Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008824.1 Hibiscus syriacus cultivar Beakdansim tig00111996_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 4603428
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 8 of 19
Found at i:1680165 original size:113 final size:113
Alignment explanation
Indices: 1679948--1680360 Score: 688
Period size: 113 Copynumber: 3.7 Consensus size: 113
1679938 ATAGAGTCAT
* *
1679948 GCAAAAGGTTGAACAAGTTCTTCTCATTATGAATTTCTTCTTCC-TCTTCAGATGAGTTCTTCTC
1 GCAAAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAATTCTTCTC
* * * *
1680012 ATTATGAACT-TTCTCTGGAAATATTGATCCATCGAGTGATGAATTCAA
66 ATTATGAACTCTAC-CTGGCAATGTTGATCCATCGAGTGATGAATTCGA
* *
1680060 GCAAAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTTTTCCTTCTTCAGATGAATTATTCTC
1 GCAAAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAATTCTTCTC
*
1680125 ATTATGAACTCTACCTGGCAATGCTGATCCATCGAGTGATGAATTCGA
66 ATTATGAACTCTACCTGGCAATGTTGATCCATCGAGTGATGAATTCGA
*
1680173 GCAAAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTC
1 GCAAAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAATTCTTCTC
1680238 ATTATGAACTCTACCTGGCAATGTTGATCCATCGAGTGATGAATTCGA
66 ATTATGAACTCTACCTGGCAATGTTGATCCATCGAGTGATGAATTCGA
*
1680286 GCAAAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTATTCCTTCTTCAGAT-AAGTTCTTCT
1 GCAAAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAA-TTCTTCT
1680350 CATTATGAACT
65 CATTATGAACT
1680361 ATTTTTGGAA
Statistics
Matches: 283, Mismatches: 15, Indels: 5
0.93 0.05 0.02
Matches are distributed among these distances:
112 43 0.15
113 238 0.84
114 2 0.01
ACGTcount: A:0.27, C:0.20, G:0.15, T:0.38
Consensus pattern (113 bp):
GCAAAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAATTCTTCTC
ATTATGAACTCTACCTGGCAATGTTGATCCATCGAGTGATGAATTCGA
Found at i:1681256 original size:54 final size:54
Alignment explanation
Indices: 1681160--1681321 Score: 180
Period size: 54 Copynumber: 3.0 Consensus size: 54
1681150 AGAATAACTG
* * * * * *
1681160 GTTCATAAAACATTTGAAAACATATTCATCATCTCATGTGGTTTCTGCTCAGAT
1 GTTCATAAAACATTTGACAACACATTCATCCTTTTATGTGGTTTCTGCACAGAT
* * * *
1681214 GTTCATAAAACATTTGACAACACACTCATCCTTTTTTATGGTTTATGCACAGAT
1 GTTCATAAAACATTTGACAACACATTCATCCTTTTATGTGGTTTCTGCACAGAT
** * ** *
1681268 GTTTGTAAAGCATTTGACAATGCATTCATTCTTTTATGTGGTTTCTGCACAGAT
1 GTTCATAAAACATTTGACAACACATTCATCCTTTTATGTGGTTTCTGCACAGAT
1681322 TTCTGGTCAG
Statistics
Matches: 88, Mismatches: 20, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
54 88 1.00
ACGTcount: A:0.29, C:0.18, G:0.14, T:0.39
Consensus pattern (54 bp):
GTTCATAAAACATTTGACAACACATTCATCCTTTTATGTGGTTTCTGCACAGAT
Found at i:1685669 original size:72 final size:72
Alignment explanation
Indices: 1685552--1685686 Score: 243
Period size: 72 Copynumber: 1.9 Consensus size: 72
1685542 TATAATAGGT
1685552 TAGCTAAATATTATCCATAAAGCCGGGGCGATTAACCAATTGCTTTAGGGGGAAAACTCAAGCAT
1 TAGCTAAATATTATCCATAAAGCCGGGGCGATTAACCAATTGCTTTAGGGGGAAAACTCAAGCAT
1685617 AACAAAC
66 AACAAAC
* * *
1685624 TAGCTGAATATTATCCATAAAGCCGGGGCTATTAACCAATTGCTTTAGGGGGACAACTCAAGC
1 TAGCTAAATATTATCCATAAAGCCGGGGCGATTAACCAATTGCTTTAGGGGGAAAACTCAAGC
1685687 TTTATTATAT
Statistics
Matches: 60, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
72 60 1.00
ACGTcount: A:0.36, C:0.20, G:0.21, T:0.24
Consensus pattern (72 bp):
TAGCTAAATATTATCCATAAAGCCGGGGCGATTAACCAATTGCTTTAGGGGGAAAACTCAAGCAT
AACAAAC
Found at i:1688210 original size:43 final size:44
Alignment explanation
Indices: 1688139--1688225 Score: 131
Period size: 43 Copynumber: 2.0 Consensus size: 44
1688129 ATGTGCATCA
1688139 AACAAAACTTTTACATACAGGGGATAACTTTCAGTCCTAACTTC
1 AACAAAACTTTTACATACAGGGGATAACTTTCAGTCCTAACTTC
* * **
1688183 AACAAAAC-TTTATATATAGGGGATAACTTTCCTTCCTAACTTC
1 AACAAAACTTTTACATACAGGGGATAACTTTCAGTCCTAACTTC
1688226 TCTAAAGCCA
Statistics
Matches: 39, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
43 31 0.79
44 8 0.21
ACGTcount: A:0.36, C:0.22, G:0.10, T:0.32
Consensus pattern (44 bp):
AACAAAACTTTTACATACAGGGGATAACTTTCAGTCCTAACTTC
Found at i:1689574 original size:31 final size:28
Alignment explanation
Indices: 1689539--1689595 Score: 69
Period size: 31 Copynumber: 1.9 Consensus size: 28
1689529 AAAACAATTA
1689539 ATAAAGAAGAATATAAAAATATTATGAAAAC
1 ATAAAGAAGAATA-AAAAA-ATT-TGAAAAC
* *
1689570 ATAAATAATAATAAAAAAATTTGAAA
1 ATAAAGAAGAATAAAAAAATTTGAAA
1689596 GAAAAGAATT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
28 5 0.21
29 3 0.12
30 5 0.21
31 11 0.46
ACGTcount: A:0.67, C:0.02, G:0.07, T:0.25
Consensus pattern (28 bp):
ATAAAGAAGAATAAAAAAATTTGAAAAC
Found at i:1690966 original size:2 final size:2
Alignment explanation
Indices: 1690959--1690987 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
1690949 AAACCTAAGT
1690959 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1690988 CATTTTTTCT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:1699970 original size:21 final size:21
Alignment explanation
Indices: 1699945--1700021 Score: 102
Period size: 21 Copynumber: 3.6 Consensus size: 21
1699935 TTTTTGTAAG
1699945 AGTACTTTGTGTACTTGGAGT
1 AGTACTTTGTGTACTTGGAGT
*
1699966 AGTACTTTATGTACTATGGAAAG-
1 AGTACTTTGTGTACT-TGG--AGT
*
1699989 AGTACTTTGTGTACTTGTAGT
1 AGTACTTTGTGTACTTGGAGT
1700010 AGTACTTTGTGT
1 AGTACTTTGTGT
1700022 GCTTTGGCAC
Statistics
Matches: 49, Mismatches: 3, Indels: 8
0.82 0.05 0.13
Matches are distributed among these distances:
20 2 0.04
21 26 0.53
22 5 0.10
23 14 0.29
24 2 0.04
ACGTcount: A:0.23, C:0.09, G:0.25, T:0.43
Consensus pattern (21 bp):
AGTACTTTGTGTACTTGGAGT
Found at i:1706357 original size:31 final size:31
Alignment explanation
Indices: 1706314--1706378 Score: 112
Period size: 31 Copynumber: 2.1 Consensus size: 31
1706304 TATGATATGA
* *
1706314 TCACTTTTATTTTTATTTAATTAAGATGTGG
1 TCACTTTCATTTTTATTTAATTAAAATGTGG
1706345 TCACTTTCATTTTTATTTAATTAAAATGTGG
1 TCACTTTCATTTTTATTTAATTAAAATGTGG
1706376 TCA
1 TCA
1706379 TCACATGTTA
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.28, C:0.09, G:0.11, T:0.52
Consensus pattern (31 bp):
TCACTTTCATTTTTATTTAATTAAAATGTGG
Found at i:1706528 original size:20 final size:21
Alignment explanation
Indices: 1706497--1706544 Score: 55
Period size: 21 Copynumber: 2.4 Consensus size: 21
1706487 TTAAATAAAA
* *
1706497 TTTAACAT-AAAATATA-TAT
1 TTTAAAATGAAAATAAATTAT
*
1706516 TTTTAAATGAAAATAAATTAT
1 TTTAAAATGAAAATAAATTAT
1706537 TTTAAAAT
1 TTTAAAAT
1706545 TAAGTTAATA
Statistics
Matches: 23, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
19 6 0.26
20 7 0.30
21 10 0.43
ACGTcount: A:0.52, C:0.02, G:0.02, T:0.44
Consensus pattern (21 bp):
TTTAAAATGAAAATAAATTAT
Found at i:1706539 original size:21 final size:19
Alignment explanation
Indices: 1706497--1706544 Score: 51
Period size: 20 Copynumber: 2.4 Consensus size: 19
1706487 TTAAATAAAA
*
1706497 TTTAACATAAAATATATATT
1 TTTAA-ATAAAATAAATATT
1706517 TTTAAATGAAAATAAATTATT
1 TTTAAAT-AAAATAAA-TATT
*
1706538 TTAAAAT
1 TTTAAAT
1706545 TAAGTTAATA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
19 2 0.08
20 12 0.50
21 10 0.42
ACGTcount: A:0.52, C:0.02, G:0.02, T:0.44
