Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: AWWV01016046.1 Corchorus capsularis cultivar CVL-1 contig16067, 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: 100175
ACGTcount: A:0.32, C:0.19, G:0.18, T:0.31
Found at i:1141 original size:55 final size:55
Alignment explanation
Indices: 563--1128 Score: 725
Period size: 55 Copynumber: 10.3 Consensus size: 55
553 AGTAAATTGA
* * ** * * *
563 TAATCAAGAGTCAAGATAATAGTAAAAAGAAAATCAGTAAATAAGTGTAAAA-AGAT
1 TAATC-AGAGTTAAGGTAATAGTAATCAGTAAATCAGTAATTAAGT-AAAAAGAGAT
* *
619 TAATCAGAGTTAAAGTAATAGTAATCAGTAAATCAGTAATTGAGTAAAAAGAGAT
1 TAATCAGAGTTAAGGTAATAGTAATCAGTAAATCAGTAATTAAGTAAAAAGAGAT
* * * * *
674 GAGTCAAAGTTAA--T-A-A-TAATAAGTAAGTCAGTAATTAAAGTAAAAA-AGGAT
1 TAATCAGAGTTAAGGTAATAGTAATCAGTAAATCAGTAATT-AAGTAAAAAGA-GAT
* * * * * * *
725 TAATCAGAGTAAAAGTGATAGTAATTAGTAAATCAGTAATTAATTAAGAGGAGAT
1 TAATCAGAGTTAAGGTAATAGTAATCAGTAAATCAGTAATTAAGTAAAAAGAGAT
*
780 TAATCAGAGTTAAGGTAATAGTAATCAGTAAATCAGTAAATAAGTAAAAAG-GAT
1 TAATCAGAGTTAAGGTAATAGTAATCAGTAAATCAGTAATTAAGTAAAAAGAGAT
* * * * *
834 TAATCAGAGTAAAAGTGATAGTAATTAGTAAATCAGTAATTGAGTAAAAAAGAGAT
1 TAATCAGAGTTAAGGTAATAGTAATCAGTAAATCAGTAATTAAGT-AAAAAGAGAT
*
890 TAATCAGAGTTAAGGTAATAGTAATCAGTAAATCAGTAATTAAGTAAAAAGGGAT
1 TAATCAGAGTTAAGGTAATAGTAATCAGTAAATCAGTAATTAAGTAAAAAGAGAT
945 TAATCAGAGTTAAGGTAATAGTAATCAGTAAATCAGTAATTAAGTAAAAAGAGAT
1 TAATCAGAGTTAAGGTAATAGTAATCAGTAAATCAGTAATTAAGTAAAAAGAGAT
* *
1000 TAATCAGAGTTAAGGAAATTGTAATCAGTAAATCAGTAATTAAGTAAAAAGAGAT
1 TAATCAGAGTTAAGGTAATAGTAATCAGTAAATCAGTAATTAAGTAAAAAGAGAT
* *
1055 TAATCAGAGTTAAGGAAATAGTAATCAGTAAATCAGTAATTAAGTGAAAAGAGAT
1 TAATCAGAGTTAAGGTAATAGTAATCAGTAAATCAGTAATTAAGTAAAAAGAGAT
* *
1110 TAATCAGAATCAAGGTAAT
1 TAATCAGAGTTAAGGTAAT
1129 GGTGATAAGT
Statistics
Matches: 447, Mismatches: 52, Indels: 23
0.86 0.10 0.04
Matches are distributed among these distances:
50 19 0.04
51 21 0.05
52 1 0.00
53 2 0.00
54 47 0.11
55 290 0.65
56 67 0.15
ACGTcount: A:0.50, C:0.05, G:0.19, T:0.26
Consensus pattern (55 bp):
TAATCAGAGTTAAGGTAATAGTAATCAGTAAATCAGTAATTAAGTAAAAAGAGAT
Found at i:1232 original size:72 final size:71
Alignment explanation
Indices: 1146--1409 Score: 222
Period size: 72 Copynumber: 3.7 Consensus size: 71
1136 AGTAAAATTG
* *
1146 ATCAGTAAAGTGATAGTTAAGAATCAAGGTAATATTAATCAGTAAAATTAGTAA-AGCAGTAAAA
1 ATCAGTAAATTGATAATTAAGAATCAAGGTAATATTAATCAGT--AATTAGTAATAGCAGTAAAA
1210 AGATAGTA
64 AGATAGTA
* * * * * *
1218 ATTAGTAAATTGATAATTAAGAACCAAGGTAATAGTAATTAGGCAATCAGTAATTAG--GTAAAA
1 ATCAGTAAATTGATAATTAAGAATCAAGGTAATATTAATCA-GTAATTAGTAA-TAGCAGTAAAA
1281 GAGAT--TA
64 -AGATAGTA
* * * *
1288 ATCAGTAAATTGATAATTAAGAGTCAAGGTAAGAGATTAAACAGTAATTA--AAGAGTCTAGGT-
1 ATCAGTAAATTGATAATTAAGAATCAAGGT-A-ATATTAATCAGTAATTAGTAATAG-C-A-GTA
1350 -AAAGATAGTA
61 AAAAGATAGTA
* * *
1360 ATCAGTAAATTGATAATTAAGAGTCAAGGTAAGAAATTAACCAGTAATTA
1 ATCAGTAAATTGATAATTAAGAATCAAGGT-A-ATATTAATCAGTAATTA
1410 AGGAGTCAAG
Statistics
Matches: 159, Mismatches: 20, Indels: 26
0.78 0.10 0.13
Matches are distributed among these distances:
68 2 0.01
69 2 0.01
70 33 0.21
71 22 0.14
72 95 0.60
73 5 0.03
ACGTcount: A:0.48, C:0.06, G:0.19, T:0.27
Consensus pattern (71 bp):
ATCAGTAAATTGATAATTAAGAATCAAGGTAATATTAATCAGTAATTAGTAATAGCAGTAAAAAG
ATAGTA
Found at i:1323 original size:39 final size:39
Alignment explanation
Indices: 1279--1406 Score: 146
Period size: 39 Copynumber: 3.4 Consensus size: 39
1269 AATTAGGTAA
1279 AAGAGATTAATCAGTAAATTGATAATTAAGAGTCAAGGT
1 AAGAGATTAATCAGTAAATTGATAATTAAGAGTCAAGGT
* *
1318 AAGAGATTAAACAGT-AA-T--T-A--AAGAGTCTAGGT
1 AAGAGATTAATCAGTAAATTGATAATTAAGAGTCAAGGT
1350 AA-AGATAGTAATCAGTAAATTGATAATTAAGAGTCAAGGT
1 AAGAGAT--TAATCAGTAAATTGATAATTAAGAGTCAAGGT
* *
1390 AAGAAATTAACCAGTAA
1 AAGAGATTAATCAGTAA
1407 TTAAGGAGTC
Statistics
Matches: 73, Mismatches: 6, Indels: 20
0.74 0.06 0.20
Matches are distributed among these distances:
31 4 0.05
32 13 0.18
33 7 0.10
34 3 0.04
35 2 0.03
37 2 0.03
38 3 0.04
39 23 0.32
40 13 0.18
41 3 0.04
ACGTcount: A:0.48, C:0.06, G:0.20, T:0.26
Consensus pattern (39 bp):
AAGAGATTAATCAGTAAATTGATAATTAAGAGTCAAGGT
Found at i:1344 original size:32 final size:32
Alignment explanation
Indices: 1301--1423 Score: 106
Period size: 32 Copynumber: 3.6 Consensus size: 32
1291 AGTAAATTGA
1301 TAATT-AAGAGTCAAGGTAAGAGATTAAACAG
1 TAATTAAAGAGTCAAGGTAAGAGATTAAACAG
* *
1332 TAATTAAAGAGTCTAGGTAA-AGATAGTAATCAG
1 TAATTAAAGAGTCAAGGTAAGAGAT--TAAACAG
* *
1365 TAAATTGATAATTAAGAGTCAAGGTAAGAAATTAACCAG
1 T-AA-T--T-A--AAGAGTCAAGGTAAGAGATTAAACAG
*
1404 TAATTAAGGAGTCAAGGTAA
1 TAATTAAAGAGTCAAGGTAA
1424 AAATAGTAAT
Statistics
Matches: 75, Mismatches: 6, Indels: 21
0.74 0.06 0.21
Matches are distributed among these distances:
31 9 0.12
32 26 0.35
33 7 0.09
34 3 0.04
35 2 0.03
37 2 0.03
38 3 0.04
39 7 0.09
40 13 0.17
41 3 0.04
ACGTcount: A:0.47, C:0.07, G:0.21, T:0.25
Consensus pattern (32 bp):
TAATTAAAGAGTCAAGGTAAGAGATTAAACAG
Found at i:1410 original size:72 final size:72
Alignment explanation
Indices: 1272--1451 Score: 270
Period size: 72 Copynumber: 2.5 Consensus size: 72
1262 AATCAGTAAT
* * *
1272 TAGGTAAAAGAGATTAATCAGTAAATTGATAATTAAGAGTCAAGGTAAGAGATTAAACAGTAATT
1 TAGGT-AAAGATAGTAATCAGTAAATTGATAATTAAGAGTCAAGGTAAGAAATTAAACAGTAATT
1337 AAAGAGTC
65 AAAGAGTC
*
1345 TAGGTAAAGATAGTAATCAGTAAATTGATAATTAAGAGTCAAGGTAAGAAATTAACCAGTAATTA
1 TAGGTAAAGATAGTAATCAGTAAATTGATAATTAAGAGTCAAGGTAAGAAATTAAACAGTAATTA
*
1410 AGGAGTC
66 AAGAGTC
* * * *
1417 AAGGTAAAAATAGTAATCAGAAAATCGATAATTAA
