTAAATTTAAGGTTCAG
* **
57023737 GATTTTAAGTTTGGGGTTCAG
1 GATTTTAAATTTAAGGTTCAG
57023758 G
1 G
57023759 GTAAAAAATT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.26, C:0.05, G:0.28, T:0.42
Consensus pattern (21 bp):
GATTTTAAATTTAAGGTTCAG
Found at i:57029961 original size:39 final size:40
Alignment explanation
Indices: 57029916--57030083 Score: 106
Period size: 40 Copynumber: 4.2 Consensus size: 40
57029906 CGGGGTTTAG
* * *
57029916 CCGGATATAACCACTCGCA-CAAGGCCTTCGGGTCTTAAC
1 CCGGATATAACCACTAGCATAAAGGCCTTCGGGACTTAAC
*** * *
57029955 CCGGATATGGTCACTAGCATAAATGCCTTCGGGACTTAGC
1 CCGGATATAACCACTAGCATAAAGGCCTTCGGGACTTAAC
** * * * **
57029995 CCGGATATAGTCGCTAGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATATAACCACTAGCATAAAGGCCTTCGGGA-CTTAAC
* ** * * * *
57030035 CCGGATGTAGTCGCTTAGCACAAAAGCCTTCGGGACTTAGC
1 CCGGATATAACCAC-TAGCATAAAGGCCTTCGGGACTTAAC
57030076 CCGGATAT
1 CCGGATAT
57030084 CATTCGAGTA
Statistics
Matches: 109, Mismatches: 16, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
39 18 0.17
40 61 0.56
41 27 0.25
42 3 0.03
ACGTcount: A:0.25, C:0.27, G:0.24, T:0.24
Consensus pattern (40 bp):
CCGGATATAACCACTAGCATAAAGGCCTTCGGGACTTAAC
Found at i:57030066 original size:41 final size:40
Alignment explanation
Indices: 57029939--57030083 Score: 193
Period size: 40 Copynumber: 3.6 Consensus size: 40
57029929 CTCGCACAAG
* * * * *
57029939 GCCTTCGGGTCTTAACCCGGATATGGTCACTAGCATAAAT
1 GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
57029979 GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
1 GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
* * *
57030019 GCCTTC-GGATCTTAGTCCGGATGTAGTCGCTTAGCACAAAA
1 GCCTTCGGGA-CTTAGCCCGGATATAGTCGC-TAGCACAAAT
57030060 GCCTTCGGGACTTAGCCCGGATAT
1 GCCTTCGGGACTTAGCCCGGATAT
57030084 CATTCGAGTA
Statistics
Matches: 92, Mismatches: 10, Indels: 5
0.86 0.09 0.05
Matches are distributed among these distances:
39 3 0.03
40 59 0.64
41 27 0.29
42 3 0.03
ACGTcount: A:0.23, C:0.26, G:0.25, T:0.26
Consensus pattern (40 bp):
GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
Found at i:57031316 original size:38 final size:38
Alignment explanation
Indices: 57031274--57031387 Score: 219
Period size: 38 Copynumber: 3.0 Consensus size: 38
57031264 CAAGAACTCC
*
57031274 TTCCTCCTTCCTTAGAATTTTCGACCAAAAGAAATGAA
1 TTCCTCCTTCCTTAGAATTTTCGGCCAAAAGAAATGAA
57031312 TTCCTCCTTCCTTAGAATTTTCGGCCAAAAGAAATGAA
1 TTCCTCCTTCCTTAGAATTTTCGGCCAAAAGAAATGAA
57031350 TTCCTCCTTCCTTAGAATTTTCGGCCAAAAGAAATGAA
1 TTCCTCCTTCCTTAGAATTTTCGGCCAAAAGAAATGAA
57031388 AAAGGATGAA
Statistics
Matches: 75, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
38 75 1.00
ACGTcount: A:0.32, C:0.24, G:0.12, T:0.32
Consensus pattern (38 bp):
TTCCTCCTTCCTTAGAATTTTCGGCCAAAAGAAATGAA
Found at i:57032770 original size:3 final size:3
Alignment explanation
Indices: 57032762--57032802 Score: 82
Period size: 3 Copynumber: 13.7 Consensus size: 3
57032752 CACGATCCAA
57032762 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AA
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AA
57032803 ATAGAAACGA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 38 1.00
ACGTcount: A:0.68, C:0.00, G:0.32, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:57033916 original size:11 final size:12
Alignment explanation
Indices: 57033899--57033927 Score: 51
Period size: 11 Copynumber: 2.5 Consensus size: 12
57033889 TGAAAAACAC
57033899 ACAAAATAGAAT
1 ACAAAATAGAAT
57033911 -CAAAATAGAAT
1 ACAAAATAGAAT
57033922 ACAAAA
1 ACAAAA
57033928 AGTTGAAAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
11 11 0.69
12 5 0.31
ACGTcount: A:0.69, C:0.10, G:0.07, T:0.14
Consensus pattern (12 bp):
ACAAAATAGAAT
Found at i:57033990 original size:7 final size:7
Alignment explanation
Indices: 57033980--57034004 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
57033970 TTTTTGCCAA
57033980 AAAAAAT
1 AAAAAAT
57033987 AAAAAAT
1 AAAAAAT
57033994 AAAAAAT
1 AAAAAAT
57034001 AAAA
1 AAAA
57034005 GATCTTTTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.88, C:0.00, G:0.00, T:0.12
Consensus pattern (7 bp):
AAAAAAT
Found at i:57041783 original size:15 final size:15
Alignment explanation
Indices: 57041763--57041792 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
57041753 GAATTTCAAA
*
57041763 TTATTTTTATTATTT
1 TTATTTTTATAATTT
57041778 TTATTTTTATAATTT
1 TTATTTTTATAATTT
57041793 CAAAAAAATA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (15 bp):
TTATTTTTATAATTT
Found at i:57043687 original size:26 final size:26
Alignment explanation
Indices: 57043658--57043765 Score: 180
Period size: 26 Copynumber: 4.2 Consensus size: 26
57043648 TGGTACAAAT
57043658 TGATAATGGGTTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATATTCCA
*
57043684 TGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATATTCCA
*
57043710 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATATTCCA
* *
57043736 TGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATATTCCA
57043762 TGAT
1 TGAT
57043766 GGGCATTTCA
Statistics
Matches: 78, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
26 78 1.00
ACGTcount: A:0.33, C:0.07, G:0.23, T:0.36
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATATTCCA
Found at i:57045402 original size:27 final size:27
Alignment explanation
Indices: 57045362--57045454 Score: 114
Period size: 27 Copynumber: 3.4 Consensus size: 27
57045352 AAGAAACGTC
*
57045362 CTGGTGGCTTTGCCACAAATATCTGAT
1 CTGGTGGCTCTGCCACAAATATCTGAT
* * *
57045389 CCGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTCTGCCACAAATATCTGAT
* *
57045416 CTGGTGGCTCTGCCACGATTATCTGTAT
1 CTGGTGGCTCTGCCACAAATATCTG-AT
*
57045444 CTGGTGACTCT
1 CTGGTGGCTCT
57045455 ATCACATTAT
Statistics
Matches: 55, Mismatches: 10, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
27 44 0.80
28 11 0.20
ACGTcount: A:0.16, C:0.26, G:0.24, T:0.34
Consensus pattern (27 bp):
CTGGTGGCTCTGCCACAAATATCTGAT
Found at i:57045463 original size:27 final size:26
Alignment explanation
Indices: 57045381--57045473 Score: 96
Period size: 27 Copynumber: 3.5 Consensus size: 26
57045371 TTGCCACAAA
* * * *
57045381 TATCTGATCCGGTGGCTCTGCCACAT
1 TATCTGTTCTGGTGACTCTACCACAT
* *
57045407 ATATCTGTTCTGGTGGCTCTGCCACGAT
1 -TATCTGTTCTGGTGACTCTACCAC-AT
*
57045435 TATCTGTATCTGGTGACTCTATCACAT
1 TATCTGT-TCTGGTGACTCTACCACAT
57045462 TATCTGTTCTGG
1 TATCTGTTCTGG
57045474 CAGCCATGCT
Statistics
Matches: 59, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
26 5 0.08
27 38 0.64
28 16 0.27
ACGTcount: A:0.16, C:0.25, G:0.22, T:0.38
Consensus pattern (26 bp):
TATCTGTTCTGGTGACTCTACCACAT
Found at i:57045466 original size:54 final size:54
Alignment explanation
Indices: 57045362--57045473 Score: 145
Period size: 54 Copynumber: 2.1 Consensus size: 54
57045352 AAGAAACGTC
* * *
57045362 CTGGTGGCTTTGCCACAAATATCTGATCCGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTCTGCCACAAATATCTGATCCGGTGACTCTACCACATATATCTGTT
* * * *
57045416 CTGGTGGCTCTGCCACGATTATCTGTATCTGGTGACTCTATCACAT-TATCTGTT
1 CTGGTGGCTCTGCCACAAATATCTG-ATCCGGTGACTCTACCACATATATCTGTT
57045470 CTGG
1 CTGG
57045474 CAGCCATGCT
Statistics
Matches: 50, Mismatches: 7, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
54 34 0.68
55 16 0.32
ACGTcount: A:0.17, C:0.25, G:0.22, T:0.36
Consensus pattern (54 bp):
CTGGTGGCTCTGCCACAAATATCTGATCCGGTGACTCTACCACATATATCTGTT
Found at i:57046609 original size:10 final size:10
Alignment explanation
Indices: 57046590--57046649 Score: 95
Period size: 10 Copynumber: 6.0 Consensus size: 10
57046580 TGAAATTCTA
57046590 AAAGATAAAT
1 AAAGATAAAT
57046600 ACAA-ATAAAT
1 A-AAGATAAAT
*
57046610 AAAGATAATT
1 AAAGATAAAT
57046620 AAAGATAAAT
1 AAAGATAAAT
57046630 AAAGATAAAT
1 AAAGATAAAT
57046640 AAAGATAAAT
1 AAAGATAAAT
57046650 GAAAATGAAT
Statistics
Matches: 46, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
9 2 0.04
10 42 0.91
11 2 0.04
ACGTcount: A:0.68, C:0.02, G:0.08, T:0.22
Consensus pattern (10 bp):
AAAGATAAAT
Found at i:57047139 original size:38 final size:38