Consensus pattern (19 bp):
TTTAAATAAAATAAATATT
Found at i:1715254 original size:59 final size:59
Alignment explanation
Indices: 1715162--1715282 Score: 170
Period size: 59 Copynumber: 2.1 Consensus size: 59
1715152 AATAGATGGA
* *
1715162 TAAGTGTCCTATAGAACCCTCCTGGTCACAATGAAAAGGCAAACTCAATAATATGGCTC
1 TAAGTGTCCTATAGAACCCTCCTAGTCACAATGAAAAGGAAAACTCAATAATATGGCTC
* * ** **
1715221 TAAGTGTCTTATCGAACCCTCCTAGTTGCAATGAAAAGGAAAACTTGATAATATGGCTC
1 TAAGTGTCCTATAGAACCCTCCTAGTCACAATGAAAAGGAAAACTCAATAATATGGCTC
1715280 TAA
1 TAA
1715283 CCAACCCTCC
Statistics
Matches: 54, Mismatches: 8, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
59 54 1.00
ACGTcount: A:0.36, C:0.21, G:0.17, T:0.26
Consensus pattern (59 bp):
TAAGTGTCCTATAGAACCCTCCTAGTCACAATGAAAAGGAAAACTCAATAATATGGCTC
Found at i:1718369 original size:20 final size:21
Alignment explanation
Indices: 1718346--1718398 Score: 65
Period size: 20 Copynumber: 2.6 Consensus size: 21
1718336 TAAGCCCTGA
*
1718346 GTATCGATACCATATGAA-CG
1 GTATCGATACCATAAGAATCG
*
1718366 GTATCGATACTC-TAAGAATGG
1 GTATCGATAC-CATAAGAATCG
1718387 GTATCGATACCA
1 GTATCGATACCA
1718399 CCTAAAAAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
20 16 0.57
21 12 0.43
ACGTcount: A:0.34, C:0.19, G:0.21, T:0.26
Consensus pattern (21 bp):
GTATCGATACCATAAGAATCG
Found at i:1722281 original size:3 final size:3
Alignment explanation
Indices: 1722273--1722392 Score: 61
Period size: 3 Copynumber: 38.3 Consensus size: 3
1722263 TTGTTTATAT
*
1722273 TTA TTA TTA TTAA TTA TTAA TTA TTA GTA TTA TATA TTCA CTTA -TA
1 TTA TTA TTA TT-A TTA TT-A TTA TTA TTA TTA T-TA TT-A -TTA TTA
* * * * *
1722319 TTA -TA TTA ATA -TA TTA -TA TATA TTG TTA TTA CTA -TA TACA ATA
1 TTA TTA TTA TTA TTA TTA TTA T-TA TTA TTA TTA TTA TTA T-TA TTA
1722362 TTA TTA TTA TATA TTA TATA TTTA TTA TTA T
1 TTA TTA TTA T-TA TTA T-TA -TTA TTA TTA T
1722393 CAATGTTATT
Statistics
Matches: 92, Mismatches: 10, Indels: 30
0.70 0.08 0.23
Matches are distributed among these distances:
2 10 0.11
3 57 0.62
4 22 0.24
5 3 0.03
ACGTcount: A:0.38, C:0.03, G:0.02, T:0.57
Consensus pattern (3 bp):
TTA
Found at i:1722310 original size:7 final size:7
Alignment explanation
Indices: 1722267--1722392 Score: 60
Period size: 7 Copynumber: 18.6 Consensus size: 7
1722257 TAATTTTTGT
1722267 TTATAT-
1 TTATATA
1722273 TTAT-TA
1 TTATATA
1722279 TTAT-TAA
1 TTATAT-A
1722286 TTAT-TAA
1 TTATAT-A
1722293 TTATTAGTA
1 TTA-TA-TA
1722302 TTATATA
1 TTATATA
1722309 TTCACTTATA
1 TT-A--TATA
1722319 TTATAT-
1 TTATATA
*
1722325 TAATATA
1 TTATATA
1722332 TTATATA
1 TTATATA
*
1722339 -TAT-TG
1 TTATATA
1722344 TTAT-TA
1 TTATATA
*
1722350 CTATATA
1 TTATATA
*
1722357 -CA-ATA
1 TTATATA
1722362 TTAT-TA
1 TTATATA
1722368 TTATATA
1 TTATATA
1722375 TTATATA
1 TTATATA
1722382 TT-TATTA
1 TTATA-TA
1722389 TTAT
1 TTAT
1722393 CAATGTTATT
Statistics
Matches: 97, Mismatches: 7, Indels: 30
0.72 0.05 0.22
Matches are distributed among these distances:
5 5 0.05
6 34 0.35
7 41 0.42
8 5 0.05
9 5 0.05
10 7 0.07
ACGTcount: A:0.38, C:0.03, G:0.02, T:0.57
Consensus pattern (7 bp):
TTATATA
Found at i:1722348 original size:23 final size:23
Alignment explanation
Indices: 1722267--1722391 Score: 117
Period size: 21 Copynumber: 5.8 Consensus size: 23
1722257 TAATTTTTGT
*
1722267 TTATATTTATTATTATTAAT-TA
1 TTATATATATTATTATTAATATA
*
1722289 TTA-AT-TATTAGTATT-ATATA
1 TTATATATATTATTATTAATATA
1722309 TTCACT-TATATTA-TATTAATATA
1 TT-A-TATATATTATTATTAATATA
* *
1722332 TTATATATATTGTTATTACTATA
1 TTATATATATTATTATTAATATA
*
1722355 -TACA-ATATTATTATT-ATATA
1 TTATATATATTATTATTAATATA
1722375 TTATATAT-TTATTATTA
1 TTATATATATTATTATTA
1722392 TCAATGTTAT
Statistics
Matches: 85, Mismatches: 7, Indels: 22
0.75 0.06 0.19
Matches are distributed among these distances:
19 2 0.02
20 17 0.20
21 25 0.29
22 20 0.24
23 21 0.25
ACGTcount: A:0.38, C:0.03, G:0.02, T:0.57
Consensus pattern (23 bp):
TTATATATATTATTATTAATATA
Found at i:1724093 original size:16 final size:17
Alignment explanation
Indices: 1724072--1724107 Score: 56
Period size: 16 Copynumber: 2.2 Consensus size: 17
1724062 AACTTCTTTT
1724072 AAAACAATTTTAAGA-A
1 AAAACAATTTTAAGACA
*
1724088 AAAACATTTTTAAGACA
1 AAAACAATTTTAAGACA
1724105 AAA
1 AAA
1724108 TTGGTCTGCG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 14 0.78
17 4 0.22
ACGTcount: A:0.61, C:0.08, G:0.06, T:0.25
Consensus pattern (17 bp):
AAAACAATTTTAAGACA
Found at i:1724733 original size:5 final size:5
Alignment explanation
Indices: 1724723--1724766 Score: 56
Period size: 5 Copynumber: 9.2 Consensus size: 5
1724713 TGGGCATTTT
* *
1724723 ATAAA ATAAA AT-AA AT-AA CTAAA ATCAA ATAAA ATAAA ATAAA A
1 ATAAA ATAAA ATAAA ATAAA ATAAA ATAAA ATAAA ATAAA ATAAA A
1724767 ATTAGTAATA
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
4 7 0.21
5 27 0.79
ACGTcount: A:0.75, C:0.05, G:0.00, T:0.20
Consensus pattern (5 bp):
ATAAA
Found at i:1724881 original size:3 final size:3
Alignment explanation
Indices: 1724875--1724903 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
1724865 ACAAAGACCA
1724875 AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1724904 AACATATATA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:1726767 original size:100 final size:100
Alignment explanation
Indices: 1726459--1726849 Score: 407
Period size: 100 Copynumber: 3.9 Consensus size: 100
1726449 GTGAGATAAA
*
1726459 ATTTTGTTTCTAGTGAAACAATTTCAAAATTT-ACGTTTCAAGGGAAAACTATCTCAAGCGAGA-
1 ATTTTGTTTCAAGTGAAACAATTTCAAAATTTGA-GTTTCAAGGGAAAACTATCTCAAGCGAGAC
** *
1726522 TGAATTTTTTTA-AGAAAACAATATCAAGTGAAATC
65 AAAATTTTTTTAGAGAAAACAATCTCAAGTGAAATC
* * * * *
1726557 AATTCTGTTTTAAGTGAAACAATTTTCAAAATTTGAGTTTCGAGGGAAAACTATATCAAGCGATA
1 -ATTTTGTTTCAAGTGAAACAA-TTTCAAAATTTGAGTTTCAAGGGAAAACTATCTCAAGCGAGA
* * *
1726622 CGAAATTTATTTTTAG-GAAAACAATCTCAAGTGACATTA
64 C-AAAATT-TTTTTAGAGAAAACAATCTCAAGTGA-AATC
* *
1726661 ATTTTGTTTCAAGTGAAACAATTTCAAAA-TTGGGCTTCAAGGG-AAACTATCTCAAGCGAGACA
1 ATTTTGTTTCAAGTGAAACAATTTCAAAATTTGAGTTTCAAGGGAAAACTATCTCAAGCGAGACA
** * *
1726724 AAACTTGTTTCGAGAGAAAACAATCTCAAGCGAGATC
66 AAA-TT-TTTTTAGAGAAAACAATCTCAAGTGAAATC
* * * * * * * **
1726761 ATTTTGTTTCAAGTGAAACAATTTCAAAATTTGTGTTTCGAGGGAAAATTGTCTCAAACTATAGG
1 ATTTTGTTTCAAGTGAAACAATTTCAAAATTTGAGTTTCAAGGGAAAACTATCTCAAGCGAGACA
1726826 AAATTTTGTTTAGAGAGAAACAAT
66 AAATTTT-TTTAGAGA-AAACAAT
1726850 AGCAAAGGTT
Statistics
Matches: 240, Mismatches: 39, Indels: 23
0.79 0.13 0.08
Matches are distributed among these distances:
99 21 0.09
100 93 0.39
101 48 0.20
102 34 0.14
103 42 0.17
104 2 0.01
ACGTcount: A:0.39, C:0.13, G:0.17, T:0.32
Consensus pattern (100 bp):
ATTTTGTTTCAAGTGAAACAATTTCAAAATTTGAGTTTCAAGGGAAAACTATCTCAAGCGAGACA
AAATTTTTTTAGAGAAAACAATCTCAAGTGAAATC
Found at i:1726902 original size:36 final size:35
Alignment explanation
Indices: 1726862--1727080 Score: 154
Period size: 36 Copynumber: 6.4 Consensus size: 35
1726852 CAAAGGTTTA
*
1726862 TGTTTCAAGAGAAACTGTCTCAAGCGAGACAAAATT
1 TGTTTCAAGAGAAACTATCTCAAG-GAGACAAAATT
* * ***
1726898 TGTTTCAAAAGAAACAATCTCAA--AG--GTTA-T
1 TGTTTCAAGAGAAACTATCTCAAGGAGACAAAATT