1 TAGGTAAAGATAGTAATCAGTAAATTGATAATTAA
1452 TGGTTAAAGT
Statistics
Matches: 98, Mismatches: 9, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
72 93 0.95
73 5 0.05
ACGTcount: A:0.49, C:0.06, G:0.19, T:0.26
Consensus pattern (72 bp):
TAGGTAAAGATAGTAATCAGTAAATTGATAATTAAGAGTCAAGGTAAGAAATTAAACAGTAATTA
AAGAGTC
Found at i:1908 original size:27 final size:27
Alignment explanation
Indices: 1878--1944 Score: 93
Period size: 26 Copynumber: 2.5 Consensus size: 27
1868 GAGAGAGTAA
1878 AAAAAATGGTAATTAAAGTA-AAAGAGT
1 AAAAAATGGTAATT-AAGTACAAAGAGT
* *
1905 AAAATATGGTAA-TCAGTACAAAGAGT
1 AAAAAATGGTAATTAAGTACAAAGAGT
1931 AAAAAATGGTAATT
1 AAAAAATGGTAATT
1945 GGCAATCAAA
Statistics
Matches: 35, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
25 4 0.11
26 19 0.54
27 12 0.34
ACGTcount: A:0.55, C:0.03, G:0.18, T:0.24
Consensus pattern (27 bp):
AAAAAATGGTAATTAAGTACAAAGAGT
Found at i:8568 original size:16 final size:16
Alignment explanation
Indices: 8547--8605 Score: 75
Period size: 16 Copynumber: 3.7 Consensus size: 16
8537 CATTTTCGGA
8547 TTCGGGTTTGGGTTTT
1 TTCGGGTTTGGGTTTT
*
8563 TTCGGGTTTGAGCTTTT
1 TTCGGGTTTG-GGTTTT
* *
8580 TT-GGATTCGGGTTTT
1 TTCGGGTTTGGGTTTT
8595 TTCGGGTTTGG
1 TTCGGGTTTGG
8606 ATTCGAACGG
Statistics
Matches: 35, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
15 7 0.20
16 21 0.60
17 7 0.20
ACGTcount: A:0.03, C:0.08, G:0.36, T:0.53
Consensus pattern (16 bp):
TTCGGGTTTGGGTTTT
Found at i:10710 original size:21 final size:21
Alignment explanation
Indices: 10686--10725 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
10676 CCACTTTTAG
10686 ACAAAATCAGCAA-AATGGAGA
1 ACAAAATC-GCAACAATGGAGA
*
10707 ACAAACTCGCAACAATGGA
1 ACAAAATCGCAACAATGGA
10726 AGAGGATAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 4 0.24
21 13 0.76
ACGTcount: A:0.53, C:0.20, G:0.17, T:0.10
Consensus pattern (21 bp):
ACAAAATCGCAACAATGGAGA
Found at i:16208 original size:28 final size:27
Alignment explanation
Indices: 16177--16491 Score: 206
Period size: 28 Copynumber: 11.0 Consensus size: 27
16167 AAATTTTCAT
16177 AGGCATACAGCCTAAGTAAAATCTCTAA
1 AGGCATACAGCCTAAGTAAAAT-TCTAA
* * * *
16205 AGGCGTACGGCCTATA-TAAAAATTTTCAT
1 AGGCATACAGCCTA-AGT-AAAATTCT-AA
16234 AGGCATACAGCCTAAGTAAAATTTCTAA
1 AGGCATACAGCCTAAGTAAAA-TTCTAA
* * *
16262 AGGCATACGGCCTATA-TAAAAATTTTCAT
1 AGGCATACAGCCTA-AGT-AAAATTCT-AA
16291 AGGCATACAGCCTAAGTAAAATATCTAA
1 AGGCATACAGCCTAAGTAAAAT-TCTAA
* * * *
16319 AGGCGTACGGCCTATA-TAAAAATTTTCAT
1 AGGCATACAGCCTA-AGT-AAAATTCT-AA
16348 AGGCATACAGCCTAAGTAAAATTTCTAA
1 AGGCATACAGCCTAAGTAAAA-TTCTAA
* * *
16376 AGGCATACGGCCTATA-TAAAAAATTTTCAT
1 AGGCATACAGCCTA-AGT--AAAATTCT-AA
16406 AGGCATACAGCCTAAGTAAAATTCCTAA
1 AGGCATACAGCCTAAGTAAAATT-CTAA
* * * ** * *
16434 AGGCGTACGGCCTGGACAAAAATTCCCAT
1 AGGCATACAGCCT-AAGTAAAATT-CTAA
* *
16463 AGGCATACAGCCTAGGCAAAATTTCTAA
1 AGGCATACAGCCTAAGTAAAA-TTCTAA
16491 A
1 A
16492 AACATACGAA
Statistics
Matches: 221, Mismatches: 43, Indels: 46
0.71 0.14 0.15
Matches are distributed among these distances:
28 105 0.48
29 97 0.44
30 19 0.09
ACGTcount: A:0.40, C:0.19, G:0.16, T:0.25
Consensus pattern (27 bp):
AGGCATACAGCCTAAGTAAAATTCTAA
Found at i:16234 original size:57 final size:57
Alignment explanation
Indices: 16146--16491 Score: 566
Period size: 57 Copynumber: 6.1 Consensus size: 57
16136 CCGAAAACAC
* *
16146 AAAGGCGAACGGCCTATATAAAAATTTTCATAGGCATACAGCCTAAGTAAAATCTCT
1 AAAGGCGTACGGCCTATATAAAAATTTTCATAGGCATACAGCCTAAGTAAAATTTCT
16203 AAAGGCGTACGGCCTATATAAAAATTTTCATAGGCATACAGCCTAAGTAAAATTTCT
1 AAAGGCGTACGGCCTATATAAAAATTTTCATAGGCATACAGCCTAAGTAAAATTTCT
* *
16260 AAAGGCATACGGCCTATATAAAAATTTTCATAGGCATACAGCCTAAGTAAAATATCT
1 AAAGGCGTACGGCCTATATAAAAATTTTCATAGGCATACAGCCTAAGTAAAATTTCT
16317 AAAGGCGTACGGCCTATATAAAAATTTTCATAGGCATACAGCCTAAGTAAAATTTCT
1 AAAGGCGTACGGCCTATATAAAAATTTTCATAGGCATACAGCCTAAGTAAAATTTCT
* *
16374 AAAGGCATACGGCCTATATAAAAAATTTTCATAGGCATACAGCCTAAGTAAAATTCCT
1 AAAGGCGTACGGCCTATAT-AAAAATTTTCATAGGCATACAGCCTAAGTAAAATTTCT
** * ** * *
16432 AAAGGCGTACGGCCTGGACAAAAATTCCCATAGGCATACAGCCTAGGCAAAATTTCT
1 AAAGGCGTACGGCCTATATAAAAATTTTCATAGGCATACAGCCTAAGTAAAATTTCT
16489 AAA
1 AAA
16492 AACATACGAA
Statistics
Matches: 271, Mismatches: 17, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
57 219 0.81
58 52 0.19
ACGTcount: A:0.40, C:0.19, G:0.16, T:0.25
Consensus pattern (57 bp):
AAAGGCGTACGGCCTATATAAAAATTTTCATAGGCATACAGCCTAAGTAAAATTTCT
Found at i:23092 original size:35 final size:36
Alignment explanation
Indices: 23046--23117 Score: 128
Period size: 36 Copynumber: 2.0 Consensus size: 36
23036 AATGCTCAAT
23046 CTATG-TTTTTTTTCCTATTTGTCCCAGTTCAAGAC
1 CTATGTTTTTTTTTCCTATTTGTCCCAGTTCAAGAC
*
23081 CTATGTTTTTTTTTTCTATTTGTCCCAGTTCAAGAC
1 CTATGTTTTTTTTTCCTATTTGTCCCAGTTCAAGAC
23117 C
1 C
23118 AAATGGATCA
Statistics
Matches: 35, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
35 5 0.14
36 30 0.86
ACGTcount: A:0.17, C:0.22, G:0.11, T:0.50
Consensus pattern (36 bp):
CTATGTTTTTTTTTCCTATTTGTCCCAGTTCAAGAC
Found at i:24735 original size:1 final size:1
Alignment explanation
Indices: 24729--24758 Score: 51
Period size: 1 Copynumber: 30.0 Consensus size: 1
24719 AGCTATTGCC
*
24729 AAAAAAAAAAAAAAAAAAAATAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
24759 TCCCAGGAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
1 27 1.00
ACGTcount: A:0.97, C:0.00, G:0.00, T:0.03
Consensus pattern (1 bp):
A
Found at i:27559 original size:2 final size:2
Alignment explanation