Alignment explanation
Indices: 57047097--57047230 Score: 130
Period size: 38 Copynumber: 3.5 Consensus size: 38
57047087 GATTCACGGG
*
57047097 CTAGTGCTGGGCACACATACATTTTTCGGATTCACCAA
1 CTAGTGCAGGGCACACATACATTTTTCGGATTCACCAA
* * **
57047135 CTAGTGCAGGGCACACATATATTCATT-GGATAT-A-TGA
1 CTAGTGCAGGGCACACATACATT-TTTCGGAT-TCACCAA
* * * *
57047172 CCAGTGCTGGGCACACACATACATTTGTCGAATTCACCAA
1 CTAGTGCAGGG--CACACATACATTTTTCGGATTCACCAA
57047212 CTAGTGCAGGGCACACATA
1 CTAGTGCAGGGCACACATA
57047231 TATTCATTGG
Statistics
Matches: 74, Mismatches: 15, Indels: 14
0.72 0.15 0.14
Matches are distributed among these distances:
37 10 0.14
38 36 0.49
39 18 0.24
40 10 0.14
ACGTcount: A:0.30, C:0.25, G:0.20, T:0.25
Consensus pattern (38 bp):
CTAGTGCAGGGCACACATACATTTTTCGGATTCACCAA
Found at i:57047207 original size:77 final size:78
Alignment explanation
Indices: 57047099--57047266 Score: 270
Period size: 77 Copynumber: 2.2 Consensus size: 78
57047089 TTCACGGGCT
* *
57047099 AGTGCTGGG--CACACATACATTTTTCGGATTCACCAACTAGTGCAGGGCACACATATATTCATT
1 AGTGCTGGGCACACACATACATTTGTCGAATTCACCAACTAGTGCAGGGCACACATATATTCATT
*
57047162 GGATATA-TGACC
66 GGATATACCGACC
57047174 AGTGCTGGGCACACACATACATTTGTCGAATTCACCAACTAGTGCAGGGCACACATATATTCATT
1 AGTGCTGGGCACACACATACATTTGTCGAATTCACCAACTAGTGCAGGGCACACATATATTCATT
57047239 GGATATACCGACC
66 GGATATACCGACC
* *
57047252 AATGCTGAGCACACA
1 AGTGCTGGGCACACA
57047267 TACAATTGTC
Statistics
Matches: 85, Mismatches: 5, Indels: 3
0.91 0.05 0.03
Matches are distributed among these distances:
75 9 0.11
77 59 0.69
78 17 0.20
ACGTcount: A:0.31, C:0.24, G:0.20, T:0.25
Consensus pattern (78 bp):
AGTGCTGGGCACACACATACATTTGTCGAATTCACCAACTAGTGCAGGGCACACATATATTCATT
GGATATACCGACC
Found at i:57047224 original size:40 final size:40
Alignment explanation
Indices: 57047108--57047228 Score: 112
Period size: 40 Copynumber: 3.1 Consensus size: 40
57047098 TAGTGCTGGG
* *
57047108 CACACATACATTTTTCGGATTCACCAACTAGTGCAGGGCA
1 CACACATACATTTGTCGAATTCACCAACTAGTGCAGGGCA
* * *
57047148 CACATATATTCA-TTG--GATATATGA-C--C-AGTGCTGGGCA
1 CACACATA--CATTTGTCGA-AT-TCACCAACTAGTGCAGGGCA
57047185 CACACATACATTTGTCGAATTCACCAACTAGTGCAGGGCA
1 CACACATACATTTGTCGAATTCACCAACTAGTGCAGGGCA
57047225 CACA
1 CACA
57047229 TATATTCATT
Statistics
Matches: 62, Mismatches: 8, Indels: 22
0.67 0.09 0.24
Matches are distributed among these distances:
35 2 0.03
36 5 0.08
37 20 0.32
38 3 0.05
39 2 0.03
40 24 0.39
41 4 0.06
42 2 0.03
ACGTcount: A:0.31, C:0.26, G:0.18, T:0.25
Consensus pattern (40 bp):
CACACATACATTTGTCGAATTCACCAACTAGTGCAGGGCA
Found at i:57047264 original size:38 final size:38
Alignment explanation
Indices: 57047099--57047268 Score: 127
Period size: 38 Copynumber: 4.4 Consensus size: 38
57047089 TTCACGGGCT
* * * *
57047099 AGTGCTGGGCACACATACATT-TTTCGGAT-TCACCAACT
1 AGTGCTGGGCACACATATATTCATT-GGATAT-ACCGACC
* *
57047137 AGTGCAGGGCACACATATATTCATTGGATATA-TGACC
1 AGTGCTGGGCACACATATATTCATTGGATATACCGACC
* * *
57047174 AGTGCTGGGCACACACATA--CATTTGTCGA-ATTCACCAACT
1 AGTGCTGGGCACACATATATTCA-TTG--GATA-T-ACCGACC
*
57047214 AGTGCAGGGCACACATATATTCATTGGATATACCGACC
1 AGTGCTGGGCACACATATATTCATTGGATATACCGACC
* *
57047252 AATGCTGAGCACACATA
1 AGTGCTGGGCACACATA
57047269 CAATTGTCAG
Statistics
Matches: 103, Mismatches: 18, Indels: 22
0.72 0.13 0.15
Matches are distributed among these distances:
35 2 0.02
36 3 0.03
37 20 0.19
38 46 0.45
39 7 0.07
40 20 0.19
41 3 0.03
42 2 0.02
ACGTcount: A:0.31, C:0.24, G:0.19, T:0.25
Consensus pattern (38 bp):
AGTGCTGGGCACACATATATTCATTGGATATACCGACC
Found at i:57051895 original size:26 final size:25
Alignment explanation
Indices: 57051861--57051909 Score: 71
Period size: 26 Copynumber: 1.9 Consensus size: 25
57051851 CTAATTTATA
*
57051861 TATTATTATTCTATGTGATTTATTGT
1 TATTATTATTCT-TATGATTTATTGT
*
57051887 TATTGTTATTCTTATGATTTATT
1 TATTATTATTCTTATGATTTATT
57051910 TCAAATTTTT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 10 0.48
26 11 0.52
ACGTcount: A:0.22, C:0.04, G:0.10, T:0.63
Consensus pattern (25 bp):
TATTATTATTCTTATGATTTATTGT
Found at i:57051971 original size:27 final size:28
Alignment explanation
Indices: 57051899--57051978 Score: 84
Period size: 26 Copynumber: 3.1 Consensus size: 28
57051889 TTGTTATTCT
* * *
57051899 TATG-ATTTAT-TTCAAATTTTTATATG
1 TATGAATTTATCTTTAAATGTTTATATA
57051925 TATGAA-TTA-CTTTAAA-GTTTATATA
1 TATGAATTTATCTTTAAATGTTTATATA
57051950 TAT-AATTTATCTTTAAATGTTT-TATA
1 TATGAATTTATCTTTAAATGTTTATATA
57051976 TAT
1 TAT
57051979 TATCAATCTC
Statistics
Matches: 46, Mismatches: 3, Indels: 10
0.78 0.05 0.17
Matches are distributed among these distances:
24 2 0.04
25 13 0.28
26 26 0.57
27 5 0.11
ACGTcount: A:0.35, C:0.04, G:0.06, T:0.55
Consensus pattern (28 bp):
TATGAATTTATCTTTAAATGTTTATATA
Found at i:57051987 original size:26 final size:26
Alignment explanation
Indices: 57051934--57051987 Score: 65
Period size: 26 Copynumber: 2.1 Consensus size: 26
57051924 GTATGAATTA
**
57051934 CTTTAAAGTTTATATATATAATTTAT
1 CTTTAAAGTTTATATATATAATCAAT
*
57051960 CTTTAAATGTTT-TATATATTATCAAT
1 CTTTAAA-GTTTATATATATAATCAAT
57051986 CT
1 CT
57051988 CAAATTCCTT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
26 20 0.83
27 4 0.17
ACGTcount: A:0.35, C:0.07, G:0.04, T:0.54
Consensus pattern (26 bp):
CTTTAAAGTTTATATATATAATCAAT
Found at i:57064772 original size:16 final size:16
Alignment explanation
Indices: 57064753--57064783 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
57064743 TATCATGTAA
57064753 TTTACATAATTAAAAT
1 TTTACATAATTAAAAT
*
57064769 TTTACATTATTAAAA
1 TTTACATAATTAAAA
57064784 AATTTAATTA
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:0.48, C:0.06, G:0.00, T:0.45
Consensus pattern (16 bp):
TTTACATAATTAAAAT
Found at i:57064793 original size:16 final size:16
Alignment explanation
Indices: 57064751--57064793 Score: 52
Period size: 16 Copynumber: 2.7 Consensus size: 16
57064741 TGTATCATGT
*
57064751 AATTTACATAATTAAA
1 AATTTACATTATTAAA
*
57064767 ATTTTACATTATTAAAA
1 AATTTACATTATT-AAA
57064784 AATTTA-ATTA
1 AATTTACATTA
57064794 ATTTATTTGT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
16 15 0.65
17 8 0.35
ACGTcount: A:0.51, C:0.05, G:0.00, T:0.44
Consensus pattern (16 bp):
AATTTACATTATTAAA
Found at i:57064977 original size:29 final size:30
Alignment explanation
Indices: 57064938--57064996 Score: 84
Period size: 29 Copynumber: 2.0 Consensus size: 30
57064928 TTTAGTTTAA
*
57064938 TGTGCAATTTTATATATG-AACTTTGATTT
1 TGTGCAATTTTATACATGAAACTTTGATTT
* *
57064967 TGTGCATTTTTATACATGAAATTTTGATTT
1 TGTGCAATTTTATACATGAAACTTTGATTT
57064997 GATCCAATTT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
29 16 0.62
30 10 0.38
ACGTcount: A:0.27, C:0.07, G:0.14, T:0.53
Consensus pattern (30 bp):
TGTGCAATTTTATACATGAAACTTTGATTT
Found at i:57066070 original size:12 final size:12
Alignment explanation
Indices: 57066053--57066077 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
57066043 GTTGAGGATT
57066053 AAATTTATTAAA
1 AAATTTATTAAA
57066065 AAATTTATTAAA
1 AAATTTATTAAA
57066077 A
1 A
57066078 TGTATAATAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (12 bp):
AAATTTATTAAA
Found at i:57067658 original size:49 final size:50
Alignment explanation
Indices: 57067591--57067691 Score: 123
Period size: 50 Copynumber: 2.0 Consensus size: 50
57067581 TTTAGTTATT
* * * * *
57067591 TTAGTTTAATTAATTAAGTTG-TTTTAATAGTCTTTAGTTATTTAAATAA
1 TTAGTTGAACTAACTAAGTTGTTTTTAATACTCTTTAGTTACTTAAATAA
* * *
57067640 TTAGTTGAACTAACTAAGTTGTTTTTAGTTCTCTTTAGTTGCTTAAATAA
1 TTAGTTGAACTAACTAAGTTGTTTTTAATACTCTTTAGTTACTTAAATAA
57067690 TT
1 TT
57067692 TCGGCAATTA
Statistics
Matches: 43, Mismatches: 8, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
49 18 0.42
50 25 0.58
ACGTcount: A:0.31, C:0.06, G:0.12, T:0.51
Consensus pattern (50 bp):
TTAGTTGAACTAACTAAGTTGTTTTTAATACTCTTTAGTTACTTAAATAA
Found at i:57067764 original size:16 final size:17
Alignment explanation
Indices: 57067734--57067765 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