* * * *
1726928 TGTTTCAATAGAAAATATCTTAGGAGAGACAAAATT
1 TGTTTCAAGAGAAACTATCTCAAG-GAGACAAAATT
* *
1726964 TGTTTCAATAGAAACTTTCTCAAGGGAGACAAAATT
1 TGTTTCAAGAGAAACTATCTCAA-GGAGACAAAATT
* * **
1727000 TGTTTCAAGAGAAACAATTTCAA--AG----GTTT
1 TGTTTCAAGAGAAACTATCTCAAGGAGACAAAATT
* *
1727029 ATGTTTCAAGAGAAACTTTCTCAAACGAGACAAAATT
1 -TGTTTCAAGAGAAACTATCTC-AAGGAGACAAAATT
1727066 TGTTTCAAGAGAAAC
1 TGTTTCAAGAGAAAC
1727081 AACCTCAAAG
Statistics
Matches: 139, Mismatches: 29, Indels: 30
0.70 0.15 0.15
Matches are distributed among these distances:
29 2 0.01
30 37 0.27
31 3 0.02
33 8 0.06
35 1 0.01
36 85 0.61
37 3 0.02
ACGTcount: A:0.41, C:0.13, G:0.16, T:0.29
Consensus pattern (35 bp):
TGTTTCAAGAGAAACTATCTCAAGGAGACAAAATT
Found at i:1726985 original size:102 final size:102
Alignment explanation
Indices: 1726862--1727080 Score: 316
Period size: 102 Copynumber: 2.1 Consensus size: 102
1726852 CAAAGGTTTA
1726862 TGTTTCAAGAGAAACTGTCTCAAGCGAGACAAAATTTGTTTCAAAAGAAACAATCTCAAAGG-TT
1 TGTTTCAAGAGAAACTGTCTCAAGCGAGACAAAATTTGTTTCAAAAGAAACAATCTCAAAGGTTT
* * *
1726926 ATTGTTTCAATAGAAAATATCTTAGGA-GAGACAAAATT
66 A-TGTTTCAAGAGAAAATATCTCA-AACGAGACAAAATT
* * * * *
1726964 TGTTTCAATAGAAACTTTCTCAAGGGAGACAAAATTTGTTTCAAGAGAAACAATTTCAAAGGTTT
1 TGTTTCAAGAGAAACTGTCTCAAGCGAGACAAAATTTGTTTCAAAAGAAACAATCTCAAAGGTTT
* *
1727029 ATGTTTCAAGAGAAACTTTCTCAAACGAGACAAAATT
66 ATGTTTCAAGAGAAAATATCTCAAACGAGACAAAATT
1727066 TGTTTCAAGAGAAAC
1 TGTTTCAAGAGAAAC
1727081 AACCTCAAAG
Statistics
Matches: 104, Mismatches: 11, Indels: 4
0.87 0.09 0.03
Matches are distributed among these distances:
101 1 0.01
102 100 0.96
103 3 0.03
ACGTcount: A:0.41, C:0.13, G:0.16, T:0.29
Consensus pattern (102 bp):
TGTTTCAAGAGAAACTGTCTCAAGCGAGACAAAATTTGTTTCAAAAGAAACAATCTCAAAGGTTT
ATGTTTCAAGAGAAAATATCTCAAACGAGACAAAATT
Found at i:1726986 original size:66 final size:66
Alignment explanation
Indices: 1726841--1726978 Score: 179
Period size: 66 Copynumber: 2.1 Consensus size: 66
1726831 TTGTTTAGAG
** * * *
1726841 AGAAACAATAGCAAAGGTTTATGTTTCAAGAGAAACTGTCTCAAGCGAGACAAAATTTGTTTCAA
1 AGAAACAATCTCAAAGGTTTATGTTTCAAGAGAAAATATCTCAAGAGAGACAAAATTTGTTTCAA
1726906 A
66 A
* * *
1726907 AGAAACAATCTCAAAGG-TTATTGTTTCAATAGAAAATATCTTAGGAGAGACAAAATTTGTTTCA
1 AGAAACAATCTCAAAGGTTTA-TGTTTCAAGAGAAAATATCTCAAGAGAGACAAAATTTGTTTCA
*
1726971 AT
65 AA
1726973 AGAAAC
1 AGAAAC
1726979 TTTCTCAAGG
Statistics
Matches: 62, Mismatches: 9, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
65 3 0.05
66 59 0.95
ACGTcount: A:0.43, C:0.12, G:0.17, T:0.28
Consensus pattern (66 bp):
AGAAACAATCTCAAAGGTTTATGTTTCAAGAGAAAATATCTCAAGAGAGACAAAATTTGTTTCAA
A
Found at i:1727034 original size:66 final size:66
Alignment explanation
Indices: 1726964--1727165 Score: 287
Period size: 66 Copynumber: 3.1 Consensus size: 66
1726954 AGACAAAATT
* * *
1726964 TGTTTCAATAGAAACTTTCTCAAGGGAGACAAAATTTGTTTCAAGAGAAACAATTTCAAAGGTTT
1 TGTTTCAAGAGAAACTTTCTCAAGCGAGACAAAATTTGTTTCAAGAGAAACAATCTCAAAGGTTT
1727029 A
66 A
* * *
1727030 TGTTTCAAGAGAAACTTTCTCAAACGAGACAAAATTTGTTTCAAGAGAAACAACCTCAAAGGTTC
1 TGTTTCAAGAGAAACTTTCTCAAGCGAGACAAAATTTGTTTCAAGAGAAACAATCTCAAAGGTTT
1727095 A
66 A
* * ** * * *
1727096 TTTTTCAAGATAAACTACCTCAAGCGAAACAAACTTTATTTCAAGAGAAACAATCTCAAAGGTTT
1 TGTTTCAAGAGAAACTTTCTCAAGCGAGACAAAATTTGTTTCAAGAGAAACAATCTCAAAGGTTT
1727161 A
66 A
1727162 TGTT
1 TGTT
1727166 GTTGGGAACG
Statistics
Matches: 119, Mismatches: 17, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
66 119 1.00
ACGTcount: A:0.40, C:0.16, G:0.14, T:0.30
Consensus pattern (66 bp):
TGTTTCAAGAGAAACTTTCTCAAGCGAGACAAAATTTGTTTCAAGAGAAACAATCTCAAAGGTTT
A
Found at i:1727088 original size:36 final size:36
Alignment explanation
Indices: 1727030--1727155 Score: 95
Period size: 36 Copynumber: 3.7 Consensus size: 36
1727020 CAAAGGTTTA
***
1727030 TGTTTCAAGAGAAACTTTCTCAAACGAGACAAAATT
1 TGTTTCAAGAGAAACAACCTCAAACGAGACAAAATT
*
1727066 TGTTTCAAGAGAAACAACCTCAAA-G-GTTC---A-T
1 TGTTTCAAGAGAAACAACCTCAAACGAG-ACAAAATT
* * * * *
1727097 T-TTTCAAGATAAACTACCTCAAGCGAAACAAACTT
1 TGTTTCAAGAGAAACAACCTCAAACGAGACAAAATT
* *
1727132 TATTTCAAGAGAAACAATCTCAAA
1 TGTTTCAAGAGAAACAACCTCAAA
1727156 GGTTTATGTT
Statistics
Matches: 68, Mismatches: 14, Indels: 16
0.69 0.14 0.16
Matches are distributed among these distances:
30 19 0.28
31 4 0.06
32 1 0.01
34 1 0.01
35 4 0.06
36 39 0.57
ACGTcount: A:0.43, C:0.19, G:0.12, T:0.26
Consensus pattern (36 bp):
TGTTTCAAGAGAAACAACCTCAAACGAGACAAAATT
Found at i:1728151 original size:18 final size:18
Alignment explanation
Indices: 1728124--1728163 Score: 71
Period size: 18 Copynumber: 2.2 Consensus size: 18
1728114 GGATCATATT
*
1728124 CAACTGCATCAAAACATA
1 CAACTACATCAAAACATA
1728142 CAACTACATCAAAACATA
1 CAACTACATCAAAACATA
1728160 CAAC
1 CAAC
1728164 AATATTTGTT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.53, C:0.30, G:0.03, T:0.15
Consensus pattern (18 bp):
CAACTACATCAAAACATA
Found at i:1733327 original size:3 final size:3
Alignment explanation
Indices: 1733321--1733364 Score: 79
Period size: 3 Copynumber: 14.7 Consensus size: 3
1733311 ACAAAGACCA
*
1733321 AAT AAT AGT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1733365 ACATACTTAT
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 39 1.00
ACGTcount: A:0.66, C:0.00, G:0.02, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:1737397 original size:11 final size:11
Alignment explanation
Indices: 1737381--1737407 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
1737371 AAGTGAAGAA
1737381 AGGAGGAGAGG
1 AGGAGGAGAGG
1737392 AGGAGGAGAGG
1 AGGAGGAGAGG
1737403 AGGAG
1 AGGAG
1737408 AGGAGAATCA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.37, C:0.00, G:0.63, T:0.00
Consensus pattern (11 bp):
AGGAGGAGAGG
Found at i:1738069 original size:21 final size:21
Alignment explanation
Indices: 1738043--1738090 Score: 78
Period size: 21 Copynumber: 2.3 Consensus size: 21
1738033 CCTAATATTG
*
1738043 CAATGTCAAAATTAGGTGTAA
1 CAATGTCAAAATTAGGTGCAA
1738064 CAATGTCAAAATTAGGTGCAA
1 CAATGTCAAAATTAGGTGCAA
*
1738085 TAATGT
1 CAATGT
1738091 TTGAAAATTA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.42, C:0.10, G:0.19, T:0.29
Consensus pattern (21 bp):
CAATGTCAAAATTAGGTGCAA
Found at i:1742457 original size:20 final size:20
Alignment explanation
Indices: 1742432--1742472 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
1742422 GTACCATTTC
1742432 ATTCGTGAAAAGGTGGAAGA
1 ATTCGTGAAAAGGTGGAAGA
1742452 ATTCGTGAAAAGGTGGAAGA
1 ATTCGTGAAAAGGTGGAAGA
1742472 A
1 A
1742473 AGAACGGTAG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.41, C:0.05, G:0.34, T:0.20
Consensus pattern (20 bp):
ATTCGTGAAAAGGTGGAAGA
Found at i:1742741 original size:21 final size:21
Alignment explanation
Indices: 1742716--1742763 Score: 78
Period size: 21 Copynumber: 2.3 Consensus size: 21
1742706 CCTAATATTG
*
1742716 CAATGTCAAAATTATGTGCAA
1 CAATGTCAAAATTAGGTGCAA
1742737 CAATGTCAAAATTAGGTGCAA
1 CAATGTCAAAATTAGGTGCAA
*
1742758 TAATGT
1 CAATGT
1742764 TTAAAAATTA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.42, C:0.12, G:0.17, T:0.29
Consensus pattern (21 bp):