Indices: 27554--27599 Score: 92
Period size: 2 Copynumber: 23.0 Consensus size: 2
27544 TAGAGAGGAA
27554 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC
27596 AC AC
1 AC AC
27600 GCACGCACGC
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 44 1.00
ACGTcount: A:0.50, C:0.50, G:0.00, T:0.00
Consensus pattern (2 bp):
AC
Found at i:30735 original size:37 final size:37
Alignment explanation
Indices: 30693--30764 Score: 126
Period size: 37 Copynumber: 1.9 Consensus size: 37
30683 AAGAAAAATC
*
30693 AATTAGACCCAATTAAATTAGGATCCAAATAAATATT
1 AATTAGACCCAATTAAATTAGGATCCAAAAAAATATT
*
30730 AATTAGACCCAATTAAATTAGGATTCAAAAAAATA
1 AATTAGACCCAATTAAATTAGGATCCAAAAAAATA
30765 AATAAGGCAT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
37 33 1.00
ACGTcount: A:0.51, C:0.12, G:0.08, T:0.28
Consensus pattern (37 bp):
AATTAGACCCAATTAAATTAGGATCCAAAAAAATATT
Found at i:31035 original size:12 final size:12
Alignment explanation
Indices: 31002--31034 Score: 52
Period size: 11 Copynumber: 2.9 Consensus size: 12
30992 TCCGATGTTG
31002 TTTT-CTTTTTC
1 TTTTCCTTTTTC
31013 TTTTCCTTTTTC
1 TTTTCCTTTTTC
31025 -TTTCCTTTTT
1 TTTTCCTTTTT
31035 TTTCTATTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
11 14 0.67
12 7 0.33
ACGTcount: A:0.00, C:0.21, G:0.00, T:0.79
Consensus pattern (12 bp):
TTTTCCTTTTTC
Found at i:33829 original size:24 final size:26
Alignment explanation
Indices: 33797--33851 Score: 71
Period size: 26 Copynumber: 2.2 Consensus size: 26
33787 AAAATAGCCG
33797 AGCCGCCCG-G-CTTG-CCCATGGTGA
1 AGCCGCCCGCGACTTGACCCATGGT-A
*
33821 AGCCGCCCGCGACTTGAGCCATGGTA
1 AGCCGCCCGCGACTTGACCCATGGTA
33847 AGCCG
1 AGCCG
33852 TCCTCCTGGG
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
24 9 0.33
25 1 0.04
26 10 0.37
27 7 0.26
ACGTcount: A:0.16, C:0.36, G:0.33, T:0.15
Consensus pattern (26 bp):
AGCCGCCCGCGACTTGACCCATGGTA
Found at i:43728 original size:50 final size:50
Alignment explanation
Indices: 43669--43767 Score: 198
Period size: 50 Copynumber: 2.0 Consensus size: 50
43659 ATCTTGTGAA
43669 GCAGCAATGAAAATAGAAGAATTCATGGGAAAATCATTCTAAGCAAAAAG
1 GCAGCAATGAAAATAGAAGAATTCATGGGAAAATCATTCTAAGCAAAAAG
43719 GCAGCAATGAAAATAGAAGAATTCATGGGAAAATCATTCTAAGCAAAAA
1 GCAGCAATGAAAATAGAAGAATTCATGGGAAAATCATTCTAAGCAAAAA
43768 AGGGAAAATA
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
50 49 1.00
ACGTcount: A:0.51, C:0.12, G:0.19, T:0.18
Consensus pattern (50 bp):
GCAGCAATGAAAATAGAAGAATTCATGGGAAAATCATTCTAAGCAAAAAG
Found at i:53854 original size:29 final size:28
Alignment explanation
Indices: 53800--53867 Score: 102
Period size: 29 Copynumber: 2.4 Consensus size: 28
53790 TTGGCTTTAG
53800 CCTATACTTAA-ATTTTTTTTGCCACAA
1 CCTATACTTAATATTTTTTTTGCCACAA
* *
53827 CCTATACTTAATTTTTTTTTTTGCCACAG
1 CCTATACTTAA-TATTTTTTTTGCCACAA
53856 CCTATACTTAAT
1 CCTATACTTAAT
53868 CACAAGGATT
Statistics
Matches: 37, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
27 11 0.30
28 1 0.03
29 25 0.68
ACGTcount: A:0.26, C:0.22, G:0.04, T:0.47
Consensus pattern (28 bp):
CCTATACTTAATATTTTTTTTGCCACAA
Found at i:57340 original size:438 final size:436
Alignment explanation
Indices: 56337--57507 Score: 1487
Period size: 438 Copynumber: 2.7 Consensus size: 436
56327 TGGGTGCCAT
* * * **
56337 TCTCAATAAACAAATATTTTTTTGTTGGATTATTTATCAAATGATCCCTATACTTTTACGCTTTT
1 TCTCTATAAACAAA-ATTTTTTTGCTGGATTATTTATCAAATGATCCTTATACTTTTA-TATTTT
* ** * * * * * * * *
56402 -TGCTATTTAGTCC-ACATAAGTTTTGGGTTGGATGATTAAACG-TTTCGACTTTAATTCTTATA
64 ATGCTATTTAATCCTTTA-AAATTATGGGTTGGACGATTTAACGCTTTGGA-TTTTATTTTTGTA
* ** * * *
56464 TTTTTTGTTTTGCTTGTCCGATCAAGATGATTCAAGCGTCTATTAAAAGGTAATTCCATGATCTA
127 TTTTTTGTTCTATTTGTCCGATCAAGGTGATTCAAGTGTCTATT-AAAGGTAATTTCATGATCTA
* ***
56529 CAACTTTCATGAAGGACTCAGAAGCCAATTTTAATGTTTTAATTC--AAAAACGCTTCGGAAATT
191 CAACTTTCATGAAGGACTCAGAAGCCAATTTTAATGTTTTAATTCTAAAAAATGCTTTTAAAATT
* * *
56592 TTGTGGTC-TCGATTGCCGGTCTCTCTAATATTGTATAATTTTCGTTCCACTTGTCCGATTGAGA
256 TTGTGGTCTTC-ATTGCCGGTCTATTTAATATTGTATAATTTTCGGTCCACTTGTCCGATTGAGA
*
56656 TTGTTCAAGTGTCAATTAAAAGGTTATCGTGTGATCTACGACTTTCGTCAAGGGCCTGAAAGCTG
320 TTGTTCAAGTGTCAATTAAAAGGTTATCGTATGATCTACGACTTTCGTCAAGGGCCTGAAAGCTG
* * *
56721 AATTTGATTAATGAGTTTCGTGTAGGGTTCGAGAGAGAATTTTTATGTTTGG
385 AATTTGATTAATGAGTTTCGTGGAAGGTTCGAGAGAAAATTTTTATGTTTGG
* * * **
56773 TCTCTATAAACAAATAATTTTTTTGCTAGATTATTTATCAAATGATTCTCACCCTTTT-TATGCT
1 TCTCTATAAAC-AA-AATTTTTTTGCTGGATTATTTATCAAATGATCCTTATACTTTTATAT--T
* * * * *
56837 TTATGCTATTTAATCCTTTACAATTATGGGTCGAACGATTTAACGCGTTGGCTTTTATTTTTGTA
62 TTATGCTATTTAATCCTTTAAAATTATGGGTTGGACGATTTAACGCTTTGGATTTTATTTTTGTA
* *
56902 TTTTTTGTTCCATTTGTCCGATCAAGGTGATTCAAGTGTCCATTGAAAGGTAATTTCATGATCTA
127 TTTTTTGTTCTATTTGTCCGATCAAGGTGATTCAAGTGTCTATT-AAAGGTAATTTCATGATCTA
* *
56967 CAACTTTCATGAAGGACCCAGAAGCCAATTTTAATGTTTTGATTCTAAAAAATGCTTTTAAAATT
191 CAACTTTCATGAAGGACTCAGAAGCCAATTTTAATGTTTTAATTCTAAAAAATGCTTTTAAAATT
* * *
57032 TTATGGTCTTCATTGCCGGTCTATTTAATATTGTATAATTTTTGGTCCACTTGTCCGATTGAGGT
256 TTGTGGTCTTCATTGCCGGTCTATTTAATATTGTATAATTTTCGGTCCACTTGTCCGATTGAGAT
* * * ** *
57097 TGTTCAAGTGTCGATTAAAAGGTTATTGTATGATCTACGACTTTCGTTAAGGGTTTGAAAGTTGA
321 TGTTCAAGTGTCAATTAAAAGGTTATCGTATGATCTACGACTTTCGTCAAGGGCCTGAAAGCTGA
*
57162 ATTTGATTAATGAGTTTTGTGGAAGGTTCGAGAGAAAATTTTTATGTTTGG
386 ATTTGATTAATGAGTTTCGTGGAAGGTTCGAGAGAAAATTTTTATGTTTGG
*
57213 TCTCTATAAACAAAATTATTTTTGCTGGATTATCTATCAAATGATCCTTATACTTTTATATTTTA
1 TCTCTATAAACAAAATT-TTTTTGCTGGATTATTTATCAAATGATCCTTATACTTTTATATTTTA
*