57067724 TTGCTACAGC
57067734 CATTTAACTTGTTTAAA
1 CATTTAACTTGTTTAAA
57067751 CATTTAAC-TGTTTAA
1 CATTTAACTTGTTTAA
57067766 TTGTGCTTAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 7 0.47
17 8 0.53
ACGTcount: A:0.34, C:0.12, G:0.06, T:0.47
Consensus pattern (17 bp):
CATTTAACTTGTTTAAA
Found at i:57069894 original size:6 final size:6
Alignment explanation
Indices: 57069874--57069935 Score: 56
Period size: 6 Copynumber: 10.5 Consensus size: 6
57069864 ATAGAGCTTG
* ***
57069874 AAAG-A AAAGAG AAAGAA AAAGAA AAAGAA TGTGAA AAAG-A AAAGAA
1 AAAGAA AAAGAA AAAGAA AAAGAA AAAGAA AAAGAA AAAGAA AAAGAA
*
57069920 AATTGAA AAAGAA AAA
1 AA-AGAA AAAGAA AAA
57069936 AAGATTGAAG
Statistics
Matches: 44, Mismatches: 10, Indels: 5
0.75 0.17 0.08
Matches are distributed among these distances:
5 9 0.20
6 30 0.68
7 5 0.11
ACGTcount: A:0.74, C:0.00, G:0.19, T:0.06
Consensus pattern (6 bp):
AAAGAA
Found at i:57069899 original size:18 final size:16
Alignment explanation
Indices: 57069874--57069957 Score: 62
Period size: 18 Copynumber: 4.8 Consensus size: 16
57069864 ATAGAGCTTG
57069874 AAAGAAAAGAGAAAGAA
1 AAAGAAAAGA-AAAGAA
**
57069891 AAAGAAAAAGAATGTGAA
1 AAAG-AAAAGAA-AAGAA
57069909 AAAGAAAAGAAAATTGAA
1 AAAGAAAAGAAAA--GAA
57069927 AAAGAAAA-AAAGATTGAA
1 AAAGAAAAGAAA-A--GAA
57069945 GAAAGAAAAGAAA
1 -AAAGAAAAGAAA
57069958 GAGTACGAGA
Statistics
Matches: 56, Mismatches: 4, Indels: 11
0.79 0.06 0.15
Matches are distributed among these distances:
17 15 0.27
18 30 0.54
19 8 0.14
20 3 0.05
ACGTcount: A:0.73, C:0.00, G:0.20, T:0.07
Consensus pattern (16 bp):
AAAGAAAAGAAAAGAA
Found at i:57069947 original size:33 final size:34
Alignment explanation
Indices: 57069809--57069953 Score: 101
Period size: 36 Copynumber: 4.3 Consensus size: 34
57069799 GGAAGCGAGA
* * *
57069809 AAAAG-AAATTGATAGAAGAAAAAAAGAAATGATTAG
1 AAAAGAAAATTGA-AAAAGAAAAAAAG-ATTGA-AAG
*
57069845 AAAAG-AAATTG--AAAGAAAAATAGAGCTTGAAAG
1 AAAAGAAAATTGAAAAAGAAAAA-A-AGATTGAAAG
*
57069878 AAAAGAGAAA--GAAAAAGAAAAAGA-ATGTGAAAAAG
1 AAAAGA-AAATTGAAAAAGAAAAAAAGAT-TG--AAAG
57069913 AAAAGAAAATTGAAAAAGAAAAAAAGATTG-AAG
1 AAAAGAAAATTGAAAAAGAAAAAAAGATTGAAAG
57069946 -AAAGAAAA
1 AAAAGAAAA
57069954 GAAAGAGTAC
Statistics
Matches: 90, Mismatches: 7, Indels: 28
0.72 0.06 0.22
Matches are distributed among these distances:
32 9 0.10
33 22 0.24
34 7 0.08
35 24 0.27
36 26 0.29
37 2 0.02
ACGTcount: A:0.68, C:0.01, G:0.20, T:0.12
Consensus pattern (34 bp):
AAAAGAAAATTGAAAAAGAAAAAAAGATTGAAAG
Found at i:57071698 original size:48 final size:49
Alignment explanation
Indices: 57071637--57071730 Score: 145
Period size: 49 Copynumber: 1.9 Consensus size: 49
57071627 TTTAGTTATT
* * *
57071637 TTAGTTTAATTAATTAAATTG-TTTTAATTGTCTTTAGTTGTTTAAGTA
1 TTAGTTTAATTAATCAAATTGTTTTTAATTCTCTTTAGTTGCTTAAGTA
*
57071685 TTAGTTTAATTAATCAAGTTGTTTTTAATTCTCTTTAGTTGCTTAA
1 TTAGTTTAATTAATCAAATTGTTTTTAATTCTCTTTAGTTGCTTAA
57071731 ATAATTTCGG
Statistics
Matches: 41, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
48 19 0.46
49 22 0.54
ACGTcount: A:0.28, C:0.05, G:0.12, T:0.55
Consensus pattern (49 bp):
TTAGTTTAATTAATCAAATTGTTTTTAATTCTCTTTAGTTGCTTAAGTA
Found at i:57071801 original size:17 final size:17
Alignment explanation
Indices: 57071779--57071811 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
57071769 TTGCTACAGC
57071779 CATTTAACTTATTTAAA
1 CATTTAACTTATTTAAA
*
57071796 CATTTAACTTGTTTAA
1 CATTTAACTTATTTAA
57071812 TTGTGCTTAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.36, C:0.12, G:0.03, T:0.48
Consensus pattern (17 bp):
CATTTAACTTATTTAAA
Found at i:57071911 original size:30 final size:30
Alignment explanation
Indices: 57071875--57071932 Score: 91
Period size: 30 Copynumber: 1.9 Consensus size: 30
57071865 AAAGGGAGAA
57071875 ATGAATTAAA-GACCAGCAGCTGTTATGAAG
1 ATGAATTAAATG-CCAGCAGCTGTTATGAAG
*
57071905 ATGAATTAAATGCCAGTAGCTGTTATGA
1 ATGAATTAAATGCCAGCAGCTGTTATGA
57071933 GCTTATTAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
30 25 0.96
31 1 0.04
ACGTcount: A:0.38, C:0.12, G:0.22, T:0.28
Consensus pattern (30 bp):
ATGAATTAAATGCCAGCAGCTGTTATGAAG
Found at i:57076751 original size:12 final size:13
Alignment explanation
Indices: 57076728--57076756 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
57076718 ATAAAGGATC
57076728 ATAAAGTAAATAA
1 ATAAAGTAAATAA
57076741 ATAAA-TAAATAA
1 ATAAAGTAAATAA
57076753 ATAA
1 ATAA
57076757 TAGGAATAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 11 0.69
13 5 0.31
ACGTcount: A:0.72, C:0.00, G:0.03, T:0.24
Consensus pattern (13 bp):
ATAAAGTAAATAA
Found at i:57080811 original size:30 final size:30
Alignment explanation
Indices: 57080775--57080836 Score: 97
Period size: 30 Copynumber: 2.1 Consensus size: 30
57080765 GAGACAACCG
*
57080775 AAGGTAAATGGCATTGTCAAAAACACCATT
1 AAGGTAAATGGCATCGTCAAAAACACCATT
* *
57080805 AAGGTAAATGGCATCGTCAGAAACTCCATT
1 AAGGTAAATGGCATCGTCAAAAACACCATT
57080835 AA
1 AA
57080837 TCTTAAAGGT
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.42, C:0.18, G:0.18, T:0.23
Consensus pattern (30 bp):
AAGGTAAATGGCATCGTCAAAAACACCATT
Found at i:57087418 original size:27 final size:27
Alignment explanation
Indices: 57087388--57087439 Score: 77
Period size: 27 Copynumber: 1.9 Consensus size: 27
57087378 AGCACATCAG
*
57087388 GAAAAAAAAGCCTTTGTGGTGAACTAT
1 GAAAAAAAAGCCTTTGTAGTGAACTAT
* *
57087415 GAAAGAATAGCCTTTGTAGTGAACT
1 GAAAAAAAAGCCTTTGTAGTGAACT
57087440 CTGTGTAATA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 22 1.00
ACGTcount: A:0.38, C:0.12, G:0.23, T:0.27
Consensus pattern (27 bp):
GAAAAAAAAGCCTTTGTAGTGAACTAT
Found at i:57088596 original size:18 final size:18
Alignment explanation
Indices: 57088569--57088607 Score: 60
Period size: 18 Copynumber: 2.2 Consensus size: 18
57088559 GGTATGTCGG
* *
57088569 CCACATGAGCGTATGGGT
1 CCACACGAGCATATGGGT
57088587 CCACACGAGCATATGGGT
1 CCACACGAGCATATGGGT
57088605 CCA
1 CCA
57088608 TTATATTGAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.26, C:0.28, G:0.28, T:0.18
Consensus pattern (18 bp):
CCACACGAGCATATGGGT
Found at i:57090782 original size:2 final size:2
Alignment explanation
Indices: 57090770--57090804 Score: 61
Period size: 2 Copynumber: 17.0 Consensus size: 2
57090760 GTGGAGTGCC
57090770 AG AG TAG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG -AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
57090805 GTGGGACTAA
Statistics
Matches: 32, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
2 30 0.94
3 2 0.06
ACGTcount: A:0.49, C:0.00, G:0.49, T:0.03
Consensus pattern (2 bp):
AG
Found at i:57099889 original size:24 final size:23
Alignment explanation
Indices: 57099853--57099900 Score: 87
Period size: 24 Copynumber: 2.0 Consensus size: 23
57099843 TTTTAAAATG
57099853 AAAAATATATATATCAACATTGA
1 AAAAATATATATATCAACATTGA
57099876 AAAATATATATATATCAACATTGA
1 AAAA-ATATATATATCAACATTGA
57099900 A
1 A
57099901 GATTAAATTT
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
23 4 0.17
24 20 0.83
ACGTcount: A:0.56, C:0.08, G:0.04, T:0.31
Consensus pattern (23 bp):
AAAAATATATATATCAACATTGA
Found at i:57102952 original size:38 final size:38
Alignment explanation
Indices: 57102910--57102997 Score: 140
Period size: 38 Copynumber: 2.3 Consensus size: 38
57102900 CGTTCTAATT
* * *
57102910 TTCTTGAGGAAGTAGTAGTGATATTGGACATCTCATGA
1 TTCTTGAAGAACTAGTAGTGATATTGAACATCTCATGA
*
57102948 TTCTTGAAGAACTAGTAGTGATATTGAACATCTCATGG
1 TTCTTGAAGAACTAGTAGTGATATTGAACATCTCATGA
57102986 TTCTTGAAGAAC
1 TTCTTGAAGAAC
57102998 CACTGCATGA
Statistics
Matches: 46, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
38 46 1.00
ACGTcount: A:0.31, C:0.12, G:0.23, T:0.34
Consensus pattern (38 bp):
TTCTTGAAGAACTAGTAGTGATATTGAACATCTCATGA
Found at i:57110485 original size:51 final size:49
Alignment explanation
Indices: 57110419--57110552 Score: 196
Period size: 49 Copynumber: 2.7 Consensus size: 49
57110409 TGAGGTCGCA
57110419 TGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGAAAACTGTGATCACG
1 TGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGAAAA-T-TGATCACG
* * * * *
57110470 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTGGTCACG
1 TGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGAAAATTGATCACG
*
57110519 TGTGTAGTACTAAGTGCAGGCTACTATGCATACC
1 TGTGTAGTACTAAGTGCAGGCTACTATGCGTACC
57110553 AGATAGCTTT
Statistics
Matches: 75, Mismatches: 8, Indels: 2
0.88 0.09 0.02
Matches are distributed among these distances:
49 38 0.51
50 1 0.01
51 36 0.48
ACGTcount: A:0.26, C:0.20, G:0.26, T:0.28
Consensus pattern (49 bp):
TGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGAAAATTGATCACG
Found at i:57110537 original size:49 final size:51
Alignment explanation
Indices: 57110419--57110544 Score: 193
Period size: 51 Copynumber: 2.5 Consensus size: 51
57110409 TGAGGTCGCA
*
57110419 TGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGAAAACTGTGATCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGCGTACCCGAAAACTGTGATCACG
* * * *
57110470 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAA-T-TGGTCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGCGTACCCGAAAACTGTGATCACG
57110519 TGTGTAGTACTAAGTGCAGGCTACTA
1 TGTGTAGTACTAAGTGCAGGCTACTA
57110545 TGCATACCAG
Statistics
Matches: 70, Mismatches: 5, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
49 33 0.47
50 1 0.01
51 36 0.51
ACGTcount: A:0.26, C:0.19, G:0.27, T:0.28
Consensus pattern (51 bp):
TGTGTAGTACTAAGTGCAGGCTACTACGCGTACCCGAAAACTGTGATCACG
Found at i:57112763 original size:11 final size:11
Alignment explanation
Indices: 57112747--57112772 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
57112737 TTTTTAACCC
57112747 ACACGGCCTGG
1 ACACGGCCTGG
57112758 ACACGGCCTGG
1 ACACGGCCTGG
57112769 ACAC
1 ACAC
57112773 ACGGACGTGT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.23, C:0.38, G:0.31, T:0.08
Consensus pattern (11 bp):
ACACGGCCTGG
Found at i:57114075 original size:22 final size:21
Alignment explanation
Indices: 57114037--57114077 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 21
57114027 CTTTTTATTT
* *
57114037 TACTATTTTATTCTTCTTAAA
1 TACTATTCTATTATTCTTAAA
57114058 TACTATTGCTATTATTCTTA
1 TACTATT-CTATTATTCTTA
57114078 TTTAAAGCAT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 7 0.41
22 10 0.59
ACGTcount: A:0.27, C:0.15, G:0.02, T:0.56
Consensus pattern (21 bp):
TACTATTCTATTATTCTTAAA
Found at i:57115533 original size:6 final size:6
Alignment explanation
Indices: 57115518--57115588 Score: 99
Period size: 6 Copynumber: 11.5 Consensus size: 6
57115508 AGTCTAATTG
57115518 TTTTATT TTTTATT TTTTATT TTTTAT TTTTAT TTTTAT TTTTAT TTTTA-
1 TTTTA-T TTTTA-T TTTTA-T TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT
*
57115568 TTTTAT GTTTAT TTTTAT TTT
1 TTTTAT TTTTAT TTTTAT TTT
57115589 CTTAGACTTA
Statistics
Matches: 61, Mismatches: 2, Indels: 3
0.92 0.03 0.05
Matches are distributed among these distances:
5 5 0.08
6 37 0.61
7 19 0.31
ACGTcount: A:0.15, C:0.00, G:0.01, T:0.83
Consensus pattern (6 bp):
TTTTAT
Found at i:57118913 original size:24 final size:24
Alignment explanation
Indices: 57118885--57118933 Score: 98
Period size: 24 Copynumber: 2.0 Consensus size: 24
57118875 TAATTGAATG
57118885 TTGTATTGTATGTAATGTGATTTA
1 TTGTATTGTATGTAATGTGATTTA
57118909 TTGTATTGTATGTAATGTGATTTA
1 TTGTATTGTATGTAATGTGATTTA
57118933 T
1 T
57118934 GTTAATGTGC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.24, C:0.00, G:0.20, T:0.55
Consensus pattern (24 bp):
TTGTATTGTATGTAATGTGATTTA
Found at i:57119712 original size:96 final size:96
Alignment explanation
Indices: 57119548--57119740 Score: 377
Period size: 96 Copynumber: 2.0 Consensus size: 96
57119538 TAGGCCATTT
57119548 AGCCAAATGGATGGAAACATAACATTGTATGCCTAGATTTTTAATAAACAAGATTGGTAAGTTTA
1 AGCCAAATGGATGGAAACATAACATTGTATGCCTAGATTTTTAATAAACAAGATTGGTAAGTTTA
*
57119613 GTTTCTGTTATACGAACTTACTAAGCATGTA
66 GTTTCTGTTACACGAACTTACTAAGCATGTA
57119644 AGCCAAATGGATGGAAACATAACATTGTATGCCTAGATTTTTAATAAACAAGATTGGTAAGTTTA
1 AGCCAAATGGATGGAAACATAACATTGTATGCCTAGATTTTTAATAAACAAGATTGGTAAGTTTA
57119709 GTTTCTGTTACACGAACTTACTAAGCATGTA
66 GTTTCTGTTACACGAACTTACTAAGCATGTA
57119740 A
1 A
57119741 TACTTATTTT
Statistics
Matches: 96, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
96 96 1.00
ACGTcount: A:0.37, C:0.13, G:0.18, T:0.33
Consensus pattern (96 bp):
AGCCAAATGGATGGAAACATAACATTGTATGCCTAGATTTTTAATAAACAAGATTGGTAAGTTTA
GTTTCTGTTACACGAACTTACTAAGCATGTA
Found at i:57127922 original size:46 final size:46
Alignment explanation
Indices: 57127870--57128191 Score: 419
Period size: 46 Copynumber: 7.0 Consensus size: 46
57127860 AGTGTGCTCT
57127870 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
*
57127916 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAGC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* *
57127962 CTGATATGAAACGTGTAAGACCATGGTTGAAAGATACCATGGCAGC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
57128008 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* *** *** *
57128054 ATGACGGGAAATAAATAAGACCATGGTTGAAAGATACCATGGCAGC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* * **
57128100 GTGACATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* * ** * * * *
57128146 ATGACAAAAAAAATGAGTAAGACCATAGTTGAAAGACACTATGGCA
1 CTG--ATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCA
57128192 TCATGTCAAA
Statistics
Matches: 249, Mismatches: 25, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
46 215 0.86
48 34 0.14
ACGTcount: A:0.39, C:0.15, G:0.24, T:0.21
Consensus pattern (46 bp):
CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
Found at i:57143481 original size:40 final size:40
Alignment explanation
Indices: 57143381--57143605 Score: 285
Period size: 40 Copynumber: 5.7 Consensus size: 40
57143371 GCTCCTCGTT
* * ** *
57143381 CAAATGCCTTCGGGACATAGCCCGGATTTAGTAACTCACA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCA
*
57143421 C-AATGCCTTCGGGACATAACCCGGATTTAACAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCA
57143460 CAAATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCA
*
57143500 CGAATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCA
* * * * * *
57143540 CGAATGCCTTCGGAACTTAATCCGGATATATTC-ACTTAGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTA-ACAAC-TCGCA
*
57143581 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAACCCGGA
57143606 CAGCATTCAA
Statistics
Matches: 167, Mismatches: 15, Indels: 6
0.89 0.08 0.03
Matches are distributed among these distances:
39 35 0.21
40 124 0.74
41 8 0.05
ACGTcount: A:0.29, C:0.29, G:0.20, T:0.23
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCA
Found at i:57149031 original size:40 final size:40
Alignment explanation
Indices: 57148980--57149202 Score: 281
Period size: 40 Copynumber: 5.6 Consensus size: 40
57148970 TTGAATGCTG
* * * * *
57148980 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAG-TGAATATA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGC-GAGTTG-TTAAA
* *
57149020 TCCGGATTAAGTTCCGAAGGCATTCGTGCGAGTTGTTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAA
57149060 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAA
*
57149100 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTGTTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAA
* * **
57149140 TCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAA
* *
57149179 TCCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
57149203 TGAACGAGGA
Statistics
Matches: 166, Mismatches: 15, Indels: 5
0.89 0.08 0.03
Matches are distributed among these distances:
39 35 0.21
40 123 0.74
41 8 0.05
ACGTcount: A:0.23, C:0.20, G:0.29, T:0.29
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAA
Found at i:57149222 original size:79 final size:80
Alignment explanation
Indices: 57148980--57149237 Score: 234
Period size: 80 Copynumber: 3.2 Consensus size: 80
57148970 TTGAATGCTG
* * * * * * ** *
57148980 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATATCCGGATTAAGTTCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGC-GAGTTACTAAATCCGGGCTAAGTCCCGAAGGCATT