CAATGTCAAAATTAGGTGCAA
Found at i:1743441 original size:29 final size:28
Alignment explanation
Indices: 1743397--1743451 Score: 74
Period size: 29 Copynumber: 1.9 Consensus size: 28
1743387 TATCACCCTA
* * *
1743397 TTTTTCTAATATTTTCGATGTAACACTG
1 TTTTTCCAATATTTTCAAAGTAACACTG
1743425 TTTTTCCAATATTTTTCAAAGTAACAC
1 TTTTTCCAATA-TTTTCAAAGTAACAC
1743452 CTATTCGGTT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
28 10 0.43
29 13 0.57
ACGTcount: A:0.29, C:0.16, G:0.07, T:0.47
Consensus pattern (28 bp):
TTTTTCCAATATTTTCAAAGTAACACTG
Found at i:1744094 original size:3 final size:3
Alignment explanation
Indices: 1744088--1744128 Score: 55
Period size: 3 Copynumber: 13.7 Consensus size: 3
1744078 ACAAAGACCA
* * *
1744088 AAT AAT AGT AAT AAG AAT AAT AAC AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1744129 ACATACATAA
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.66, C:0.02, G:0.05, T:0.27
Consensus pattern (3 bp):
AAT
Found at i:1749097 original size:44 final size:42
Alignment explanation
Indices: 1748995--1749114 Score: 143
Period size: 42 Copynumber: 2.8 Consensus size: 42
1748985 GGGTACATGT
* *
1748995 CCAGCCCACCAGTTCAGATGCCATCTCCGCAAGGGTATATAC
1 CCAGCCCACCAGTTCATATGTCATCTCCGCAAGGGTATATAC
* * * *
1749037 CCAACCCACCAATTCATATTTCATCTCCG-TAGGAGTATATATGC
1 CCAGCCCACCAGTTCATATGTCATCTCCGCAAGG-GTATATA--C
*
1749081 CCAGCCCACCAGTTCATATGTCATCTCTGCAAGG
1 CCAGCCCACCAGTTCATATGTCATCTCCGCAAGG
1749115 TTACATTCCT
Statistics
Matches: 63, Mismatches: 11, Indels: 5
0.80 0.14 0.06
Matches are distributed among these distances:
41 3 0.05
42 31 0.49
44 26 0.41
45 3 0.05
ACGTcount: A:0.27, C:0.33, G:0.16, T:0.24
Consensus pattern (42 bp):
CCAGCCCACCAGTTCATATGTCATCTCCGCAAGGGTATATAC
Found at i:1749135 original size:21 final size:21
Alignment explanation
Indices: 1749109--1749158 Score: 82
Period size: 21 Copynumber: 2.4 Consensus size: 21
1749099 TGTCATCTCT
1749109 GCAAGGTTACATTCCTAGCCC
1 GCAAGGTTACATTCCTAGCCC
*
1749130 GCAAGGTTATATTCCTAGCCC
1 GCAAGGTTACATTCCTAGCCC
*
1749151 GCAGGGTT
1 GCAAGGTT
1749159 TTATGACACC
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.22, C:0.28, G:0.24, T:0.26
Consensus pattern (21 bp):
GCAAGGTTACATTCCTAGCCC
Found at i:1749907 original size:21 final size:21
Alignment explanation
Indices: 1749883--1749922 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
1749873 TTTAAACTTT
1749883 AAATAATAATTAATATATTTG
1 AAATAATAATTAATATATTTG
*
1749904 AAATAATATTTAATATATT
1 AAATAATAATTAATATATT
1749923 CGAATGACTG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.53, C:0.00, G:0.03, T:0.45
Consensus pattern (21 bp):
AAATAATAATTAATATATTTG
Found at i:1750190 original size:11 final size:11
Alignment explanation
Indices: 1750174--1750199 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
1750164 GTGAATATTG
1750174 CCCCGCCACAA
1 CCCCGCCACAA
1750185 CCCCGCCACAA
1 CCCCGCCACAA
1750196 CCCC
1 CCCC
1750200 ATGTATTGAT
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:0.69, G:0.08, T:0.00
Consensus pattern (11 bp):
CCCCGCCACAA
Found at i:1754209 original size:21 final size:20
Alignment explanation
Indices: 1754171--1754208 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
1754161 TTTAGTTTTT
*
1754171 TCTTTGGTTTAAATCCCCTC
1 TCTTTGGTTCAAATCCCCTC
*
1754191 TCTTTTGTTCAAATCCCC
1 TCTTTGGTTCAAATCCCC
1754209 CCGCTTTTTA
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:0.16, C:0.32, G:0.08, T:0.45
Consensus pattern (20 bp):
TCTTTGGTTCAAATCCCCTC
Found at i:1754753 original size:3 final size:3
Alignment explanation
Indices: 1754745--1754775 Score: 62
Period size: 3 Copynumber: 10.3 Consensus size: 3
1754735 TTATTTATAA
1754745 TAG TAG TAG TAG TAG TAG TAG TAG TAG TAG T
1 TAG TAG TAG TAG TAG TAG TAG TAG TAG TAG T
1754776 TAATAATAAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.32, C:0.00, G:0.32, T:0.35
Consensus pattern (3 bp):
TAG
Found at i:1755246 original size:20 final size:20
Alignment explanation
Indices: 1755223--1755261 Score: 78
Period size: 20 Copynumber: 1.9 Consensus size: 20
1755213 AGTCTGCTTC
1755223 TCTAAGGATGACACTGCTCG
1 TCTAAGGATGACACTGCTCG
1755243 TCTAAGGATGACACTGCTC
1 TCTAAGGATGACACTGCTC
1755262 CTTTGCTTCG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.26, C:0.26, G:0.23, T:0.26
Consensus pattern (20 bp):
TCTAAGGATGACACTGCTCG
Found at i:1758718 original size:16 final size:17
Alignment explanation
Indices: 1758690--1758722 Score: 59
Period size: 16 Copynumber: 2.0 Consensus size: 17
1758680 AATAGCAATC
1758690 CTACCCAGACATGCTTT
1 CTACCCAGACATGCTTT
1758707 CTACCC-GACATGCTTT
1 CTACCCAGACATGCTTT
1758723 ATTTTCAAGA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 10 0.62
17 6 0.38
ACGTcount: A:0.21, C:0.36, G:0.12, T:0.30
Consensus pattern (17 bp):
CTACCCAGACATGCTTT
Found at i:1760621 original size:14 final size:12
Alignment explanation
Indices: 1760575--1760621 Score: 51
Period size: 12 Copynumber: 3.7 Consensus size: 12
1760565 TTAAAAAGTC
1760575 AAATATACAAA-A
1 AAATATA-AAACA
1760587 AAATATAAAACA
1 AAATATAAAACA
1760599 AACATATAAAGACTA
1 AA-ATATAAA-AC-A
1760614 AAATATAA
1 AAATATAA
1760622 CATAATATAA
Statistics
Matches: 31, Mismatches: 0, Indels: 6
0.84 0.00 0.16
Matches are distributed among these distances:
11 3 0.10
12 10 0.32
13 7 0.23
14 8 0.26
15 3 0.10
ACGTcount: A:0.70, C:0.09, G:0.02, T:0.19
Consensus pattern (12 bp):
AAATATAAAACA
Found at i:1765661 original size:2 final size:2
Alignment explanation
Indices: 1765654--1765678 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
1765644 TCAATATACA
1765654 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
1765679 ATTTACGAAA
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:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:1765846 original size:85 final size:85
Alignment explanation
Indices: 1765701--1765863 Score: 202
Period size: 85 Copynumber: 1.9 Consensus size: 85
1765691 CAATCACGAC
* * * * * * *
1765701 ACACGAATGTGTGTCATCTTTTTTAATGATGTGTGCTTCAATGACACGCAATGTAAGTCATACAT
1 ACACAAATGTGTGTCATCTTATTTAATGACGGGGGCTTCAATGACACGCAATGCAAGTCATAAAT
*
1765766 GCGTGTCATAAATTTATGAA
66 GCGAGTCATAAATTTATGAA
* * **
1765786 ACACAAATGTGTGTCATCTTCATTT-ATGACGGGGGCTTCAATGACGCTCAATGCGCGTCATAAA
1 ACACAAATGTGTGTCATCTT-ATTTAATGACGGGGGCTTCAATGACACGCAATGCAAGTCATAAA
1765850 TGCGAGTCATAAAT
65 TGCGAGTCATAAAT
1765864 GCGTGTCATA
Statistics
Matches: 65, Mismatches: 12, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
85 62 0.95
86 3 0.05
ACGTcount: A:0.30, C:0.18, G:0.20, T:0.32
Consensus pattern (85 bp):
ACACAAATGTGTGTCATCTTATTTAATGACGGGGGCTTCAATGACACGCAATGCAAGTCATAAAT
GCGAGTCATAAATTTATGAA
Found at i:1765853 original size:13 final size:13
Alignment explanation
Indices: 1765835--1765886 Score: 86
Period size: 13 Copynumber: 4.0 Consensus size: 13
1765825 AATGACGCTC
1765835 AATGCGCGTCATA
1 AATGCGCGTCATA
*
1765848 AATGCGAGTCATA
1 AATGCGCGTCATA
*
1765861 AATGCGTGTCATA
1 AATGCGCGTCATA
1765874 AATGCGCGTCATA
1 AATGCGCGTCATA
1765887 GATTTATGAC
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
13 36 1.00
ACGTcount: A:0.33, C:0.19, G:0.23, T:0.25