57278 TGCTATTTAATCCTTTAAAATTATGAGTTGGACGATTTAACGCTTTGGATTTTATTTTTGTATTT
65 TGCTATTTAATCCTTTAAAATTATGGGTTGGACGATTTAACGCTTTGGATTTTATTTTTGTATTT
* * *
57343 TCTGTTCTATTTGTCCGATCAAGGTGATTCAAGTGTATATTATGAGGTAATTTCATGATCTACAA
130 TTTGTTCTATTTGTCCGATCAAGGTGATTCAAGTGTCTATTA-AAGGTAATTTCATGATCTACAA
* * * * ** * *
57408 CTTTCATTAAGGACTTAGAAGCCAA--ATAATGTTTCAATTCTAAAAAATAATTTTTAAATTTCG
194 CTTTCATGAAGGACTCAGAAGCCAATTTTAATGTTTTAATTCTAAAAAATGCTTTTAAAATTTTG
* * * **
57471 TGGTTTTGATTGTCAATCTATTTAATATTGTATAATT
259 TGGTCTTCATTGCCGGTCTATTTAATATTGTATAATT
57508 AATAATTACA
Statistics
Matches: 631, Mismatches: 91, Indels: 26
0.84 0.12 0.03
Matches are distributed among these distances:
435 1 0.00
436 72 0.11
437 41 0.06
438 287 0.45
439 39 0.06
440 189 0.30
441 2 0.00
ACGTcount: A:0.28, C:0.13, G:0.17, T:0.42
Consensus pattern (436 bp):
TCTCTATAAACAAAATTTTTTTGCTGGATTATTTATCAAATGATCCTTATACTTTTATATTTTAT
GCTATTTAATCCTTTAAAATTATGGGTTGGACGATTTAACGCTTTGGATTTTATTTTTGTATTTT
TTGTTCTATTTGTCCGATCAAGGTGATTCAAGTGTCTATTAAAGGTAATTTCATGATCTACAACT
TTCATGAAGGACTCAGAAGCCAATTTTAATGTTTTAATTCTAAAAAATGCTTTTAAAATTTTGTG
GTCTTCATTGCCGGTCTATTTAATATTGTATAATTTTCGGTCCACTTGTCCGATTGAGATTGTTC
AAGTGTCAATTAAAAGGTTATCGTATGATCTACGACTTTCGTCAAGGGCCTGAAAGCTGAATTTG
ATTAATGAGTTTCGTGGAAGGTTCGAGAGAAAATTTTTATGTTTGG
Found at i:58792 original size:2 final size:2
Alignment explanation
Indices: 58785--58809 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
58775 AGAAAGCTTT
58785 TG TG TG TG TG TG TG TG TG TG TG TG T
1 TG TG TG TG TG TG TG TG TG TG TG TG T
58810 TTTTTTTTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.00, C:0.00, G:0.48, T:0.52
Consensus pattern (2 bp):
TG
Found at i:58986 original size:1 final size:1
Alignment explanation
Indices: 58980--59015 Score: 72
Period size: 1 Copynumber: 36.0 Consensus size: 1
58970 GAGATATCAG
58980 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
59016 AATTTAAGTT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 35 1.00
ACGTcount: A:0.00, C:0.00, G:0.00, T:1.00
Consensus pattern (1 bp):
T
Found at i:59550 original size:6 final size:6
Alignment explanation
Indices: 59541--59598 Score: 68
Period size: 6 Copynumber: 9.8 Consensus size: 6
59531 CATTTTTCAT
*
59541 TTTTTG -TTTT- TTTTCG TTTTTTG TTTTTG TTTTTG TTTTTTG TTTTTG
1 TTTTTG TTTTTG TTTTTG -TTTTTG TTTTTG TTTTTG -TTTTTG TTTTTG
59589 TTTTT- TTTTT
1 TTTTTG TTTTT
59599 ATATATTATC
Statistics
Matches: 46, Mismatches: 2, Indels: 9
0.81 0.04 0.16
Matches are distributed among these distances:
5 12 0.26
6 23 0.50
7 11 0.24
ACGTcount: A:0.00, C:0.02, G:0.12, T:0.86
Consensus pattern (6 bp):
TTTTTG
Found at i:59559 original size:10 final size:9
Alignment explanation
Indices: 59540--59598 Score: 54
Period size: 9 Copynumber: 6.6 Consensus size: 9
59530 TCATTTTTCA
59540 TTTTTTGTT
1 TTTTTTGTT
59549 TTTTTTCG--
1 TTTTTT-GTT
59557 TTTTTTGTT
1 TTTTTTGTT
59566 TTTGTTT-TT
1 TTT-TTTGTT
59575 GTTTTTTGTT
1 -TTTTTTGTT
59585 TTTGTTT-TT
1 TTT-TTTGTT
59594 TTTTT
1 TTTTT
59599 ATATATTATC
Statistics
Matches: 43, Mismatches: 0, Indels: 15
0.74 0.00 0.26
Matches are distributed among these distances:
7 1 0.02
8 8 0.19
9 22 0.51
10 12 0.28
ACGTcount: A:0.00, C:0.02, G:0.12, T:0.86
Consensus pattern (9 bp):
TTTTTTGTT
Found at i:59567 original size:13 final size:13
Alignment explanation
Indices: 59540--59598 Score: 72
Period size: 13 Copynumber: 4.8 Consensus size: 13
59530 TCATTTTTCA
59540 TTTTTTGTTTTT-
1 TTTTTTGTTTTTG
**
59552 TTTCGT-TTTTTG
1 TTTTTTGTTTTTG
59564 -TTTTTGTTTTTG
1 TTTTTTGTTTTTG
59576 TTTTTTGTTTTTG
1 TTTTTTGTTTTTG
59589 TTTTTT-TTTT
1 TTTTTTGTTTT
59599 ATATATTATC
Statistics
Matches: 40, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
11 8 0.20
12 14 0.35
13 18 0.45
ACGTcount: A:0.00, C:0.02, G:0.12, T:0.86
Consensus pattern (13 bp):
TTTTTTGTTTTTG
Found at i:59593 original size:19 final size:19
Alignment explanation
Indices: 59540--59598 Score: 88
Period size: 19 Copynumber: 3.3 Consensus size: 19
59530 TCATTTTTCA
*
59540 TTTTTTG-TTTT-TTTTCG
1 TTTTTTGTTTTTGTTTTTG
59557 TTTTTTGTTTTTGTTTTTG
1 TTTTTTGTTTTTGTTTTTG
59576 TTTTTTGTTTTTGTTTTT-
1 TTTTTTGTTTTTGTTTTTG
59594 TTTTT
1 TTTTT
59599 ATATATTATC
Statistics
Matches: 39, Mismatches: 1, Indels: 3
0.91 0.02 0.07
Matches are distributed among these distances:
17 7 0.18
18 9 0.23
19 23 0.59
ACGTcount: A:0.00, C:0.02, G:0.12, T:0.86
Consensus pattern (19 bp):
TTTTTTGTTTTTGTTTTTG
Found at i:60116 original size:41 final size:42
Alignment explanation
Indices: 60059--60141 Score: 150
Period size: 42 Copynumber: 2.0 Consensus size: 42
60049 ACTTCATTTA
60059 GTTTTATGCAGCTAGAAA-CCTTTGAGAAGAATTTGGGATGT
1 GTTTTATGCAGCTAGAAATCCTTTGAGAAGAATTTGGGATGT
*
60100 GTTTTATGCAGCTAGAAATCTTTTGAGAAGAATTTGGGATGT
1 GTTTTATGCAGCTAGAAATCCTTTGAGAAGAATTTGGGATGT
60142 TATCAGTTTC
Statistics
Matches: 40, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
41 18 0.45
42 22 0.55
ACGTcount: A:0.29, C:0.08, G:0.27, T:0.36
Consensus pattern (42 bp):
GTTTTATGCAGCTAGAAATCCTTTGAGAAGAATTTGGGATGT
Found at i:66629 original size:33 final size:33
Alignment explanation
Indices: 66567--66631 Score: 87
Period size: 33 Copynumber: 2.0 Consensus size: 33
66557 ACAACGGGTC
*
66567 GCGCGCGACCCAGACCATGGTGGGCCGCGACCT
1 GCGCGCGACCCAGACCATGGCGGGCCGCGACCT
* *
66600 GCGCGCGACCCAG-CCGTGGCCGGGTCGCGACC
1 GCGCGCGACCCAGACCATGG-CGGGCCGCGACC
66632 CGCTATGCTC
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
32 5 0.18
33 23 0.82
ACGTcount: A:0.12, C:0.42, G:0.38, T:0.08