* ** ** *
57149044 CGTGCGAGTTGTTAAA
65 TGAACGAGGAGCTAAA
** *
57149060 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTAAGTCCCGAAGGCATTT
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAATCCGGGCTAAGTCCCGAAGGCATTT
** ** *
57149125 GTGCGAGTTGTTAAA
66 GAACGAGGAGCTAAA
* * *
57149140 TCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAATCCGGGCTATGTCCCGAAGGCATTT
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAATCCGGGCTAAGTCCCGAAGGCATTT
*
57149204 GAACGAGGAGCTATA
66 GAACGAGGAGCTAAA
*
57149219 TCC-GGTTAAATCCCGAAGG
1 TCCGGGTTAAGTCCCGAAGG
57149238 TACGTGATTT
Statistics
Matches: 153, Mismatches: 24, Indels: 4
0.85 0.13 0.02
Matches are distributed among these distances:
78 14 0.09
79 47 0.31
80 86 0.56
81 6 0.04
ACGTcount: A:0.24, C:0.20, G:0.29, T:0.28
Consensus pattern (80 bp):
TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAATCCGGGCTAAGTCCCGAAGGCATTT
GAACGAGGAGCTAAA
Found at i:57161243 original size:13 final size:13
Alignment explanation
Indices: 57161225--57161262 Score: 55
Period size: 13 Copynumber: 3.2 Consensus size: 13
57161215 AATTGATAAA
57161225 ATTTTCCTATCAT
1 ATTTTCCTATCAT
57161238 ATTTT-C-AT-AT
1 ATTTTCCTATCAT
57161248 ATTTTCCTATCAT
1 ATTTTCCTATCAT
57161261 AT
1 AT
57161263 AATTTTCAAG
Statistics
Matches: 22, Mismatches: 0, Indels: 6
0.79 0.00 0.21
Matches are distributed among these distances:
10 7 0.32
11 3 0.14
12 3 0.14
13 9 0.41
ACGTcount: A:0.26, C:0.18, G:0.00, T:0.55
Consensus pattern (13 bp):
ATTTTCCTATCAT
Found at i:57164110 original size:46 final size:45
Alignment explanation
Indices: 57164088--57164359 Score: 334
Period size: 46 Copynumber: 6.0 Consensus size: 45
57164078 TTTGTCATGT
** * *
57164088 TGCCATGGTATC-TCAACCATGGTCTTATTCATTTCATGTCACGC
1 TGCCATGGTATCTTCAACCATGGTCTTACACATTTCATATCAGGC
*** *** * *
57164132 TG-CATGGTATCTTTCAACCATGGTCTTTTATTTATTTCCCGTCATGT
1 TGCCATGGTATC-TTCAACCATGGTC--TTACACATTTCATATCAGGC
57164179 TGCCATGGTATCTTCAACCATGGTCTTACACATTTCATATCAGAGC
1 TGCCATGGTATCTTCAACCATGGTCTTACACATTTCATATCAG-GC
*
57164225 TG-CATGGTATCTTTCAACCATGGTCTTACACGTTTCATATCAGGC
1 TGCCATGGTATC-TTCAACCATGGTCTTACACATTTCATATCAGGC
*
57164270 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
1 TGCCATGGTATC-TTCAACCATGGTCTTACACATTTCATATCAGGC
57164316 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
1 TGCCATGGTATC-TTCAACCATGGTCTTACACATTTCATATCAG
57164360 AGAGCACACT
Statistics
Matches: 204, Mismatches: 16, Indels: 14
0.87 0.07 0.06
Matches are distributed among these distances:
43 9 0.04
44 2 0.01
45 36 0.18
46 118 0.58
47 30 0.15
48 9 0.04
ACGTcount: A:0.22, C:0.25, G:0.15, T:0.38
Consensus pattern (45 bp):
TGCCATGGTATCTTCAACCATGGTCTTACACATTTCATATCAGGC
Found at i:57164272 original size:138 final size:136
Alignment explanation
Indices: 57164091--57164361 Score: 384
Period size: 138 Copynumber: 2.0 Consensus size: 136
57164081 GTCATGTTGC
** *
57164091 CATGGTATCTCAACCATGGTCTTATTCATTTCATGTCACGCTG-CATGGTATCTTTCAACCATGG
1 CATGGTATCTCAACCATGGTCTTACACATTTCATATCACGCTGCCATGGTATCTTTCAACCATGG
*** * * *
57164155 TCTTTTATTTATTTCCCGTCATGTTGCCATGGTATC-TTCAACCATGGTCTTACACATTTCATAT
66 TC--TTACACATTTCACATCAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATAT
57164219 CAGAGCTG
129 CAGAGCTG
* *
57164227 CATGGTATCTTTCAACCATGGTCTTACACGTTTCATATCAGGCTGCCATGGTATCTTTCAACCAT
1 CATGGTATC--TCAACCATGGTCTTACACATTTCATATCACGCTGCCATGGTATCTTTCAACCAT
*
57164292 GGTCTTACACATTTCATATCAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATAT
64 GGTCTTACACATTTCACATCAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATAT
57164357 CAGAG
129 CAGAG
57164362 AGCACACTCC
Statistics
Matches: 119, Mismatches: 12, Indels: 6
0.87 0.09 0.04
Matches are distributed among these distances:
136 9 0.08
137 25 0.21
138 62 0.52
139 23 0.19
ACGTcount: A:0.23, C:0.24, G:0.15, T:0.37
Consensus pattern (136 bp):
CATGGTATCTCAACCATGGTCTTACACATTTCATATCACGCTGCCATGGTATCTTTCAACCATGG
TCTTACACATTTCACATCAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCA
GAGCTG
Found at i:57177298 original size:34 final size:33
Alignment explanation
Indices: 57177260--57177331 Score: 99
Period size: 33 Copynumber: 2.2 Consensus size: 33
57177250 GCCCTTTTTC
*
57177260 CAGTAACAATGGCAGTCTAGGCCTAAGCCCATTT
1 CAGTAACAATGCCAGT-TAGGCCTAAGCCCATTT
* * *
57177294 CAGTAATAGTGCCAGTTGGGCCTAAGCCCATTT
1 CAGTAACAATGCCAGTTAGGCCTAAGCCCATTT
57177327 CAGTA
1 CAGTA
57177332 CAGTATGCAA
Statistics
Matches: 34, Mismatches: 4, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
33 21 0.62
34 13 0.38
ACGTcount: A:0.28, C:0.25, G:0.22, T:0.25
Consensus pattern (33 bp):
CAGTAACAATGCCAGTTAGGCCTAAGCCCATTT
Found at i:57197787 original size:76 final size:76
Alignment explanation
Indices: 57197679--57197940 Score: 287
Period size: 76 Copynumber: 3.4 Consensus size: 76
57197669 CAAACAATAG
* * * *
57197679 GTGTACCCTGCACTAGTCGGATAAACTGACAATTTTTTGTACCTAGCGCTAGTTAG-ATAACTTG
1 GTGTGCCCAGCACTAGTCGGATAAACTGACAATATTTTGTGCCTAGCGCTAGTTAGAATAAC-TG
57197743 ACGATATCAAAT
65 ACGATATCAAAT
* * * * * * *
57197755 GTGTGTCCAGCACTAG-CTGGATAAACCGACAATGTTTTGCGCCCAGCGCTAGTCAGAAAAACTG
1 GTGTGCCCAGCACTAGTC-GGATAAACTGACAATATTTTGTGCCTAGCGCTAGTTAGAATAACTG
57197819 ACGATATCAAAT
65 ACGATATCAAAT
* * * ** * * *
57197831 GTATGCCCAACACTAGTCAGATAAACTGACAATAAATTGTGCCTAGCACTAG-TCGAATAAACCG
1 GTGTGCCCAGCACTAGTCGGATAAACTGACAATATTTTGTGCCTAGCGCTAGTTAGAAT-AACTG
57197895 ACGATATCAAAT
65 ACGATATCAAAT
* *
57197907 GTGTGCCCAGCACTAGTCGAATAAACTGAAAATA
1 GTGTGCCCAGCACTAGTCGGATAAACTGACAATA
57197941 CATACATAAT
Statistics
Matches: 152, Mismatches: 30, Indels: 8
0.80 0.16 0.04
Matches are distributed among these distances:
75 4 0.03
76 143 0.94
77 5 0.03
ACGTcount: A:0.34, C:0.22, G:0.19, T:0.25
Consensus pattern (76 bp):
GTGTGCCCAGCACTAGTCGGATAAACTGACAATATTTTGTGCCTAGCGCTAGTTAGAATAACTGA
CGATATCAAAT
Found at i:57197847 original size:40 final size:40
Alignment explanation
Indices: 57197795--57197935 Score: 177
Period size: 40 Copynumber: 3.6 Consensus size: 40
57197785 AATGTTTTGC
* *
57197795 GCCCAGCGCTAGTCAGAA-AAACTGACGATATCAAATGTAT
1 GCCCAGCACTAGTC-GAATAAACTGACGATATCAAATGTGT
*
57197835 GCCCAACACTAGTC-AGATAAACTGAC-A-AT-AAAT-TGT
1 GCCCAGCACTAGTCGA-ATAAACTGACGATATCAAATGTGT
* *
57197871 GCCTAGCACTAGTCGAATAAACCGACGATATCAAATGTGT
1 GCCCAGCACTAGTCGAATAAACTGACGATATCAAATGTGT
57197911 GCCCAGCACTAGTCGAATAAACTGA
1 GCCCAGCACTAGTCGAATAAACTGA
57197936 AAATACATAC
Statistics
Matches: 86, Mismatches: 8, Indels: 14
0.80 0.07 0.13
Matches are distributed among these distances:
36 23 0.27
37 6 0.07
38 5 0.06
39 6 0.07
40 46 0.53
ACGTcount: A:0.38, C:0.23, G:0.18, T:0.21
Consensus pattern (40 bp):
GCCCAGCACTAGTCGAATAAACTGACGATATCAAATGTGT
Found at i:57197891 original size:36 final size:37
Alignment explanation
Indices: 57197751--57197940 Score: 147
Period size: 40 Copynumber: 5.0 Consensus size: 37
57197741 TGACGATATC
* * *
57197751 AAATGTGTGTCCAGCACTAG-CTGGATAAACCGACAAT
1 AAATGTGTGCCCAGCACTAGTC-GAATAAACTGACAAT
** * * *
57197788 -GTTTTGCGCCCAGCGCTAGTCAGAA-AAACTGACGATAT
1 AAATGTGTGCCCAGCACTAGTC-GAATAAACTGAC-A-AT
* *
57197826 CAAATGTATGCCCAACACTAGTC-AGATAAACTGACAAT
1 -AAATGTGTGCCCAGCACTAGTCGA-ATAAACTGACAAT
* *
57197864 AAAT-TGTGCCTAGCACTAGTCGAATAAACCGACGATAT
1 AAATGTGTGCCCAGCACTAGTCGAATAAACTGAC-A-AT
*
57197902 CAAATGTGTGCCCAGCACTAGTCGAATAAACTGAAAAT
1 -AAATGTGTGCCCAGCACTAGTCGAATAAACTGACAAT
57197940 A
1 A
57197941 CATACATAAT
Statistics
Matches: 118, Mismatches: 23, Indels: 24
0.72 0.14 0.15
Matches are distributed among these distances:
36 43 0.36
37 11 0.09
38 9 0.08
39 7 0.06
40 48 0.41
ACGTcount: A:0.37, C:0.22, G:0.19, T:0.22
Consensus pattern (37 bp):
AAATGTGTGCCCAGCACTAGTCGAATAAACTGACAAT
Found at i:57201820 original size:37 final size:37
Alignment explanation
Indices: 57201759--57201941 Score: 316
Period size: 37 Copynumber: 5.0 Consensus size: 37
57201749 TACGTATGAT
* *
57201759 CACTTATCAC-TTG-TCCCTGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
*