Consensus pattern (13 bp):
AATGCGCGTCATA
Found at i:1766466 original size:3 final size:3
Alignment explanation
Indices: 1766458--1766524 Score: 62
Period size: 3 Copynumber: 21.3 Consensus size: 3
1766448 TATTTTATTT
* * * *
1766458 ATA ATA ATA ATA ATA GTA TTG ATA ATA ATTA CTA ATA ATA ATTA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA A-TA ATA ATA ATA A-TA ATA
*
1766505 CTA ATTA ATA ATA ATA ATA A
1 ATA A-TA ATA ATA ATA ATA A
1766525 ACAATTAAAA
Statistics
Matches: 52, Mismatches: 9, Indels: 6
0.78 0.13 0.09
Matches are distributed among these distances:
3 44 0.85
4 8 0.15
ACGTcount: A:0.57, C:0.03, G:0.03, T:0.37
Consensus pattern (3 bp):
ATA
Found at i:1766503 original size:10 final size:10
Alignment explanation
Indices: 1766458--1766524 Score: 57
Period size: 10 Copynumber: 6.4 Consensus size: 10
1766448 TATTTTATTT
1766458 ATAATAA-TA
1 ATAATAATTA
*
1766467 ATAATAGTATTG
1 ATAATA--ATTA
1766479 ATAATAATTACTA
1 ATAATAA-T--TA
1766492 ATAATAATTA
1 ATAATAATTA
*
1766502 ATACTAATTA
1 ATAATAATTA
1766512 ATAATAA-TA
1 ATAATAATTA
1766521 ATAA
1 ATAA
1766525 ACAATTAAAA
Statistics
Matches: 48, Mismatches: 4, Indels: 12
0.75 0.06 0.19
Matches are distributed among these distances:
9 12 0.25
10 18 0.38
11 2 0.04
12 8 0.17
13 8 0.17
ACGTcount: A:0.57, C:0.03, G:0.03, T:0.37
Consensus pattern (10 bp):
ATAATAATTA
Found at i:1769668 original size:14 final size:15
Alignment explanation
Indices: 1769641--1769675 Score: 56
Period size: 14 Copynumber: 2.5 Consensus size: 15
1769631 ATAAATTAAT
1769641 TAAAA-ATTTAAAAA
1 TAAAATATTTAAAAA
1769655 TAAAATATTT-AAAA
1 TAAAATATTTAAAAA
1769669 TAAAATA
1 TAAAATA
1769676 CTAATTATAT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
14 16 0.80
15 4 0.20
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (15 bp):
TAAAATATTTAAAAA
Found at i:1775884 original size:15 final size:15
Alignment explanation
Indices: 1775864--1775912 Score: 55
Period size: 15 Copynumber: 3.3 Consensus size: 15
1775854 ATCTAATCCG
1775864 ATCCGAATAACACAT
1 ATCCGAATAACACAT
*
1775879 ATCCGAATTACACAT
1 ATCCGAATAACACAT
* *
1775894 A-CTCGAATATCATAT
1 ATC-CGAATAACACAT
1775909 ATCC
1 ATCC
1775913 ACGTTTTTAT
Statistics
Matches: 28, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
14 1 0.04
15 26 0.93
16 1 0.04
ACGTcount: A:0.41, C:0.27, G:0.06, T:0.27
Consensus pattern (15 bp):
ATCCGAATAACACAT
Found at i:1776111 original size:22 final size:21
Alignment explanation
Indices: 1776082--1776123 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 21
1776072 TGATCAAATG
1776082 ATATTATTTTAGT-ATTTTTAT
1 ATATTATTTT-GTGATTTTTAT
1776103 ATATATATTTTGTGATTTTTA
1 ATAT-TATTTTGTGATTTTTA
1776124 GGTAGAATCC
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
21 6 0.32
22 13 0.68
ACGTcount: A:0.29, C:0.00, G:0.07, T:0.64
Consensus pattern (21 bp):
ATATTATTTTGTGATTTTTAT
Found at i:1778314 original size:3 final size:3
Alignment explanation
Indices: 1778299--1778358 Score: 66
Period size: 3 Copynumber: 19.0 Consensus size: 3
1778289 TGCTCAGGGT
* * *
1778299 TTA TTA GTTA TTA TTA TTTA TTA TTA ATA TTA TTAA TTA TCA CTA TTA
1 TTA TTA -TTA TTA TTA -TTA TTA TTA TTA TTA TT-A TTA TTA TTA TTA
1778347 TTA TTA TTA TTA
1 TTA TTA TTA TTA
1778359 CTACTACTAC
Statistics
Matches: 48, Mismatches: 6, Indels: 6
0.80 0.10 0.10
Matches are distributed among these distances:
3 39 0.81
4 9 0.19
ACGTcount: A:0.35, C:0.03, G:0.02, T:0.60
Consensus pattern (3 bp):
TTA
Found at i:1778331 original size:16 final size:16
Alignment explanation
Indices: 1778298--1778355 Score: 64
Period size: 16 Copynumber: 3.6 Consensus size: 16
1778288 TTGCTCAGGG
*
1778298 TTTATTAGTTATTATTA
1 TTTATTA-TTAATATTA
1778315 TTTATTATTAATATTA
1 TTTATTATTAATATTA
* * *
1778331 TTAATTATCACTATTA
1 TTTATTATTAATATTA
1778347 -TTATTATTA
1 TTTATTATTA
1778356 TTACTACTAC
Statistics
Matches: 35, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
15 7 0.20
16 21 0.60
17 7 0.20
ACGTcount: A:0.34, C:0.03, G:0.02, T:0.60
Consensus pattern (16 bp):
TTTATTATTAATATTA
Found at i:1778363 original size:3 final size:3
Alignment explanation
Indices: 1778357--1778382 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
1778347 TTATTATTAT
1778357 TAC TAC TAC TAC TAC TAC TAC TAC TA
1 TAC TAC TAC TAC TAC TAC TAC TAC TA
1778383 ATATTACTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.35, C:0.31, G:0.00, T:0.35
Consensus pattern (3 bp):
TAC
Found at i:1785107 original size:19 final size:18
Alignment explanation
Indices: 1785069--1785111 Score: 61
Period size: 19 Copynumber: 2.3 Consensus size: 18
1785059 TTTTGAAAGC
1785069 TCAAAATCATTTTTCTTT
1 TCAAAATCATTTTTCTTT
1785087 TCAAAATCCAATTTTTC-TT
1 TCAAAAT-C-ATTTTTCTTT
1785106 TCAAAA
1 TCAAAA
1785112 GAAAATCATT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
18 7 0.30
19 9 0.39
20 7 0.30
ACGTcount: A:0.35, C:0.19, G:0.00, T:0.47
Consensus pattern (18 bp):
TCAAAATCATTTTTCTTT
Found at i:1790123 original size:36 final size:36
Alignment explanation
Indices: 1790083--1790166 Score: 87
Period size: 36 Copynumber: 2.3 Consensus size: 36
1790073 TTGAGACATG
*
1790083 TTTTCTTGAAACAAAATTAATCTCACTTGAGATTGT
1 TTTTCTTGAAACAAAATTAATCTCACTTGAGATAGT
** * * **
1790119 TTTTCTAAAAACAAATTTCATCTTGCTTGAGATAGT
1 TTTTCTTGAAACAAAATTAATCTCACTTGAGATAGT
*
1790155 TTTCCCTTGAAA
1 TTT-TCTTGAAA
1790167 TGCAAATTTT
Statistics
Matches: 37, Mismatches: 10, Indels: 1
0.77 0.21 0.02
Matches are distributed among these distances:
36 32 0.86
37 5 0.14
ACGTcount: A:0.32, C:0.15, G:0.11, T:0.42
Consensus pattern (36 bp):
TTTTCTTGAAACAAAATTAATCTCACTTGAGATAGT
Found at i:1791083 original size:3 final size:3
Alignment explanation
Indices: 1791068--1791163 Score: 111
Period size: 3 Copynumber: 31.0 Consensus size: 3
1791058 TGCCCAGGGT
* *
1791068 TTA TTA GTTA TTA TTA TTA TTA TTA TTT TTA TTA TTA ATA TTA TTAA
1 TTA TTA -TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT-A
* * * *
1791115 TGA TCA CTA TTA TTA TTA TTA TTA TTTA TTA TTA TTA TTA TTA CTA
1 TTA TTA TTA TTA TTA TTA TTA TTA -TTA TTA TTA TTA TTA TTA TTA
1791161 TTA
1 TTA
1791164 CTAATATTTT
Statistics
Matches: 79, Mismatches: 11, Indels: 6
0.82 0.11 0.06
Matches are distributed among these distances:
3 71 0.90
4 8 0.10
ACGTcount: A:0.33, C:0.03, G:0.02, T:0.61
Consensus pattern (3 bp):
TTA
Found at i:1791131 original size:22 final size:23
Alignment explanation
Indices: 1791079--1791157 Score: 67
Period size: 22 Copynumber: 3.6 Consensus size: 23
1791069 TATTAGTTAT
* * *
1791079 TATTATTATTATT-AT-TTTTAT
1 TATTATTATTATTAATGATTCAC
*
1791100 TATTAATATTATTAATGA-TCAC
1 TATTATTATTATTAATGATTCAC
* * *
1791122 TATTATTATTATT-ATTATTTAT
1 TATTATTATTATTAATGATTCAC
1791144 TATTATTATTATTA
1 TATTATTATTATTA
1791158 CTATTACTAA
Statistics
Matches: 46, Mismatches: 8, Indels: 6
0.77 0.13 0.10
Matches are distributed among these distances:
21 15 0.33
22 31 0.67
ACGTcount: A:0.34, C:0.03, G:0.01, T:0.62
Consensus pattern (23 bp):
TATTATTATTATTAATGATTCAC
Found at i:1803822 original size:20 final size:20
Alignment explanation