Consensus pattern (33 bp):
GCGCGCGACCCAGACCATGGCGGGCCGCGACCT
Found at i:66684 original size:20 final size:19
Alignment explanation
Indices: 66643--66685 Score: 59
Period size: 20 Copynumber: 2.2 Consensus size: 19
66633 GCTATGCTCA
* *
66643 TCTTTTCTTCCTTTTTTTT
1 TCTTTTCTTCCTTTCTTGT
66662 TCTTTTCTTTCCTTTCTTGT
1 TCTTTTC-TTCCTTTCTTGT
66682 TCTT
1 TCTT
66686 CTTTAATTTT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 7 0.33
20 14 0.67
ACGTcount: A:0.00, C:0.23, G:0.02, T:0.74
Consensus pattern (19 bp):
TCTTTTCTTCCTTTCTTGT
Found at i:67442 original size:31 final size:31
Alignment explanation
Indices: 67404--67633 Score: 201
Period size: 31 Copynumber: 7.5 Consensus size: 31
67394 TTAGGCTAAT
* *
67404 TGCTCAAATAAGGGCCTAATATTTGTCAAAA
1 TGCTCAAATAAGGGCCTAATCTTTATCAAAA
* *
67435 TGCTCAAATAAGGGCCTAATATTTGTCAAAA
1 TGCTCAAATAAGGGCCTAATCTTTATCAAAA
** **
67466 TGCTCAAATAAGGGTCC-GGTCTTT-T-AATT
1 TGCTCAAATAAGGG-CCTAATCTTTATCAAAA
*
67495 TGGC-CAAATAAGGGCCTAA-CGTTATCGAAAA
1 T-GCTCAAATAAGGGCCTAATCTTTATC-AAAA
** **
67526 TGCTCAAATAAGGGCCCGATCTTT-T-AATT
1 TGCTCAAATAAGGGCCTAATCTTTATCAAAA
*
67555 TGGC-CAAATAAGGGCCTAA-CGTTATCGAAAA
1 T-GCTCAAATAAGGGCCTAATCTTTATC-AAAA
*
67586 TGCTCAAATAAGGGCCTAA-CGTTATCGAAAA
1 TGCTCAAATAAGGGCCTAATCTTTATC-AAAA
67617 TGCTCAAATAAGGGCCT
1 TGCTCAAATAAGGGCCT
67634 GATGTCAGTT
Statistics
Matches: 166, Mismatches: 20, Indels: 26
0.78 0.09 0.12
Matches are distributed among these distances:
28 8 0.05
29 31 0.19
30 9 0.05
31 113 0.68
32 5 0.03
ACGTcount: A:0.35, C:0.19, G:0.20, T:0.27
Consensus pattern (31 bp):
TGCTCAAATAAGGGCCTAATCTTTATCAAAA
Found at i:67512 original size:60 final size:60
Alignment explanation
Indices: 67439--67601 Score: 265
Period size: 60 Copynumber: 2.7 Consensus size: 60
67429 TCAAAATGCT
** * * *
67439 CAAATAAGGGCCTAATATTTGTC-AAAATGCTCAAATAAGGGTCCGGTCTTTTAATTTGGC
1 CAAATAAGGGCCTAA-CGTTATCGAAAATGCTCAAATAAGGGCCCGATCTTTTAATTTGGC
67499 CAAATAAGGGCCTAACGTTATCGAAAATGCTCAAATAAGGGCCCGATCTTTTAATTTGGC
1 CAAATAAGGGCCTAACGTTATCGAAAATGCTCAAATAAGGGCCCGATCTTTTAATTTGGC
67559 CAAATAAGGGCCTAACGTTATCGAAAATGCTCAAATAAGGGCC
1 CAAATAAGGGCCTAACGTTATCGAAAATGCTCAAATAAGGGCC
67602 TAACGTTATC
Statistics
Matches: 97, Mismatches: 5, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
59 4 0.04
60 93 0.96
ACGTcount: A:0.34, C:0.19, G:0.20, T:0.26
Consensus pattern (60 bp):
CAAATAAGGGCCTAACGTTATCGAAAATGCTCAAATAAGGGCCCGATCTTTTAATTTGGC
Found at i:67530 original size:91 final size:91
Alignment explanation
Indices: 67404--67633 Score: 238
Period size: 91 Copynumber: 2.5 Consensus size: 91
67394 TTAGGCTAAT
** *
67404 TGCTCAAATAAGGGCCTAATATTTGTC-AAAATGCTCAAATAAGGGCCTAATATTTGTCAAAAT-
1 TGCTCAAATAAGGGCCTAA-CGTTATCGAAAATGCTCAAATAAGGGCCTAATATTT-T-AAAATG
** * **
67467 GCTCAAATAAGGGTCCGGTC-TT-T-TAATT
63 GC-CAAATAAGGG-CCGAACGTTATCGAAAA
** * **
67495 TGGC-CAAATAAGGGCCTAACGTTATCGAAAATGCTCAAATAAGGGCCCGATCTTTTAATTTGGC
1 T-GCTCAAATAAGGGCCTAACGTTATCGAAAATGCTCAAATAAGGGCCTAATATTTTAAAATGGC
*
67559 CAAATAAGGGCCTAACGTTATCGAAAA
65 CAAATAAGGGCCGAACGTTATCGAAAA
67586 TGCTCAAATAAGGGCCTAACGTTATCGAAAATGCTCAAATAAGGGCCT
1 TGCTCAAATAAGGGCCTAACGTTATCGAAAATGCTCAAATAAGGGCCT
67634 GATGTCAGTT
Statistics
Matches: 117, Mismatches: 15, Indels: 14
0.80 0.10 0.10
Matches are distributed among these distances:
88 3 0.03
89 15 0.13
90 10 0.09
91 87 0.74
92 2 0.02
ACGTcount: A:0.35, C:0.19, G:0.20, T:0.27
Consensus pattern (91 bp):
TGCTCAAATAAGGGCCTAACGTTATCGAAAATGCTCAAATAAGGGCCTAATATTTTAAAATGGCC
AAATAAGGGCCGAACGTTATCGAAAA
Found at i:67570 original size:29 final size:29
Alignment explanation
Indices: 67470--67570 Score: 89
Period size: 29 Copynumber: 3.4 Consensus size: 29
67460 TCAAAATGCT
* *
67470 CAAATAAGGGTCCGGTCTTTTAATTTGGC
1 CAAATAAGGGCCCGATCTTTTAATTTGGC
* * * **
67499 CAAATAAGGG-CCTAACGTTATCGAAAAT-GC
1 CAAATAAGGGCCCGATC-TT-T-TAATTTGGC
67529 TCAAATAAGGGCCCGATCTTTTAATTTGGC
1 -CAAATAAGGGCCCGATCTTTTAATTTGGC
67559 CAAATAAGGGCC
1 CAAATAAGGGCC
67571 TAACGTTATC
Statistics
Matches: 55, Mismatches: 11, Indels: 12
0.71 0.14 0.15
Matches are distributed among these distances:
28 3 0.05
29 27 0.49
30 6 0.11
31 15 0.27
32 4 0.07
ACGTcount: A:0.32, C:0.20, G:0.22, T:0.27
Consensus pattern (29 bp):
CAAATAAGGGCCCGATCTTTTAATTTGGC
Found at i:67698 original size:31 final size:30
Alignment explanation
Indices: 67663--67828 Score: 119
Period size: 31 Copynumber: 5.5 Consensus size: 30
67653 CATGAGACAA
67663 GCCCTTATTTGAGCATTTTGGCAAACGTTAG
1 GCCCTTATTTGAGCATTTT-GCAAACGTTAG
** **
67694 GCCCTTATTTG-GCCAAATT-CAAA-GATGGG
1 GCCCTTATTTGAG-CATTTTGCAAACG-TTAG
*
67723 GCCCTTATTTGAGCATTTTGGCAAATGTTAG
1 GCCCTTATTTGAGCATTTT-GCAAACGTTAG
* ** *
67754 ACCCTTATTTG-GCCAAATT--AAAAGTTCAG
1 GCCCTTATTTGAG-CATTTTGCAAACGTT-AG
* * *
67783 ACTCTTATTTGAACATTTTGTCAAACGTTAG
1 GCCCTTATTTGAGCATTTTG-CAAACGTTAG
67814 GCCCTTATTTGAGCA
1 GCCCTTATTTGAGCA
67829 ATTGGCCTAA
Statistics
Matches: 103, Mismatches: 20, Indels: 24
0.70 0.14 0.16
Matches are distributed among these distances:
28 7 0.07
29 37 0.36
30 3 0.03
31 49 0.48
32 7 0.07
ACGTcount: A:0.27, C:0.19, G:0.19, T:0.35
Consensus pattern (30 bp):
GCCCTTATTTGAGCATTTTGCAAACGTTAG
Found at i:67736 original size:60 final size:60
Alignment explanation
Indices: 67663--67824 Score: 234
Period size: 60 Copynumber: 2.7 Consensus size: 60
67653 CATGAGACAA
* **
67663 GCCCTTATTTGAGCATTTTGGCAAACGTTAGGCCCTTATTTGGCCAAATTCAAAGATGGG
1 GCCCTTATTTGAGCATTTTGGCAAACGTTAGGCCCTTATTTGGCCAAATTAAAAGATCAG
* * *