57201794 CACCTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
57201831 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
57201868 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
*
57201905 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
57201942 TAAAGCTATC
Statistics
Matches: 141, Mismatches: 5, Indels: 2
0.95 0.03 0.01
Matches are distributed among these distances:
35 9 0.06
36 3 0.02
37 129 0.91
ACGTcount: A:0.25, C:0.21, G:0.16, T:0.38
Consensus pattern (37 bp):
CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
Found at i:57201958 original size:46 final size:46
Alignment explanation
Indices: 57201905--57202173 Score: 322
Period size: 46 Copynumber: 5.6 Consensus size: 46
57201895 TAAGTGTAGC
* **
57201905 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGCTAAAGCTAT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
* * *
57201951 CACTTATCACTTTGTCTCTTGATCGGATAAGTATAGCCGAAGCTAT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
*
57201997 CACTTTTCACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
1 CACTTATCAC---T---TTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
*
57202049 CACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCGAAGCTAT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
* ** *
57202095 TACTTATCACTTTCCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
1 CACTTATCAC--T----TTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
57202147 CACTTATCACTTTGTCACTTGATCAGA
1 CACTTATCACTTTGTCACTTGATCAGA
57202174 AGTACTCAAA
Statistics
Matches: 195, Mismatches: 16, Indels: 24
0.83 0.07 0.10
Matches are distributed among these distances:
46 110 0.56
48 1 0.01
49 2 0.01
50 1 0.01
52 81 0.42
ACGTcount: A:0.28, C:0.22, G:0.15, T:0.35
Consensus pattern (46 bp):
CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
Found at i:57202024 original size:52 final size:52
Alignment explanation
Indices: 57201948--57202167 Score: 281
Period size: 52 Copynumber: 4.3 Consensus size: 52
57201938 TAGCTAAAGC
* * *
57201948 TATCACTTATCACTTTGTCTCTTGATCGGATAAGTATAGCCGAAGCTATCACT
1 TATCACTTTTCAC-TTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
* *
57202001 TTTCACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACT
1 TATCACTTTTCACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
*
57202053 TATCAC---T---TTGTCACTTGATCAGATAAGTATAGCCGAAGCTATTACT
1 TATCACTTTTCACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
* * ** *
57202099 TATCACTTTCCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACT
1 TATCACTTTTCACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
57202151 TATCACTTTGTCACTTG
1 TATCACTTT-TCACTTG
57202168 ATCAGAAGTA
Statistics
Matches: 145, Mismatches: 15, Indels: 14
0.83 0.09 0.08
Matches are distributed among these distances:
46 43 0.30
49 1 0.01
52 84 0.58
53 17 0.12
ACGTcount: A:0.27, C:0.23, G:0.15, T:0.36
Consensus pattern (52 bp):
TATCACTTTTCACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
Found at i:57202085 original size:98 final size:98
Alignment explanation
Indices: 57201905--57202173 Score: 439
Period size: 98 Copynumber: 2.7 Consensus size: 98
57201895 TAAGTGTAGC
* * *
57201905 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGCTAAAGCTATCACTTATCACTTTGTCTCT
1 CACTTTTCAC-TTGTCACTTGATCAGATAAGTGTAGCTAAAGCTATCACTTATCACTTTGTCACT
* *
57201970 TGATCGGATAAGTATAGCCGAAGCTATCACTTTT
65 TGATCAGATAAGTATAGCCGAAGCTATCACTTAT
**
57202004 CACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACTTATCACTTTGTCACTT
1 CACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTATCACTTATCACTTTGTCACTT
*
57202069 GATCAGATAAGTATAGCCGAAGCTATTACTTAT
66 GATCAGATAAGTATAGCCGAAGCTATCACTTAT
* *
57202102 CACTTTCCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTGTCACTT
1 CACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTATCACTTATCACTTTGTCACTT
57202167 GATCAGA
66 GATCAGA
57202174 AGTACTCAAA
Statistics
Matches: 158, Mismatches: 12, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
98 149 0.94
99 9 0.06
ACGTcount: A:0.28, C:0.22, G:0.15, T:0.35
Consensus pattern (98 bp):
CACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTATCACTTATCACTTTGTCACTT
GATCAGATAAGTATAGCCGAAGCTATCACTTAT
Found at i:57205348 original size:49 final size:49
Alignment explanation
Indices: 57205293--57205438 Score: 220
Period size: 49 Copynumber: 3.0 Consensus size: 49
57205283 TTCGTTTTCT
* *
57205293 CGATGCCATAGTCCAACTATGGTCTTACACGTAATCACAAATCACATAC
1 CGATGCCATAGCCCAACTATGGTCTTACACGAAATCACAAATCACATAC
* * *
57205342 CGATGCCATAGCCCAACTACGGTCTTACACGAAATCACATATCACTTAC
1 CGATGCCATAGCCCAACTATGGTCTTACACGAAATCACAAATCACATAC
* *
57205391 CGATGCCATAGCCCAGCTATGGTCTTACACGGAATCACATAATCACAT
1 CGATGCCATAGCCCAACTATGGTCTTACACGAAATCACA-AATCACAT
57205439 GTTCACATGT
Statistics
Matches: 86, Mismatches: 10, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
49 80 0.93
50 6 0.07
ACGTcount: A:0.33, C:0.30, G:0.14, T:0.23
Consensus pattern (49 bp):
CGATGCCATAGCCCAACTATGGTCTTACACGAAATCACAAATCACATAC
Found at i:57206750 original size:37 final size:37
Alignment explanation
Indices: 57206689--57206871 Score: 307
Period size: 37 Copynumber: 5.0 Consensus size: 37
57206679 TACGTATGAT
* *
57206689 CACTTATCAC-TTG-TCCCTGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
* *
57206724 CACCTATCACTTTGTTTCTTGATCAGATAATTGTAGC
1 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
57206761 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
57206798 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
*
57206835 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
57206872 TAAAGCTATC
Statistics
Matches: 139, Mismatches: 7, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
35 9 0.06
36 3 0.02
37 127 0.91
ACGTcount: A:0.25, C:0.21, G:0.16, T:0.38
Consensus pattern (37 bp):
CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
Found at i:57206844 original size:111 final size:115
Alignment explanation
Indices: 57206689--57206918 Score: 319
Period size: 111 Copynumber: 2.0 Consensus size: 115
57206679 TACGTATGAT
*
57206689 CACTTATCACTTGTCCCTGATCAGATAAGTGTAGCCACCTATCACTTTGTTTCTTGATCAGATAA
1 CACTTATCACTTGTCCCTGATCAGATAAGTGTAGCCACCTATCACTTTGTCTCTTGATCAGATAA
* *
57206754 -T-T-G-T-AGC-CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
66 GTGTAGCTAAGCTCACTTATCACTTTGTCTCTTGATCAGATAAGTATAGC
* * *
57206798 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGCCACTTATCACTTTGTCTCTTGATCAGAT
1 CACTTATCAC-TTG-TCCCTGATCAGATAAGTGTAGCCACCTATCACTTTGTCTCTTGATCAGAT
57206863 AAGTGTAGCTAAAGCTATCACTTATCACTTTGTCTCTTGATCAGATAAGTATAGC
64 AAGTGTAGCT-AAGC--TCACTTATCACTTTGTCTCTTGATCAGATAAGTATAGC
57206918 C
1 C
57206919 GAAGCTATCA
Statistics
Matches: 104, Mismatches: 6, Indels: 11
0.86 0.05 0.09
Matches are distributed among these distances:
109 10 0.10
110 3 0.03
111 48 0.46
112 1 0.01
113 1 0.01
114 1 0.01
115 1 0.01
117 3 0.03
120 36 0.35
ACGTcount: A:0.26, C:0.21, G:0.15, T:0.38
Consensus pattern (115 bp):
CACTTATCACTTGTCCCTGATCAGATAAGTGTAGCCACCTATCACTTTGTCTCTTGATCAGATAA
GTGTAGCTAAGCTCACTTATCACTTTGTCTCTTGATCAGATAAGTATAGC
Found at i:57206888 original size:46 final size:46
Alignment explanation
Indices: 57206835--57207103 Score: 331
Period size: 46 Copynumber: 5.6 Consensus size: 46
57206825 TAAGTGTAGC
* **
57206835 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGCTAAAGCTAT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
* *
57206881 CACTTATCACTTTGTCTCTTGATCAGATAAGTATAGCCGAAGCTAT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
*
57206927 CACTTTTCACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
1 CACTTATCAC---T---TTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
*
57206979 CACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCGAAGCTAT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
* ** *
57207025 TACTTATCACTTTCCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
1 CACTTATCAC--T----TTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
57207077 CACTTATCACTTTGTCACTTGATCAGA