Indices: 1803786--1803823 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
1803776 TAATAAATTC
**
1803786 ATAATTGTTTTTTAAAATAT
1 ATAATTGTTTTAAAAAATAT
1803806 ATAATTGTTTTAAAAAAT
1 ATAATTGTTTTAAAAAAT
1803824 GGTTATGACA
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:0.45, C:0.00, G:0.05, T:0.50
Consensus pattern (20 bp):
ATAATTGTTTTAAAAAATAT
Found at i:1809861 original size:18 final size:18
Alignment explanation
Indices: 1809838--1809877 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 18
1809828 TTAGCAGTGG
1809838 TTTTAAAT-ATTTTTAAAT
1 TTTTAAATAATTTTT-AAT
*
1809856 TTTTAAGTAATTTTTAAT
1 TTTTAAATAATTTTTAAT
1809874 TTTT
1 TTTT
1809878 TTTTCACTCA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
18 14 0.70
19 6 0.30
ACGTcount: A:0.33, C:0.00, G:0.03, T:0.65
Consensus pattern (18 bp):
TTTTAAATAATTTTTAAT
Found at i:1811316 original size:3 final size:3
Alignment explanation
Indices: 1811301--1811338 Score: 58
Period size: 3 Copynumber: 12.7 Consensus size: 3
1811291 TCTTAAAAAA
* *
1811301 TAT TAT CAT TAT TAT TAT TAT TAT TAT TAC TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
1811339 ATAATTATTT
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.34, C:0.05, G:0.00, T:0.61
Consensus pattern (3 bp):
TAT
Found at i:1811902 original size:19 final size:18
Alignment explanation
Indices: 1811870--1811905 Score: 54
Period size: 19 Copynumber: 1.9 Consensus size: 18
1811860 ATTCGAACCC
1811870 AAAAAGGAAAGAGAGAAA
1 AAAAAGGAAAGAGAGAAA
*
1811888 AAAAAGAGAATGAGAGAA
1 AAAAAG-GAAAGAGAGAA
1811906 TCATACCTCG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 6 0.38
19 10 0.62
ACGTcount: A:0.69, C:0.00, G:0.28, T:0.03
Consensus pattern (18 bp):
AAAAAGGAAAGAGAGAAA
Found at i:1812936 original size:39 final size:40
Alignment explanation
Indices: 1812840--1812937 Score: 164
Period size: 40 Copynumber: 2.5 Consensus size: 40
1812830 TATTTAATAA
1812840 ATATGTTTAGCTCCATTTAATGTAAATATTTTATTTTTAT
1 ATATGTTTAGCTCCATTTAATGTAAATATTTTATTTTTAT
1812880 ATATGTTTAGCTCCATTTAATGTAAATATTTTA-TTTTAT
1 ATATGTTTAGCTCCATTTAATGTAAATATTTTATTTTTAT
*
1812919 ATAT-TTTCAGCTACATTTA
1 ATATGTTT-AGCTCCATTTA
1812938 TTTCCATTTG
Statistics
Matches: 56, Mismatches: 1, Indels: 3
0.93 0.02 0.05
Matches are distributed among these distances:
38 3 0.05
39 20 0.36
40 33 0.59
ACGTcount: A:0.31, C:0.09, G:0.07, T:0.53
Consensus pattern (40 bp):
ATATGTTTAGCTCCATTTAATGTAAATATTTTATTTTTAT
Found at i:1814953 original size:2 final size:2
Alignment explanation
Indices: 1814948--1814987 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
1814938 TAGGCATAAC
1814948 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
1 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
1814988 TATATATCTT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.50, C:0.50, G:0.00, T:0.00
Consensus pattern (2 bp):
CA
Found at i:1817637 original size:45 final size:45
Alignment explanation
Indices: 1817588--1817677 Score: 117
Period size: 45 Copynumber: 2.0 Consensus size: 45
1817578 ACTAAAGAAT
* *
1817588 CTTTTATGTTGATAATGCACCCATATGCATTTCAACTATAATATA
1 CTTTTATGTTGATAATGCACCCATATACATTTCAACCATAATATA
* * * * *
1817633 CTTTTGTGTTGTTAATGTATCCATATACATTTCAACCATAGTATA
1 CTTTTATGTTGATAATGCACCCATATACATTTCAACCATAATATA
1817678 ACATCCCAAA
Statistics
Matches: 38, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
45 38 1.00
ACGTcount: A:0.31, C:0.17, G:0.10, T:0.42
Consensus pattern (45 bp):
CTTTTATGTTGATAATGCACCCATATACATTTCAACCATAATATA
Found at i:1821254 original size:45 final size:44
Alignment explanation
Indices: 1821205--1821409 Score: 144
Period size: 45 Copynumber: 5.0 Consensus size: 44
1821195 TTGATAGTGT
*
1821205 ACCCATATACATTTCAACTATGGCATCTTTTCATGCCAATAATGC
1 ACCCATATGCATTTC-ACTATGGCATCTTTTCATGCCAATAATGC
* ** *
1821250 ACCCATATGCA--T---TAT----TCTTTT-ATACTGATAATGA
1 ACCCATATGCATTTCACTATGGCATCTTTTCATGCCAATAATGC
* *
1821284 ACCCATATGCATTTCAGCTATGGCATCCTTTCATGCCAATAATGT
1 ACCCATATGCATTTCA-CTATGGCATCTTTTCATGCCAATAATGC
* **
1821329 ACCCATATGCA--T---TAT----TCTTTT-ATACTGATAATGC
1 ACCCATATGCATTTCACTATGGCATCTTTTCATGCCAATAATGC
*
1821363 ACCCATATGCATTTCAGCTATGGCATCCTTTCATGCCAATAATGC
1 ACCCATATGCATTTCA-CTATGGCATCTTTTCATGCCAATAATGC
1821408 AC
1 AC
1821410 ACACAGTGCC
Statistics
Matches: 119, Mismatches: 19, Indels: 44
0.65 0.10 0.24
Matches are distributed among these distances:
34 40 0.34
35 11 0.09
36 2 0.02
39 6 0.05
40 6 0.05
43 2 0.02
44 10 0.08
45 42 0.35
ACGTcount: A:0.29, C:0.25, G:0.11, T:0.35
Consensus pattern (44 bp):
ACCCATATGCATTTCACTATGGCATCTTTTCATGCCAATAATGC
Found at i:1821282 original size:34 final size:34
Alignment explanation
Indices: 1821243--1821375 Score: 122
Period size: 34 Copynumber: 3.6 Consensus size: 34
1821233 TTTCATGCCA
1821243 ATAATGCACCCATATGCATTATTCTTTTATACTG
1 ATAATGCACCCATATGCATTATTCTTTTATACTG
* * **
1821277 ATAATGAACCCATATGCATTTCAGCTATGGCATCCTTTCATGCCA
1 ATAATGCACCCATATGCA-TT-A--T-T--C-T--TTT-ATACTG
*
1821322 ATAATGTACCCATATGCATTATTCTTTTATACTG
1 ATAATGCACCCATATGCATTATTCTTTTATACTG
1821356 ATAATGCACCCATATGCATT
1 ATAATGCACCCATATGCATT
1821376 TCAGCTATGG
Statistics
Matches: 79, Mismatches: 9, Indels: 22
0.72 0.08 0.20
Matches are distributed among these distances:
34 39 0.49
35 5 0.06
36 1 0.01
37 1 0.01
38 2 0.03
39 1 0.01
40 1 0.01
41 2 0.03
42 1 0.01
43 1 0.01
44 5 0.06
45 20 0.25
ACGTcount: A:0.30, C:0.23, G:0.11, T:0.37
Consensus pattern (34 bp):
ATAATGCACCCATATGCATTATTCTTTTATACTG
Found at i:1821327 original size:79 final size:79
Alignment explanation
Indices: 1821196--1821409 Score: 365
Period size: 79 Copynumber: 2.7 Consensus size: 79
1821186 GTTTTTCTGT
* * * * *
1821196 TGATAGTGTACCCATATACATTTCAACTATGGCATCTTTTCATGCCAATAATGCACCCATATGCA
1 TGATAATGAACCCATATGCATTTCAGCTATGGCATCCTTTCATGCCAATAATGCACCCATATGCA
1821261 TTATTCTTTTATAC
66 TTATTCTTTTATAC
*
1821275 TGATAATGAACCCATATGCATTTCAGCTATGGCATCCTTTCATGCCAATAATGTACCCATATGCA
1 TGATAATGAACCCATATGCATTTCAGCTATGGCATCCTTTCATGCCAATAATGCACCCATATGCA
1821340 TTATTCTTTTATAC
66 TTATTCTTTTATAC
*
1821354 TGATAATGCACCCATATGCATTTCAGCTATGGCATCCTTTCATGCCAATAATGCAC
1 TGATAATGAACCCATATGCATTTCAGCTATGGCATCCTTTCATGCCAATAATGCAC
1821410 ACACAGTGCC
Statistics
Matches: 127, Mismatches: 8, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
79 127 1.00
ACGTcount: A:0.29, C:0.24, G:0.12, T:0.36
Consensus pattern (79 bp):
TGATAATGAACCCATATGCATTTCAGCTATGGCATCCTTTCATGCCAATAATGCACCCATATGCA
TTATTCTTTTATAC
Found at i:1821875 original size:21 final size:19
Alignment explanation
Indices: 1821847--1821907 Score: 59
Period size: 22 Copynumber: 2.9 Consensus size: 19
1821837 ATTTCTGGCC
1821847 CTTAGGTATCGATACCCCT
1 CTTAGGTATCGATACCCCT
*
1821866 GCTTATGGTATCAATACTACCCT
1 -CTTA-GGTATCGATAC--CCCT
*
1821889 ATTAGGGTATCGATACCCC
1 CTTA-GGTATCGATACCCC
1821908 CTTCATGTAT
Statistics
Matches: 34, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
20 7 0.21
21 10 0.29
22 13 0.38
23 4 0.12
ACGTcount: A:0.25, C:0.28, G:0.16, T:0.31
Consensus pattern (19 bp):
CTTAGGTATCGATACCCCT
Found at i:1822003 original size:95 final size:95
Alignment explanation
Indices: 1821894--1822075 Score: 233