67723 GCCCTTATTTGAGCATTTTGGCAAATGTTAGACCCTTATTTGGCCAAATTAAAAGTTCAG
1 GCCCTTATTTGAGCATTTTGGCAAACGTTAGGCCCTTATTTGGCCAAATTAAAAGATCAG
* * * *
67783 ACTCTTATTTGAACATTTTGTCAAACGTTAGGCCCTTATTTG
1 GCCCTTATTTGAGCATTTTGGCAAACGTTAGGCCCTTATTTG
67825 AGCAATTGGC
Statistics
Matches: 90, Mismatches: 12, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
60 90 1.00
ACGTcount: A:0.26, C:0.19, G:0.19, T:0.36
Consensus pattern (60 bp):
GCCCTTATTTGAGCATTTTGGCAAACGTTAGGCCCTTATTTGGCCAAATTAAAAGATCAG
Found at i:68422 original size:32 final size:32
Alignment explanation
Indices: 68381--68501 Score: 161
Period size: 32 Copynumber: 3.5 Consensus size: 32
68371 TCCAATGACT
68381 AAGGTTCAATTTCTAGCTTTGTGACAAAAAAA
1 AAGGTTCAATTTCTAGCTTTGTGACAAAAAAA
68413 AAGGTTCAATTTCTAGCTTTGTGACAAAAAAA
1 AAGGTTCAATTTCTAGCTTTGTGACAAAAAAA
68445 AATGGTTCAAGACTTCAATTTCTAGCTTTGTGACAAAAAAA
1 AA--G-----G--TTCAATTTCTAGCTTTGTGACAAAAAAA
68486 AAGGTTCAATTTCTAG
1 AAGGTTCAATTTCTAG
68502 TATTAAAAAA
Statistics
Matches: 80, Mismatches: 0, Indels: 18
0.82 0.00 0.18
Matches are distributed among these distances:
32 46 0.57
34 2 0.03
39 2 0.03
41 30 0.38
ACGTcount: A:0.39, C:0.13, G:0.16, T:0.32
Consensus pattern (32 bp):
AAGGTTCAATTTCTAGCTTTGTGACAAAAAAA
Found at i:68494 original size:40 final size:41
Alignment explanation
Indices: 68417--68494 Score: 149
Period size: 41 Copynumber: 1.9 Consensus size: 41
68407 AAAAAAAAGG
68417 TTCAATTTCTAGCTTTGTGACAAAAAAAAATGGTTCAAGAC
1 TTCAATTTCTAGCTTTGTGACAAAAAAAAATGGTTCAAGAC
68458 TTCAATTTCTAGCTTTGTGACAAAAAAAAA-GGTTCAA
1 TTCAATTTCTAGCTTTGTGACAAAAAAAAATGGTTCAA
68495 TTTCTAGTAT
Statistics
Matches: 37, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
40 7 0.19
41 30 0.81
ACGTcount: A:0.40, C:0.14, G:0.14, T:0.32
Consensus pattern (41 bp):
TTCAATTTCTAGCTTTGTGACAAAAAAAAATGGTTCAAGAC
Found at i:69061 original size:33 final size:33
Alignment explanation
Indices: 69019--69095 Score: 118
Period size: 33 Copynumber: 2.3 Consensus size: 33
69009 CATTTTTGCC
*
69019 CTCAGCCACGGCGGAGCCTCCCCACTAAGGCGG
1 CTCAGCCACGGCGGAGCCTCCCCACTAAGGCAG
* *
69052 CTCAGCCACGACGGAGCCTCCCCACTAGGGCAG
1 CTCAGCCACGGCGGAGCCTCCCCACTAAGGCAG
*
69085 TTCAGCCACGG
1 CTCAGCCACGG
69096 GACTATTTTT
Statistics
Matches: 39, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
33 39 1.00
ACGTcount: A:0.19, C:0.42, G:0.29, T:0.10
Consensus pattern (33 bp):
CTCAGCCACGGCGGAGCCTCCCCACTAAGGCAG
Found at i:69281 original size:33 final size:33
Alignment explanation
Indices: 69209--69283 Score: 96
Period size: 33 Copynumber: 2.3 Consensus size: 33
69199 GCCGCCCCAG
* * *
69209 TGGGGCAGCTCGATCCATGGTAAGCCACCCTCC
1 TGGGGCGGCTCGAGCCATAGTAAGCCACCCTCC
* * *
69242 TGGGGCGGCTTGAGCCATAGTAAGCCGCCTTCC
1 TGGGGCGGCTCGAGCCATAGTAAGCCACCCTCC
69275 TGGGGCGGC
1 TGGGGCGGC
69284 ACGGGTCATC
Statistics
Matches: 36, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
33 36 1.00
ACGTcount: A:0.15, C:0.32, G:0.35, T:0.19
Consensus pattern (33 bp):
TGGGGCGGCTCGAGCCATAGTAAGCCACCCTCC
Found at i:70926 original size:35 final size:35
Alignment explanation
Indices: 70886--71518 Score: 899
Period size: 35 Copynumber: 18.1 Consensus size: 35
70876 TTAAGTCGAT
* * * *
70886 CTTAATTACCCTGACTTAAGTTAACTACTGACTCA
1 CTTAATTACCCTGAATTAAGTTGATTACTGACTTA
* * *
70921 CTTAATTACCCTGAATTAAGTTAACTACTGAATTA
1 CTTAATTACCCTGAATTAAGTTGATTACTGACTTA
* * * *
70956 CTTAATTACCCTTAATTACGTTTATTACTGACTGA
1 CTTAATTACCCTGAATTAAGTTGATTACTGACTTA
*
70991 TTTAATTACCCTGAATTAAGTTGATTACTGACTTA
1 CTTAATTACCCTGAATTAAGTTGATTACTGACTTA
*
71026 CTTAATTACCCTGAATTAAGTTGATTACTGACTCA
1 CTTAATTACCCTGAATTAAGTTGATTACTGACTTA
*
71061 CTTAATTACCCTGAATTAAGTTGATTACTGACTCA
1 CTTAATTACCCTGAATTAAGTTGATTACTGACTTA
* *
71096 CTTAATTACCCTGAATTAAGTTGATTATTGAATTA
1 CTTAATTACCCTGAATTAAGTTGATTACTGACTTA
* * * *
71131 CTTAATTACCCTGAATTAAGTTAACTATTGAATTA
1 CTTAATTACCCTGAATTAAGTTGATTACTGACTTA
* * *
71166 CTTAATTACCCTGAATTAAGTTAACTACTGAATTA
1 CTTAATTACCCTGAATTAAGTTGATTACTGACTTA
* *
71201 CTGAATTACCCTGAATTAAGTTGATTACTGACTCA
1 CTTAATTACCCTGAATTAAGTTGATTACTGACTTA
*
71236 CTTAATTACCCTGAATTAAGTTGATTACTGAATTA
1 CTTAATTACCCTGAATTAAGTTGATTACTGACTTA
* * * * *
71271 CTTAATTACCCTTAATTACGTTTATTACCGACTGA
1 CTTAATTACCCTGAATTAAGTTGATTACTGACTTA
71306 CTTAATTACCCTGAATTAAGTTGATTACTGACTTA
1 CTTAATTACCCTGAATTAAGTTGATTACTGACTTA
*
71341 CTTAATTACCCTGAATTAAGTTGATTACTGACTCA
1 CTTAATTACCCTGAATTAAGTTGATTACTGACTTA
*
71376 CTTAATTACCCTGAATTAAGTTGATTACTGAATTA
1 CTTAATTACCCTGAATTAAGTTGATTACTGACTTA
* *
71411 CTTAATTACCCTGAATTAAGTTTATTA-TCGACTGA
1 CTTAATTACCCTGAATTAAGTTGATTACT-GACTTA
* *
71446 CTTAATTACCCAGAATTAAGTTGATTACTGACTCA
1 CTTAATTACCCTGAATTAAGTTGATTACTGACTTA
* *
71481 TTTAATTATCCTGAATTAAGTTGATTACTGACTTA
1 CTTAATTACCCTGAATTAAGTTGATTACTGACTTA
71516 CTT
1 CTT
71519 TCTCTTACTT
Statistics
Matches: 541, Mismatches: 55, Indels: 4
0.90 0.09 0.01
Matches are distributed among these distances:
34 1 0.00
35 539 1.00
36 1 0.00
ACGTcount: A:0.33, C:0.18, G:0.11, T:0.39
Consensus pattern (35 bp):
CTTAATTACCCTGAATTAAGTTGATTACTGACTTA
Found at i:71299 original size:19 final size:19
Alignment explanation
Indices: 70887--71428 Score: 310
Period size: 17 Copynumber: 30.9 Consensus size: 19
70877 TAAGTCGATC
* *
70887 TTAATTACCCTGACTTAAG
1 TTAATTACCCTGAATTACG
* * *
70906 TTAACTA--CTGACTCAC-
1 TTAATTACCCTGAATTACG
*
70922 TTAATTACCCTGAATTAAG
1 TTAATTACCCTGAATTACG
*
70941 TTAACTA--CTGAATTAC-
1 TTAATTACCCTGAATTACG
*
70957 TTAATTACCCTTAATTACG
1 TTAATTACCCTGAATTACG
* * * *