1 CACTTATCACTTTGTCACTTGATCAGA
57207104 AGTACTCAAA
Statistics
Matches: 197, Mismatches: 14, Indels: 24
0.84 0.06 0.10
Matches are distributed among these distances:
46 111 0.56
48 1 0.01
49 2 0.01
50 1 0.01
52 82 0.42
ACGTcount: A:0.28, C:0.22, G:0.14, T:0.35
Consensus pattern (46 bp):
CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
Found at i:57206954 original size:52 final size:52
Alignment explanation
Indices: 57206878--57207097 Score: 290
Period size: 52 Copynumber: 4.3 Consensus size: 52
57206868 TAGCTAAAGC
* *
57206878 TATCACTTATCACTTTGTCTCTTGATCAGATAAGTATAGCCGAAGCTATCACT
1 TATCACTTTTCAC-TTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
* *
57206931 TTTCACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACT
1 TATCACTTTTCACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
*
57206983 TATCAC---T---TTGTCACTTGATCAGATAAGTATAGCCGAAGCTATTACT
1 TATCACTTTTCACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
* * ** *
57207029 TATCACTTTCCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACT
1 TATCACTTTTCACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
57207081 TATCACTTTGTCACTTG
1 TATCACTTT-TCACTTG
57207098 ATCAGAAGTA
Statistics
Matches: 146, Mismatches: 14, Indels: 14
0.84 0.08 0.08
Matches are distributed among these distances:
46 43 0.29
49 1 0.01
52 85 0.58
53 17 0.12
ACGTcount: A:0.27, C:0.23, G:0.14, T:0.36
Consensus pattern (52 bp):
TATCACTTTTCACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
Found at i:57207015 original size:98 final size:98
Alignment explanation
Indices: 57206835--57207103 Score: 448
Period size: 98 Copynumber: 2.7 Consensus size: 98
57206825 TAAGTGTAGC
* * *
57206835 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGCTAAAGCTATCACTTATCACTTTGTCTCT
1 CACTTTTCAC-TTGTCACTTGATCAGATAAGTGTAGCTAAAGCTATCACTTATCACTTTGTCACT
*
57206900 TGATCAGATAAGTATAGCCGAAGCTATCACTTTT
65 TGATCAGATAAGTATAGCCGAAGCTATCACTTAT
**
57206934 CACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACTTATCACTTTGTCACTT
1 CACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTATCACTTATCACTTTGTCACTT
*
57206999 GATCAGATAAGTATAGCCGAAGCTATTACTTAT
66 GATCAGATAAGTATAGCCGAAGCTATCACTTAT
* *
57207032 CACTTTCCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTGTCACTT
1 CACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTATCACTTATCACTTTGTCACTT
57207097 GATCAGA
66 GATCAGA
57207104 AGTACTCAAA
Statistics
Matches: 159, Mismatches: 11, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
98 150 0.94
99 9 0.06
ACGTcount: A:0.28, C:0.22, G:0.14, T:0.35
Consensus pattern (98 bp):
CACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTATCACTTATCACTTTGTCACTT
GATCAGATAAGTATAGCCGAAGCTATCACTTAT
Found at i:57225389 original size:40 final size:40
Alignment explanation
Indices: 57225289--57225513 Score: 285
Period size: 40 Copynumber: 5.7 Consensus size: 40
57225279 GCTCCTCGTT
* * ** *
57225289 CAAATGCCTTCGGGACATAGCCCGGATTTAGTAACTCACA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCA
*
57225329 C-AATGCCTTCGGGACATAACCCGGATTTAACAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCA
57225368 CAAATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCA
*
57225408 CGAATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCA
* * * * * *
57225448 CGAATGCCTTCGGAACTTAATCCGGATATATTC-ACTTAGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTA-ACAAC-TCGCA
*
57225489 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAACCCGGA
57225514 CAGCATTCAA
Statistics
Matches: 167, Mismatches: 15, Indels: 6
0.89 0.08 0.03
Matches are distributed among these distances:
39 35 0.21
40 124 0.74
41 8 0.05
ACGTcount: A:0.29, C:0.29, G:0.20, T:0.23
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCA
Found at i:57233270 original size:40 final size:40
Alignment explanation
Indices: 57233170--57233394 Score: 285
Period size: 40 Copynumber: 5.7 Consensus size: 40
57233160 GCTCCTCGTT
* * ** *
57233170 CAAATGCCTTCGGGACATAGCCCGGATTTAGTAACTCACA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCA
*
57233210 C-AATGCCTTCGGGACATAACCCGGATTTAACAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCA
57233249 CAAATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCA
*
57233289 CGAATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCA
* * * * * *
57233329 CGAATGCCTTCGGAACTTAATCCGGATATATTC-ACTTAGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTA-ACAAC-TCGCA
*
57233370 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAACCCGGA
57233395 CAGCATTCAA
Statistics
Matches: 167, Mismatches: 15, Indels: 6
0.89 0.08 0.03
Matches are distributed among these distances:
39 35 0.21
40 124 0.74
41 8 0.05
ACGTcount: A:0.29, C:0.29, G:0.20, T:0.23
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCA
Found at i:57245249 original size:18 final size:19
Alignment explanation
Indices: 57245212--57245249 Score: 51
Period size: 20 Copynumber: 2.0 Consensus size: 19
57245202 TAGATGTTTG
*
57245212 GAGCCATTAGAAGTGAATTA
1 GAGCCATTACAAG-GAATTA
57245232 GAGCCATTACAA-GAATTA
1 GAGCCATTACAAGGAATTA
57245250 ATTTTGGGCT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
18 6 0.35
20 11 0.65
ACGTcount: A:0.42, C:0.13, G:0.21, T:0.24
Consensus pattern (19 bp):
GAGCCATTACAAGGAATTA
Found at i:57247096 original size:15 final size:14
Alignment explanation
Indices: 57247063--57247099 Score: 51
Period size: 15 Copynumber: 2.7 Consensus size: 14
57247053 TTATATCATG
57247063 TATATATT-TTTTT
1 TATATATTATTTTT
57247076 TA-ATATTATATTTT
1 TATATATTAT-TTTT
57247090 TATATATTAT
1 TATATATTAT
57247100 GTATATATTG
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
12 5 0.24
13 3 0.14
14 6 0.29
15 7 0.33
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (14 bp):
TATATATTATTTTT
Found at i:57247162 original size:129 final size:127
Alignment explanation
Indices: 57247029--57247268 Score: 353
Period size: 129 Copynumber: 1.9 Consensus size: 127
57247019 ATTATACTCC
*
57247029 ATATTATGCACATGTATATTAATAT-TATATCATGTATATATTTTTTTTAATATTATA-TTTTTA
1 ATATTATGCACA--TAT-TTAATATATATATCATGTATATA-TATTTTTAATATTATATTTTTTA
*
57247092 -TATATTATGTATATAT-TGTTAATATCATATTATTCATATATTTTATTATGTATTTTTTTTATA
62 GTATATTATGTATATATCT-TTAATATCATATTATTCATACATTTT-TTATGTATTTTTTTTATA
57247155 ACT
125 ACT
* *
57247158 ATATTATGTACATATTTCATATATATATCATGTATATATATTTTTAATATTATATTTTTTATGTA
1 ATATTATGCACATATTTAATATATATATCATGTATATATATTTTTAATATTATATTTTTTA-GTA
57247223 TATTATGTATATATCTTTAATATCATATTATTCATACATTTTTTAT
65 TATTATGTATATATCTTTAATATCATATTATTCATACATTTTTTAT
57247269 ATTATCCCAT
Statistics
Matches: 102, Mismatches: 4, Indels: 11
0.87 0.03 0.09
Matches are distributed among these distances:
126 21 0.21
127 24 0.24
128 4 0.04
129 52 0.51
130 1 0.01
ACGTcount: A:0.34, C:0.05, G:0.04, T:0.57
Consensus pattern (127 bp):
ATATTATGCACATATTTAATATATATATCATGTATATATATTTTTAATATTATATTTTTTAGTAT
ATTATGTATATATCTTTAATATCATATTATTCATACATTTTTTATGTATTTTTTTTATAACT
Found at i:57247270 original size:25 final size:24
Alignment explanation
Indices: 57247211--57247270 Score: 59
Period size: 25 Copynumber: 2.5 Consensus size: 24
57247201 TTAATATTAT
* *
57247211 ATTTTTTATGTATATTATGTATAT
1 ATTTTTTATATATATTATGTATAC
* *
57247235 ATCTTTAATATCATATTAT-TCATAC
1 ATTTTTTATAT-ATATTATGT-ATAC
57247260 ATTTTTTATAT
1 ATTTTTTATAT
57247271 TATCCCATGT
Statistics
Matches: 28, Mismatches: 6, Indels: 3
0.76 0.16 0.08
Matches are distributed among these distances:
24 9 0.32
25 19 0.68
ACGTcount: A:0.32, C:0.07, G:0.03, T:0.58
Consensus pattern (24 bp):
ATTTTTTATATATATTATGTATAC
Found at i:57247416 original size:27 final size:27
Alignment explanation
Indices: 57247385--57247437 Score: 79
Period size: 27 Copynumber: 2.0 Consensus size: 27
57247375 ATTATGTATA
*
57247385 TATTTTTAATACTACGTATATATTTTT
1 TATTTCTAATACTACGTATATATTTTT
* *
57247412 TATTTCTATTATTACGTATATATTTT
1 TATTTCTAATACTACGTATATATTTT
57247438 AATACATATA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.28, C:0.08, G:0.04, T:0.60
Consensus pattern (27 bp):