Period size: 95 Copynumber: 1.9 Consensus size: 95
1821884 ACCCTATTAG
* * * *
1821894 GGTATCGATACCCCCT-TCATGTATCAATACCAAAATTAGCTTTGATGTAGCCTGGTATCGATAC
1 GGTACCGATACCCCCTCT-AGGTATCAATACCAAAATTAGATTTGATGTAGACTGGTATCGATAC
* * *
1821958 -CCTCACCATGGTATCGATACCCCTATGCTAT
65 ACAT-AACATGGTATCGAAACCCCTATGCTAT
* * **
1821989 GGTACCGATACCCCCTCTAGGTATCGATACCCAAATTAGATTTGATGTTTACTGGTATCGATACA
1 GGTACCGATACCCCCTCTAGGTATCAATACCAAAATTAGATTTGATGTAGACTGGTATCGATACA
1822054 CATAACATGGTATCGAAACCCC
66 CATAACATGGTATCGAAACCCC
1822076 CTTTGCTTGG
Statistics
Matches: 74, Mismatches: 11, Indels: 4
0.83 0.12 0.04
Matches are distributed among these distances:
95 71 0.96
96 3 0.04
ACGTcount: A:0.28, C:0.26, G:0.16, T:0.29
Consensus pattern (95 bp):
GGTACCGATACCCCCTCTAGGTATCAATACCAAAATTAGATTTGATGTAGACTGGTATCGATACA
CATAACATGGTATCGAAACCCCTATGCTAT
Found at i:1826541 original size:2 final size:2
Alignment explanation
Indices: 1826534--1826592 Score: 104
Period size: 2 Copynumber: 30.5 Consensus size: 2
1826524 TATACCCAGA
1826534 AT AT AT AT AT AT AT AT AT AT -T AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1826575 AT AT A- AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT A
1826593 CACACACACA
Statistics
Matches: 55, Mismatches: 0, Indels: 4
0.93 0.00 0.07
Matches are distributed among these distances:
1 2 0.04
2 53 0.96
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:1826562 original size:25 final size:25
Alignment explanation
Indices: 1826534--1826592 Score: 109
Period size: 25 Copynumber: 2.4 Consensus size: 25
1826524 TATACCCAGA
*
1826534 ATATATATATATATATATATTATAT
1 ATATATATATATATATATATAATAT
1826559 ATATATATATATATATATATAATAT
1 ATATATATATATATATATATAATAT
1826584 ATATATATA
1 ATATATATA
1826593 CACACACACA
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
25 33 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (25 bp):
ATATATATATATATATATATAATAT
Found at i:1826597 original size:2 final size:2
Alignment explanation
Indices: 1826592--1826616 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
1826582 ATATATATAT
1826592 AC AC AC AC AC AC AC AC AC AC AC AC A
1 AC AC AC AC AC AC AC AC AC AC AC AC A
1826617 ATAAAGATGA
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:0.52, C:0.48, G:0.00, T:0.00
Consensus pattern (2 bp):
AC
Found at i:1827440 original size:106 final size:106
Alignment explanation
Indices: 1827255--1827467 Score: 426
Period size: 106 Copynumber: 2.0 Consensus size: 106
1827245 GATTTGCAGC
1827255 TATCAAAGATTAAAAGAGCAGTTGATTCTTTTGATATTCAATGAACTCATGTTTTGTGATTTACT
1 TATCAAAGATTAAAAGAGCAGTTGATTCTTTTGATATTCAATGAACTCATGTTTTGTGATTTACT
1827320 CCAATTGTGAGGTCAAAGAAGGGGCATTTTTTTAGTTCATT
66 CCAATTGTGAGGTCAAAGAAGGGGCATTTTTTTAGTTCATT
1827361 TATCAAAGATTAAAAGAGCAGTTGATTCTTTTGATATTCAATGAACTCATGTTTTGTGATTTACT
1 TATCAAAGATTAAAAGAGCAGTTGATTCTTTTGATATTCAATGAACTCATGTTTTGTGATTTACT
1827426 CCAATTGTGAGGTCAAAGAAGGGGCATTTTTTTAGTTCATT
66 CCAATTGTGAGGTCAAAGAAGGGGCATTTTTTTAGTTCATT
1827467 T
1 T
1827468 GACAATGAAA
Statistics
Matches: 107, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
106 107 1.00
ACGTcount: A:0.30, C:0.11, G:0.19, T:0.40
Consensus pattern (106 bp):
TATCAAAGATTAAAAGAGCAGTTGATTCTTTTGATATTCAATGAACTCATGTTTTGTGATTTACT
CCAATTGTGAGGTCAAAGAAGGGGCATTTTTTTAGTTCATT
Found at i:1828713 original size:134 final size:131
Alignment explanation
Indices: 1828384--1828743 Score: 418
Period size: 131 Copynumber: 2.7 Consensus size: 131
1828374 CTTGAAACAA
* * * ** * * * *
1828384 ATCCCTAAAGATGCCCAGCCGTCCTCATTTCCTAGGAACCGTGTCATCCATCGACCAAATCTCCT
1 ATCCCTAAAGATGGCTAGCCATCCTCATCACGTAGGAACCGTGTCATCCACCGACTAGATCTCCT
* * *
1828449 CATCATGTAGGAGCCGTGTCACTCTTACATAATCAGTCGTCCTCATCACATAGGAACCGTGTTAT
66 CATCATGTAGGAGCCGTGTCACCCTTAGATAATCAGACGTCCTCATCACATAGGAACCGTGTTAT
1828514 C
131 C
* * * * * *
1828515 ATCCCAAAATATGGCTAGCTATCCTCATCATGTAGGAACCGTAG-CATCCACCAACTAGACCTCC
1 ATCCCTAAAGATGGCTAGCCATCCTCATCACGTAGGAACCGT-GTCATCCACCGACTAGATCTCC
* * * * * *
1828579 TCATCACGTAGGAGCCGTGTCACCCCTAGATAA-CTAGACGTCCTTATCGCGTAGGAACTGTGTT
65 TCATCATGTAGGAGCCGTGTCACCCTTAGATAATC-AGACGTCCTCATCACATAGGAACCGTGTT
1828643 ATCACC
129 AT---C
* *
1828649 ATCCCTAAAGATGGCTTGCCATCCTCATCACGTAGGAACCATGTCATCCACCGACTAGATCTCCT
1 ATCCCTAAAGATGGCTAGCCATCCTCATCACGTAGGAACCGTGTCATCCACCGACTAGATCTCCT
*
1828714 CATCATGTAGGAGCCATGTCACCCTTAGAT
66 CATCATGTAGGAGCCGTGTCACCCTTAGAT
1828744 GACCAGAGCT
Statistics
Matches: 188, Mismatches: 35, Indels: 9
0.81 0.15 0.04
Matches are distributed among these distances:
130 1 0.01
131 102 0.54
132 1 0.01
133 1 0.01
134 83 0.44
ACGTcount: A:0.26, C:0.31, G:0.17, T:0.25
Consensus pattern (131 bp):
ATCCCTAAAGATGGCTAGCCATCCTCATCACGTAGGAACCGTGTCATCCACCGACTAGATCTCCT
CATCATGTAGGAGCCGTGTCACCCTTAGATAATCAGACGTCCTCATCACATAGGAACCGTGTTAT
C
Found at i:1836281 original size:17 final size:17
Alignment explanation
Indices: 1836259--1836292 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
1836249 CAACTGCCCC
1836259 TCTTTGCTTCTTGTTGT
1 TCTTTGCTTCTTGTTGT
1836276 TCTTTGCTTCTTGTTGT
1 TCTTTGCTTCTTGTTGT
1836293 GAAACAATAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.00, C:0.18, G:0.18, T:0.65
Consensus pattern (17 bp):
TCTTTGCTTCTTGTTGT
Found at i:1836556 original size:55 final size:55
Alignment explanation
Indices: 1836480--1836760 Score: 343
Period size: 55 Copynumber: 5.1 Consensus size: 55
1836470 CGAACTTAAT
* * * *
1836480 AAATCTTTGGAAGATGGGTCTACTCCACTATTCTTTCAGGGAAATAAGACTGGAG
1 AAATCTTTGGAAGATGGGTCTGCTCCACTATTCTTTCAGGGAGATAAGACTCGAA
* * * * *
1836535 AAATCTTTGGAAGACT-AGTCTACTCCACTCTTCTTCCAGGGAGATAAGGCTCGAA
1 AAATCTTTGGAAGA-TGGGTCTGCTCCACTATTCTTTCAGGGAGATAAGACTCGAA
* **
1836590 AAATCTTTGTAAGATAAGTCTGCTCCACTATTCTTTCAGGGAGATAAGACTCGAA
1 AAATCTTTGGAAGATGGGTCTGCTCCACTATTCTTTCAGGGAGATAAGACTCGAA
** * * * *
1836645 AAATCTTTAAAAGAAGGGTTTGCTCCACT-TTATTTCAGGGAGATAAGACTCAAA
1 AAATCTTTGGAAGATGGGTCTGCTCCACTATTCTTTCAGGGAGATAAGACTCGAA
* * *
1836699 AAATCTTTGGAATATGGGTCTGCTCCA-TTTTCTTTCAGGGAGATAAGACTCAAA
1 AAATCTTTGGAAGATGGGTCTGCTCCACTATTCTTTCAGGGAGATAAGACTCGAA
1836753 AAATCTTT
1 AAATCTTT
1836761 TGATCCACTT
Statistics
Matches: 197, Mismatches: 26, Indels: 7
0.86 0.11 0.03
Matches are distributed among these distances:
53 1 0.01
54 78 0.40
55 117 0.59
56 1 0.01
ACGTcount: A:0.32, C:0.18, G:0.20, T:0.31
Consensus pattern (55 bp):
AAATCTTTGGAAGATGGGTCTGCTCCACTATTCTTTCAGGGAGATAAGACTCGAA
Found at i:1837678 original size:45 final size:45
Alignment explanation
Indices: 1837557--1837764 Score: 215
Period size: 45 Copynumber: 4.6 Consensus size: 45
1837547 AGTCAAATTG
* *
1837557 AGAATGACATCACTAAAAGGTTGACTCCTCTTTATGAGAAAGTCA
1 AGAATGACATCACTAAAAGATTGACTCCTCTTTACGAGAAAGTCA
* * * * * * *
1837602 AAAATCAAAACACTGAAAGATTAACTTCTCTTTACGAGAAAGTCA
1 AGAATGACATCACTAAAAGATTGACTCCTCTTTACGAGAAAGTCA
* *
1837647 AGAATGACATCACTAAAAGGTTGACTCCTCTTCACGAGAAAGTCA
1 AGAATGACATCACTAAAAGATTGACTCCTCTTTACGAGAAAGTCA
* * * *
1837692 AGAATGACACCACTAAAAGATCGACTCTTCTTCGA-GAGAAAGTCAA
1 AGAATGACATCACTAAAAGATTGACTCCTCTT-TACGAGAAAGTC-A
* * *
1837738 AGAA-GGCAACACT-AAAGATTGAATCCT