70976 TTTATTA--CTGACTGA-T
1 TTAATTACCCTGAATTACG
*
70992 TTAATTACCCTGAATTAAG
1 TTAATTACCCTGAATTACG
* *
71011 TTGATTA--CTGACTTAC-
1 TTAATTACCCTGAATTACG
*
71027 TTAATTACCCTGAATTAAG
1 TTAATTACCCTGAATTACG
* * *
71046 TTGATTA--CTGACTCAC-
1 TTAATTACCCTGAATTACG
*
71062 TTAATTACCCTGAATTAAG
1 TTAATTACCCTGAATTACG
* * *
71081 TTGATTA--CTGACTCAC-
1 TTAATTACCCTGAATTACG
*
71097 TTAATTACCCTGAATTAAG
1 TTAATTACCCTGAATTACG
* *
71116 TTGATTA--TTGAATTAC-
1 TTAATTACCCTGAATTACG
*
71132 TTAATTACCCTGAATTAAG
1 TTAATTACCCTGAATTACG
* *
71151 TTAACTA--TTGAATTAC-
1 TTAATTACCCTGAATTACG
*
71167 TTAATTACCCTGAATTAAG
1 TTAATTACCCTGAATTACG
*
71186 TTAACTA--CTGAATTAC-
1 TTAATTACCCTGAATTACG
* *
71202 TGAATTACCCTGAATTAAG
1 TTAATTACCCTGAATTACG
* * *
71221 TTGATTA--CTGACTCAC-
1 TTAATTACCCTGAATTACG
*
71237 TTAATTACCCTGAATTAAG
1 TTAATTACCCTGAATTACG
*
71256 TTGATTA--CTGAATTAC-
1 TTAATTACCCTGAATTACG
*
71272 TTAATTACCCTTAATTACG
1 TTAATTACCCTGAATTACG
* * *
71291 TTTATTA-CC-GACTGAC-
1 TTAATTACCCTGAATTACG
*
71307 TTAATTACCCTGAATTAAG
1 TTAATTACCCTGAATTACG
* *
71326 TTGATTA--CTGACTTAC-
1 TTAATTACCCTGAATTACG
*
71342 TTAATTACCCTGAATTAAG
1 TTAATTACCCTGAATTACG
* * *
71361 TTGATTA--CTGACTCAC-
1 TTAATTACCCTGAATTACG
*
71377 TTAATTACCCTGAATTAAG
1 TTAATTACCCTGAATTACG
*
71396 TTGATTA--CTGAATTAC-
1 TTAATTACCCTGAATTACG
71412 TTAATTACCCTGAATTA
1 TTAATTACCCTGAATTA
71429 AGTTTATTAT
Statistics
Matches: 382, Mismatches: 97, Indels: 89
0.67 0.17 0.16
Matches are distributed among these distances:
16 89 0.23
17 102 0.27
18 102 0.27
19 89 0.23
ACGTcount: A:0.33, C:0.18, G:0.10, T:0.39
Consensus pattern (19 bp):
TTAATTACCCTGAATTACG
Found at i:74811 original size:39 final size:39
Alignment explanation
Indices: 74757--74834 Score: 156
Period size: 39 Copynumber: 2.0 Consensus size: 39
74747 TCAAAACACC
74757 TTTCTCCATTCAACATAACATGAACATGATGAACAACAT
1 TTTCTCCATTCAACATAACATGAACATGATGAACAACAT
74796 TTTCTCCATTCAACATAACATGAACATGATGAACAACAT
1 TTTCTCCATTCAACATAACATGAACATGATGAACAACAT
74835 CCATGAACTC
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 39 1.00
ACGTcount: A:0.41, C:0.23, G:0.08, T:0.28
Consensus pattern (39 bp):
TTTCTCCATTCAACATAACATGAACATGATGAACAACAT
Found at i:79683 original size:2 final size:2
Alignment explanation
Indices: 79678--79704 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
79668 TGTGTGTGTG
79678 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 T
79705 TTAAACATTA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:80249 original size:2 final size:2
Alignment explanation
Indices: 80237--80276 Score: 62
Period size: 2 Copynumber: 20.0 Consensus size: 2
80227 TTCAGTTTTG
* *
80237 AT AT TT AT AT AT AT AC 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
80277 CCTTCTGTCT
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:82660 original size:14 final size:14
Alignment explanation
Indices: 82641--82668 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
82631 GCATATTAAT
82641 TTTAGTCCATTTAG
1 TTTAGTCCATTTAG
82655 TTTAGTCCATTTAG
1 TTTAGTCCATTTAG
82669 ATTACTATCA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.21, C:0.14, G:0.14, T:0.50
Consensus pattern (14 bp):
TTTAGTCCATTTAG
Found at i:82884 original size:20 final size:20
Alignment explanation
Indices: 82859--82897 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
82849 AAATACAAGG
82859 CATTTGATTTACAAATTGGA
1 CATTTGATTTACAAATTGGA
*
82879 CATTTGATTTGCAAATTGG
1 CATTTGATTTACAAATTGG
82898 TGGTTTTTTC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.31, C:0.10, G:0.18, T:0.41
Consensus pattern (20 bp):
CATTTGATTTACAAATTGGA
Found at i:86274 original size:40 final size:40
Alignment explanation
Indices: 86201--86305 Score: 131
Period size: 40 Copynumber: 2.6 Consensus size: 40
86191 ATCAGTAATT
* **
86201 AAGTAAAAAGAAATTAATCAGTAATTTGATAATTAAGAGTCA-
1 AAGT-AAAAG-AAGTAATCAGTAAAATGATAATTAAGAGT-AG
*
86243 AAGTAAAAGAAGTAATCAGTAAAATGGTAATTAAGAGTAG
1 AAGTAAAAGAAGTAATCAGTAAAATGATAATTAAGAGTAG
*
86283 GAGTAAAAGAAGTAATCAGTAAA
1 AAGTAAAAGAAGTAATCAGTAAA
86306 TCGGTAAAGA
Statistics
Matches: 57, Mismatches: 5, Indels: 4
0.86 0.08 0.06
Matches are distributed among these distances:
39 1 0.02
40 47 0.82
41 5 0.09
42 4 0.07
ACGTcount: A:0.53, C:0.04, G:0.19, T:0.24
Consensus pattern (40 bp):
AAGTAAAAGAAGTAATCAGTAAAATGATAATTAAGAGTAG
Found at i:86330 original size:17 final size:18
Alignment explanation
Indices: 86303--86339 Score: 58
Period size: 17 Copynumber: 2.1 Consensus size: 18
86293 AGTAATCAGT
86303 AAATCGGTAAAGAGCAAA
1 AAATCGGTAAAGAGCAAA
*
86321 AAAT-GGTAAAGAGTAAA
1 AAATCGGTAAAGAGCAAA
86338 AA
1 AA
86340 GGTAATCAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 14 0.78
18 4 0.22
ACGTcount: A:0.59, C:0.05, G:0.22, T:0.14
Consensus pattern (18 bp):
AAATCGGTAAAGAGCAAA
Found at i:86449 original size:21 final size:21
Alignment explanation
Indices: 86425--86506 Score: 103
Period size: 21 Copynumber: 3.9 Consensus size: 21
86415 CAGTAAAAGG
*
86425 TAATCAGTAAGAGTAAAACAA
1 TAATCAGTAAGAGTAAAATAA
* * *
86446 TAATCAGTAAGAGCAAAGTGA
1 TAATCAGTAAGAGTAAAATAA
86467 TAATTC-GTAAGAGTAAAATAA
1 TAA-TCAGTAAGAGTAAAATAA
86488 TAATCAGTAAAGAGTAAAA
1 TAATCAGT-AAGAGTAAAA
86507 GGGTGATCAG
Statistics
Matches: 51, Mismatches: 7, Indels: 5
0.81 0.11 0.08
Matches are distributed among these distances:
20 2 0.04
21 37 0.73
22 12 0.24
ACGTcount: A:0.54, C:0.07, G:0.17, T:0.22
Consensus pattern (21 bp):
TAATCAGTAAGAGTAAAATAA
Found at i:91409 original size:1 final size:1
Alignment explanation