TATTTCTAATACTACGTATATATTTTT
Found at i:57247646 original size:15 final size:15
Alignment explanation
Indices: 57247628--57247659 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
57247618 TTATTATCAT
57247628 TTTATACTATTATTA
1 TTTATACTATTATTA
*
57247643 TTTATATTATTATTA
1 TTTATACTATTATTA
57247658 TT
1 TT
57247660 ATCATTTTCG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.31, C:0.03, G:0.00, T:0.66
Consensus pattern (15 bp):
TTTATACTATTATTA
Found at i:57261436 original size:27 final size:27
Alignment explanation
Indices: 57261398--57261451 Score: 108
Period size: 27 Copynumber: 2.0 Consensus size: 27
57261388 TTAGTTGACA
57261398 ACTTGAACTTGTGTTATTCCAAATATT
1 ACTTGAACTTGTGTTATTCCAAATATT
57261425 ACTTGAACTTGTGTTATTCCAAATATT
1 ACTTGAACTTGTGTTATTCCAAATATT
57261452 CATTTTCTTT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.30, C:0.15, G:0.11, T:0.44
Consensus pattern (27 bp):
ACTTGAACTTGTGTTATTCCAAATATT
Found at i:57266031 original size:18 final size:18
Alignment explanation
Indices: 57266008--57266125 Score: 60
Period size: 18 Copynumber: 6.6 Consensus size: 18
57265998 TTTATCAGTT
57266008 TCATTCAGTAACATTCAA
1 TCATTCAGTAACATTCAA
* *
57266026 TCATTCAATAACAATT-AG
1 TCATTCAGTAAC-ATTCAA
* * * *
57266044 TCGTTCAATAATATTCAG
1 TCATTCAGTAACATTCAA
* ** * *
57266062 TCACTCTTTAACAGTCAG
1 TCATTCAGTAACATTCAA
* *
57266080 TTATTCAGTAACGA-TAAA
1 TCATTCAGTAAC-ATTCAA
* *
57266098 TTATTCAGTAACAGTCAA
1 TCATTCAGTAACATTCAA
*
57266116 TTATTCAGTA
1 TCATTCAGTA
57266126 GCAGTTAGTT
Statistics
Matches: 79, Mismatches: 17, Indels: 8
0.76 0.16 0.08
Matches are distributed among these distances:
17 4 0.05
18 71 0.90
19 4 0.05
ACGTcount: A:0.37, C:0.18, G:0.09, T:0.36
Consensus pattern (18 bp):
TCATTCAGTAACATTCAA
Found at i:57266130 original size:18 final size:18
Alignment explanation
Indices: 57266070--57266179 Score: 132
Period size: 18 Copynumber: 6.1 Consensus size: 18
57266060 AGTCACTCTT
57266070 TAACAGTCAGTTATTCAG
1 TAACAGTCAGTTATTCAG
* *
57266088 TAAC-GATAAATTATTCAG
1 TAACAG-TCAGTTATTCAG
*
57266106 TAACAGTCAATTATTCAG
1 TAACAGTCAGTTATTCAG
* * *
57266124 TAGCAGTTAGTTATCCAG
1 TAACAGTCAGTTATTCAG
*
57266142 TAACAGTCAGTTATTCAA
1 TAACAGTCAGTTATTCAG
*
57266160 TAGCAGTCAGTTATTCAG
1 TAACAGTCAGTTATTCAG
57266178 TA
1 TA
57266180 CCTTTATTTA
Statistics
Matches: 77, Mismatches: 13, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
17 1 0.01
18 75 0.97
19 1 0.01
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.34
Consensus pattern (18 bp):
TAACAGTCAGTTATTCAG
Found at i:57266714 original size:18 final size:18
Alignment explanation
Indices: 57266672--57266716 Score: 76
Period size: 17 Copynumber: 2.6 Consensus size: 18
57266662 GAAAAATGAG
57266672 AATTTTT-AAAACACGAA
1 AATTTTTGAAAACACGAA
57266689 AA-TTTTGAAAACACGAA
1 AATTTTTGAAAACACGAA
57266706 AATTTTTGAAA
1 AATTTTTGAAA
57266717 CCTGAATTTT
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
16 4 0.15
17 14 0.54
18 8 0.31
ACGTcount: A:0.51, C:0.09, G:0.09, T:0.31
Consensus pattern (18 bp):
AATTTTTGAAAACACGAA
Found at i:57267279 original size:15 final size:17
Alignment explanation
Indices: 57267259--57267290 Score: 50
Period size: 15 Copynumber: 2.0 Consensus size: 17
57267249 TTAGGAAACG
57267259 TACATAA-A-AAATATA
1 TACATAATATAAATATA
57267274 TACATAATATAAATATA
1 TACATAATATAAATATA
57267291 ATATATACAG
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
15 7 0.47
16 1 0.07
17 7 0.47
ACGTcount: A:0.62, C:0.06, G:0.00, T:0.31
Consensus pattern (17 bp):
TACATAATATAAATATA
Found at i:57267525 original size:25 final size:25
Alignment explanation
Indices: 57267474--57267525 Score: 61
Period size: 25 Copynumber: 2.1 Consensus size: 25
57267464 TAATATAATA
*
57267474 ATAACAATATACAAAAATAATAGTG
1 ATAACAATATACAAAAATAACAGTG
* *
57267499 ATAACAATATTACATATATAACA-TG
1 ATAACAATA-TACAAAAATAACAGTG
57267524 AT
1 AT
57267526 TAATATTTAA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
25 13 0.57
26 10 0.43
ACGTcount: A:0.56, C:0.10, G:0.06, T:0.29
Consensus pattern (25 bp):
ATAACAATATACAAAAATAACAGTG
Found at i:57268328 original size:20 final size:19
Alignment explanation
Indices: 57268303--57268346 Score: 79
Period size: 19 Copynumber: 2.3 Consensus size: 19
57268293 GGTTTCTTGG
*
57268303 TTTTTTTTGGGGGTTAGGT
1 TTTTTTTTTGGGGTTAGGT
57268322 TTTTTTTTTGGGGTTAGGT
1 TTTTTTTTTGGGGTTAGGT
57268341 TTTTTT
1 TTTTTT
57268347 GGGGGGGCTT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 24 1.00
ACGTcount: A:0.05, C:0.00, G:0.30, T:0.66
Consensus pattern (19 bp):
TTTTTTTTTGGGGTTAGGT
Found at i:57268353 original size:19 final size:18
Alignment explanation
Indices: 57268301--57268351 Score: 77
Period size: 19 Copynumber: 2.8 Consensus size: 18
57268291 AGGGTTTCTT
57268301 GGTTTTTTTTGGGGGTTA
1 GGTTTTTTTTGGGGGTTA
*
57268319 GGTTTTTTTTTTGGGGTTA
1 GG-TTTTTTTTGGGGGTTA
57268338 GG-TTTTTTTGGGGG
1 GGTTTTTTTTGGGGG
57268352 GGCTTAATGG
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
17 11 0.37
18 2 0.07
19 17 0.57
ACGTcount: A:0.04, C:0.00, G:0.39, T:0.57
Consensus pattern (18 bp):
GGTTTTTTTTGGGGGTTA
Found at i:57271275 original size:16 final size:16
Alignment explanation
Indices: 57271254--57271286 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
57271244 GTTTTCCCAC
57271254 TTTCTTTAT-TTTCTTT
1 TTTCTTT-TCTTTCTTT
57271270 TTTCTTTTCTTTCTTT
1 TTTCTTTTCTTTCTTT
57271286 T
1 T
57271287 GTTTCGGTTC
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 1 0.06
16 15 0.94
ACGTcount: A:0.03, C:0.15, G:0.00, T:0.82
Consensus pattern (16 bp):
TTTCTTTTCTTTCTTT
Found at i:57273374 original size:31 final size:34
Alignment explanation
Indices: 57273318--57273381 Score: 89
Period size: 34 Copynumber: 1.9 Consensus size: 34
57273308 ATTAATTATT
57273318 ATTATTATAATTATAATACGATTACTT-TTAATGA
1 ATTATTATAATTATAATAC-ATTACTTCTTAATGA
*
57273352 ATTATTATAATTAT-ATA-TTTACTTCTTAAT
1 ATTATTATAATTATAATACATTACTTCTTAAT
57273382 ATATAAATTT
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
31 6 0.21
32 5 0.18
33 3 0.11
34 14 0.50
ACGTcount: A:0.39, C:0.06, G:0.03, T:0.52
Consensus pattern (34 bp):
ATTATTATAATTATAATACATTACTTCTTAATGA
Found at i:57278524 original size:10 final size:10
Alignment explanation
Indices: 57278504--57278562 Score: 52
Period size: 10 Copynumber: 6.1 Consensus size: 10
57278494 TTTAAGATTC
57278504 AAAAAAGTTAT
1 AAAAAA-TTAT
57278515 AAAAAATTAT
1 AAAAAATTAT
**
57278525 TTAAAATT-T
1 AAAAAATTAT
57278534 -AAAAATTAT
1 AAAAAATTAT
*
57278543 -TAAAATTAT
1 AAAAAATTAT
*
57278552 AAAAAAATAT
1 AAAAAATTAT
57278562 A
1 A
57278563 TTTTTTAAGA
Statistics
Matches: 40, Mismatches: 6, Indels: 5
0.78 0.12 0.10
Matches are distributed among these distances:
8 6 0.15
9 10 0.25
10 18 0.45
11 6 0.15
ACGTcount: A:0.64, C:0.00, G:0.02, T:0.34
Consensus pattern (10 bp):
AAAAAATTAT
Found at i:57278540 original size:8 final size:9
Alignment explanation
Indices: 57278505--57278556 Score: 52
Period size: 9 Copynumber: 5.6 Consensus size: 9
57278495 TTAAGATTCA
57278505 AAAAAGTTAT
1 AAAAA-TTAT
57278515 AAAAAATTATT
1 -AAAAATTA-T
*
57278526 TAAAATT-T
1 AAAAATTAT
57278534 AAAAATTAT
1 AAAAATTAT
*
57278543 TAAAATTAT
1 AAAAATTAT
57278552 AAAAA
1 AAAAA
57278557 AATATATTTT
Statistics
Matches: 35, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
8 7 0.20
9 13 0.37
10 9 0.26
11 6 0.17
ACGTcount: A:0.63, C:0.00, G:0.02, T:0.35
Consensus pattern (9 bp):
AAAAATTAT
Found at i:57278545 original size:17 final size:19
Alignment explanation
Indices: 57278506--57278556 Score: 70
Period size: 18 Copynumber: 2.7 Consensus size: 19
57278496 TAAGATTCAA
57278506 AAAAGTTATAAAAAATTATTT
1 AAAA-TTAT-AAAAATTATTT
57278527 AAAATT-TAAAAATTA-TT
1 AAAATTATAAAAATTATTT
57278544 AAAATTATAAAAA
1 AAAATTATAAAAA
57278557 AATATATTTT
Statistics
Matches: 29, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
17 8 0.28
18 14 0.48
19 1 0.03
20 2 0.07
21 4 0.14
ACGTcount: A:0.63, C:0.00, G:0.02, T:0.35
Consensus pattern (19 bp):
AAAATTATAAAAATTATTT
Done.