Indices: 91403--91433 Score: 62
Period size: 1 Copynumber: 31.0 Consensus size: 1
91393 TCTCCTAAGC
91403 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
91434 CTTTAAGCTT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 30 1.00
ACGTcount: A:1.00, C:0.00, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:93977 original size:21 final size:21
Alignment explanation
Indices: 93342--93977 Score: 517
Period size: 21 Copynumber: 30.4 Consensus size: 21
93332 ATATCTTTGG
*
93342 TTTGATAGTCAAATCCCAAAT
1 TTTGATAGTCAAACCCCAAAT
* * * *
93363 TTTGATAATTC-AACCACAGAG
1 TTTGAT-AGTCAAACCCCAAAT
** *
93384 TTTGATAGTTGAATCCCAAAT
1 TTTGATAGTCAAACCCCAAAT
* *
93405 TTTGATAGTAAAACCCCAAAC
1 TTTGATAGTCAAACCCCAAAT
*
93426 TTTGA-ATGTCAAACCCCAAAAG
1 TTTGATA-GTCAAACCCC-AAAT
*
93448 TTT-ATAGTCAAACCCCAAAA
1 TTTGATAGTCAAACCCCAAAT
* **
93468 TTTGATAGCCAAAATCCAAAT
1 TTTGATAGTCAAACCCCAAAT
* *
93489 TTTGATAGTTC-AACCACAAAG
1 TTTGATAG-TCAAACCCCAAAT
* * *
93510 TTTG-GAGTCAAACCCAAAAAG
1 TTTGATAGTCAAACCC-CAAAT
* * *
93531 CTT-ATAGTTAAATCCCAAAAT
1 TTTGATAGTCAAA-CCCCAAAT
* * *
93552 TTT-ATAATCAAACCTCAAAG
1 TTTGATAGTCAAACCCCAAAT
* *
93572 TTTGATAGCCAAATCCCAAAT
1 TTTGATAGTCAAACCCCAAAT
* *
93593 TTTGATAGTCAAACCCAAAAG
1 TTTGATAGTCAAACCCCAAAT
* * *
93614 TTTGATAGTAAAATCCTAAAT
1 TTTGATAGTCAAACCCCAAAT
93635 TTTGATAGTTC-AACCCCAAAT
1 TTTGATAG-TCAAACCCCAAAT
93656 TTTGATAGTCAAACCCCAAAT
1 TTTGATAGTCAAACCCCAAAT
*
93677 TTTGATAGTCAAACCCCAAAAG
1 TTTGATAGTCAAACCCC-AAAT
* * *
93699 CTT-ATAGTTAAATCCCAAAAT
1 TTTGATAGTCAAA-CCCCAAAT
* * *
93720 TTT-ATAATCAAACCTCAAAG
1 TTTGATAGTCAAACCCCAAAT
* *
93740 TTTGATAGCCAAATCCCAAAT
1 TTTGATAGTCAAACCCCAAAT
* *
93761 TTTGATAGCCAAATCCCAAAT
1 TTTGATAGTCAAACCCCAAAT
* *
93782 TTTGATAGTAAAATCCCAAAT
1 TTTGATAGTCAAACCCCAAAT
93803 TTTGATAGTTC-AACCCCAAAT
1 TTTGATAG-TCAAACCCCAAAT
* *
93824 TTTGGTAGTCAAACCCCAAAG
1 TTTGATAGTCAAACCCCAAAT
* **
93845 TTTGATAGCCAAATTCCAAAT
1 TTTGATAGTCAAACCCCAAAT
* * *
93866 TTTGATGGTTC-AACCACAAAG
1 TTTGATAG-TCAAACCCCAAAT
* *
93887 TTTG-GAGTCAAATCCCAAAT
1 TTTGATAGTCAAACCCCAAAT
*
93907 TTTGATAATCAAACCCCAAAT
1 TTTGATAGTCAAACCCCAAAT
*
93928 TTTGATAGTCAAACCCCAAAAG
1 TTTGATAGTCAAACCCC-AAAT
* *
93950 CTT-ATAGTCAAACCCCAAAA
1 TTTGATAGTCAAACCCCAAAT
*
93970 TTGGATAG
1 TTTGATAG
93978 CCAACACGTT
Statistics
Matches: 488, Mismatches: 103, Indels: 48
0.76 0.16 0.08
Matches are distributed among these distances:
19 4 0.01
20 51 0.10
21 403 0.83
22 30 0.06
ACGTcount: A:0.40, C:0.21, G:0.11, T:0.29
Consensus pattern (21 bp):
TTTGATAGTCAAACCCCAAAT
Found at i:94188 original size:2 final size:2
Alignment explanation
Indices: 94181--94222 Score: 50
Period size: 2 Copynumber: 21.5 Consensus size: 2
94171 ACTATCTAAG
* * *
94181 TA TA TA TA TA TA TA TG TA TA GA TA TA TA TA -A TA TA CA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
94222 T
1 T
94223 GTACACCTTT
Statistics
Matches: 33, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
1 1 0.03
2 32 0.97
ACGTcount: A:0.48, C:0.02, G:0.05, T:0.45
Consensus pattern (2 bp):
TA
Found at i:94277 original size:2 final size:2
Alignment explanation
Indices: 94272--94347 Score: 68
Period size: 2 Copynumber: 39.5 Consensus size: 2
94262 TACATACAAG
* *
94272 TA TA TA TA TA TA T- TA CA TA -A TA TA TA TG 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
* * * * *
94312 TA TA TA TA -A TA TT TA TA CA TA CA TA TG TA CA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
94348 TATGTAAAAA
Statistics
Matches: 57, Mismatches: 14, Indels: 6
0.74 0.18 0.08
Matches are distributed among these distances:
1 3 0.05
2 54 0.95
ACGTcount: A:0.46, C:0.05, G:0.03, T:0.46
Consensus pattern (2 bp):
TA
Found at i:94450 original size:23 final size:21
Alignment explanation
Indices: 94396--94455 Score: 59
Period size: 21 Copynumber: 2.8 Consensus size: 21
94386 TAAATTAATT
**
94396 AAAAATATATGTCT-TTGCAAA
1 AAAAATATAT-TCTCTTAAAAA
*
94417 AAAAATATATTTTCTTAAAAA
1 AAAAATATATTCTCTTAAAAA
94438 AAAAACTATTATTCTCTT
1 AAAAA-TA-TATTCTCTT
94456 TTATTTAATT
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
20 2 0.06
21 20 0.62
22 2 0.06
23 8 0.25
ACGTcount: A:0.48, C:0.10, G:0.03, T:0.38
Consensus pattern (21 bp):
AAAAATATATTCTCTTAAAAA
Found at i:94452 original size:21 final size:19
Alignment explanation
Indices: 94414--94452 Score: 51
Period size: 19 Copynumber: 1.9 Consensus size: 19
94404 ATGTCTTTGC
*
94414 AAAAAAAATATATTTTCTT
1 AAAAAAAAAATATTTTCTT
94433 AAAAAAAAAACTATTATTCT
1 AAAAAAAAAA-TATT-TTCT
94453 CTTTTATTTA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 9 0.53
20 4 0.24
21 4 0.24
ACGTcount: A:0.56, C:0.08, G:0.00, T:0.36
Consensus pattern (19 bp):
AAAAAAAAAATATTTTCTT
Found at i:97241 original size:20 final size:18
Alignment explanation
Indices: 97216--97260 Score: 54
Period size: 18 Copynumber: 2.4 Consensus size: 18
97206 ACATATGTTT
97216 TACTAATAAATAATAATATA
1 TACTAATAAAT-A-AATATA
* *
97236 TACTAACAAATAAATATT
1 TACTAATAAATAAATATA
97254 TACTAAT
1 TACTAAT
97261 TTTGCTTAAA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
18 11 0.50
19 1 0.05
20 10 0.45
ACGTcount: A:0.56, C:0.09, G:0.00, T:0.36
Consensus pattern (18 bp):
TACTAATAAATAAATATA
Found at i:98139 original size:2 final size:2
Alignment explanation
Indices: 98132--98157 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
98122 CATAAAAACC
98132 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
98158 TAAAACAGAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Done.