1 AGAATGACATCACTAAAAGATTGACTCCT
1837765 TATCAATTTG
Statistics
Matches: 133, Mismatches: 28, Indels: 5
0.80 0.17 0.03
Matches are distributed among these distances:
44 11 0.08
45 116 0.87
46 6 0.05
ACGTcount: A:0.41, C:0.20, G:0.16, T:0.23
Consensus pattern (45 bp):
AGAATGACATCACTAAAAGATTGACTCCTCTTTACGAGAAAGTCA
Found at i:1837731 original size:90 final size:90
Alignment explanation
Indices: 1837557--1837737 Score: 240
Period size: 90 Copynumber: 2.0 Consensus size: 90
1837547 AGTCAAATTG
* * *
1837557 AGAATGACATCACTAAAAGGTTGACTCCTCTTTATGAGAAAGTCAAAAATCAAAACACTGAAAGA
1 AGAATGACATCACTAAAAGGTTGACTCCTCTTCACGAGAAAGTCAAAAATCAAAACACTAAAAGA
* *
1837622 TTAACTTCTCTTTACGAGAAAGTCA
66 TCAACTTCTCTTGACGAGAAAGTCA
* * * *
1837647 AGAATGACATCACTAAAAGGTTGACTCCTCTTCACGAGAAAGTCAAGAATGACACCACTAAAAGA
1 AGAATGACATCACTAAAAGGTTGACTCCTCTTCACGAGAAAGTCAAAAATCAAAACACTAAAAGA
*
1837712 TCGAC-TCTTCTTCGA-GAGAAAGTCA
66 TCAACTTC-TCTT-GACGAGAAAGTCA
1837737 A
1 A
1837738 AGAAGGCAAC
Statistics
Matches: 79, Mismatches: 10, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
89 2 0.03
90 76 0.96
91 1 0.01
ACGTcount: A:0.41, C:0.20, G:0.16, T:0.23
Consensus pattern (90 bp):
AGAATGACATCACTAAAAGGTTGACTCCTCTTCACGAGAAAGTCAAAAATCAAAACACTAAAAGA
TCAACTTCTCTTGACGAGAAAGTCA
Found at i:1838153 original size:41 final size:42
Alignment explanation
Indices: 1838108--1838208 Score: 123
Period size: 42 Copynumber: 2.4 Consensus size: 42
1838098 AATGTCTTAT
* *
1838108 AGATGGCCCGAAGGACTT-ATCATCTTGCTTGAAAGCCTAAC
1 AGATGGCCCGAAGGACTTAATCATCATGCTCGAAAGCCTAAC
* * * * *
1838149 AGATGACTCGAAGGATTTAATCATCATGCTCGAAAGGCTTAC
1 AGATGGCCCGAAGGACTTAATCATCATGCTCGAAAGCCTAAC
*
1838191 TGATGGCCCGAAGGACTT
1 AGATGGCCCGAAGGACTT
1838209 GCAGATTTTG
Statistics
Matches: 48, Mismatches: 11, Indels: 1
0.80 0.18 0.02
Matches are distributed among these distances:
41 15 0.31
42 33 0.69
ACGTcount: A:0.30, C:0.22, G:0.24, T:0.25
Consensus pattern (42 bp):
AGATGGCCCGAAGGACTTAATCATCATGCTCGAAAGCCTAAC
Found at i:1838549 original size:175 final size:177
Alignment explanation
Indices: 1838182--1838564 Score: 551
Period size: 176 Copynumber: 2.2 Consensus size: 177
1838172 TCATGCTCGA
* * * * * *
1838182 AAGG-CTTACTGATGGCCCGAAGGACTT-GCAGATTTTGGAAATAGTCTACTTGTAAGAAACTTT
1 AAGGTCTTACGGATGGCCCGAAGGACTTATCATATTTTGGAAATAGTCGACTGGTAAGAAACTTC
* *
1838245 GGAAATCGCTTTCATACTTGTCAAAAATTAAATTTTCTAAAAACACTGAATGAGAAACTTTGGAA
66 GGAAATCACTTTCATACTTGTCAAAAATTAAATTTTCTAAAAACACTGAATGAGAAACATTGGAA
* *
1838310 ATCGCTTTCTCAGTTTTTTTAAAATTCATGTGAAAACATCCTACCCG
131 ATCGCTTTCTCAGTTTTTTAAAAATTCATGTCAAAACATCCTACCCG
* *
1838357 AAGGTGTTATGGATGGCCCGAAGGACTTATCATA-TTT-GAAATAGTCGACTGGGTAAGAAACTT
1 AAGGTCTTACGGATGGCCCGAAGGACTTATCATATTTTGGAAATAGTCGACT-GGTAAGAAACTT
* * ** * *
1838420 CGGAAATCACTTTCTTACTTTTCAAAAATTTCATTTTCTGAAAACATTGAATGAGAAACATTGGA
65 CGGAAATCACTTTCATACTTGTCAAAAATTAAATTTTCTAAAAACACTGAATGAGAAACATTGGA
1838485 AATCGCTTTCTCA-TTTTTTAAAAATTCATGTCAAAACATCCTACCCG
130 AATCGCTTTCTCAGTTTTTTAAAAATTCATGTCAAAACATCCTACCCG
*
1838532 AAGGTCTTACGGATGGCCCGAAAGACTTATCAT
1 AAGGTCTTACGGATGGCCCGAAGGACTTATCAT
1838565 CTTGCTCGAA
Statistics
Matches: 184, Mismatches: 21, Indels: 6
0.87 0.10 0.03
Matches are distributed among these distances:
175 78 0.42
176 103 0.56
177 3 0.02
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.32
Consensus pattern (177 bp):
AAGGTCTTACGGATGGCCCGAAGGACTTATCATATTTTGGAAATAGTCGACTGGTAAGAAACTTC
GGAAATCACTTTCATACTTGTCAAAAATTAAATTTTCTAAAAACACTGAATGAGAAACATTGGAA
ATCGCTTTCTCAGTTTTTTAAAAATTCATGTCAAAACATCCTACCCG
Found at i:1838613 original size:42 final size:41
Alignment explanation
Indices: 1838537--1838624 Score: 122
Period size: 42 Copynumber: 2.1 Consensus size: 41
1838527 ACCCGAAGGT
* *
1838537 CTTACGGATGGCCCGAAAGACTTATCATCTTGCTCGAAAGA
1 CTTACGGATGACCCGAAAGACTTATCATCGTGCTCGAAAGA
* * *
1838578 CTTATGGATGACCCGAAGGATTTAATCATCGTGCTCGAAAGA
1 CTTACGGATGACCCGAAAGACTT-ATCATCGTGCTCGAAAGA
1838620 CTTAC
1 CTTAC
1838625 TAATACCCTG
Statistics
Matches: 40, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
41 19 0.47
42 21 0.52
ACGTcount: A:0.30, C:0.23, G:0.22, T:0.26
Consensus pattern (41 bp):
CTTACGGATGACCCGAAAGACTTATCATCGTGCTCGAAAGA
Found at i:1838638 original size:42 final size:42
Alignment explanation
Indices: 1838560--1838639 Score: 110
Period size: 42 Copynumber: 1.9 Consensus size: 42
1838550 CGAAAGACTT
* *
1838560 ATCATCTTGCTCGAAAGACTTATGGATGACCCGAAGGATTTA
1 ATCATCGTGCTCGAAAGACTTATGAATGACCCGAAGGATTTA
1838602 ATCATCGTGCTCGAAAGACTTACT-AAT-ACCCTGAAGGA
1 ATCATCGTGCTCGAAAGACTTA-TGAATGACCC-GAAGGA
1838640 CTTATAAATT
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
41 4 0.12
42 29 0.85
43 1 0.03
ACGTcount: A:0.33, C:0.21, G:0.20, T:0.26
Consensus pattern (42 bp):
ATCATCGTGCTCGAAAGACTTATGAATGACCCGAAGGATTTA
Found at i:1838780 original size:41 final size:41
Alignment explanation
Indices: 1838735--1838845 Score: 150
Period size: 42 Copynumber: 2.7 Consensus size: 41
1838725 ACCCGAAGGT
* * *
1838735 CTTACAGATGGCCCGAAGGACTTATCATCTTGCTCGAAAGA
1 CTTACAGATGGCCCGAAGGATTTATCAACATGCTCGAAAGA
* *
1838776 CTTACAGATGACCCGATGGATTTAATCAACATGCTCGAAAGA
1 CTTACAGATGGCCCGAAGGATTT-ATCAACATGCTCGAAAGA
* *
1838818 CTTACTGATAGCCCGAAGGATTTATCAA
1 CTTACAGATGGCCCGAAGGATTTATCAA
1838846 TTTTGGAAAT
Statistics
Matches: 60, Mismatches: 9, Indels: 2
0.85 0.13 0.03
Matches are distributed among these distances:
41 25 0.42
42 35 0.58
ACGTcount: A:0.32, C:0.23, G:0.20, T:0.25
Consensus pattern (41 bp):
CTTACAGATGGCCCGAAGGATTTATCAACATGCTCGAAAGA
Found at i:1838818 original size:198 final size:197
Alignment explanation
Indices: 1838473--1838905 Score: 661
Period size: 198 Copynumber: 2.2 Consensus size: 197
1838463 ACATTGAATG
* *
1838473 AGAAACATTGGAAATCGCTTTCTCATTTTTTAAAAATTCATGTCAAAACATCCTACCCGAAGGTC
1 AGAAACTTTGGAAATCGCTTTCTTATTTTTTAAAAATTCATGTCAAAACATCCTACCCGAAGGTC
* **
1838538 TTACGGATGGCCCGAAAGACTTATCATCTTGCTCGAAAGACTTATGGATGACCCGAAGGATTTAA
66 TTACAGATGGCCCGAAAGACTTATCATCTTGCTCGAAAGACTTACAGATGACCCGAAGGATTTAA
* * **
1838603 TCATCGTGCTCGAAAGACTTACTAATA-CCCTGAAGGACTTATAAATTTTGGAAATAGTCTGTTG
131 TCAACATGCTCGAAAGACTTACTAATAGCCC-GAAGGACTTATAAATTTTGGAAATAGTCTACT-
1838667 GGTA
194 GGTA
** * *
1838671 AGAAACTTTGGAAATTACTTTCTTATTTTTTTAAAATTCATGTGAAAACATCCTACCCGAAGGTC
1 AGAAACTTTGGAAATCGCTTTCTTATTTTTTAAAAATTCATGTCAAAACATCCTACCCGAAGGTC
* *
1838736 TTACAGATGGCCCGAAGGACTTATCATCTTGCTCGAAAGACTTACAGATGACCCGATGGATTTAA
66 TTACAGATGGCCCGAAAGACTTATCATCTTGCTCGAAAGACTTACAGATGACCCGAAGGATTTAA
* * *
1838801 TCAACATGCTCGAAAGACTTACTGATAGCCCGAAGGATTTATCAATTTTGGAAATAGTCTACTGG
131 TCAACATGCTCGAAAGACTTACTAATAGCCCGAAGGACTTATAAATTTTGGAAATAGTCTACTGG
1838866 TA
196 TA
* *
1838868 AGAAACTTTGGAAATCGCTTTCTTACTTTTCAAAAATT
1 AGAAACTTTGGAAATCGCTTTCTTATTTTTTAAAAATT
1838906 TCATTTTCTG
Statistics
Matches: 211, Mismatches: 23, Indels: 3
0.89 0.10 0.01
Matches are distributed among these distances:
197 37 0.18
198 171 0.81
199 3 0.01
ACGTcount: A:0.33, C:0.19, G:0.18, T:0.31
Consensus pattern (197 bp):
AGAAACTTTGGAAATCGCTTTCTTATTTTTTAAAAATTCATGTCAAAACATCCTACCCGAAGGTC
TTACAGATGGCCCGAAAGACTTATCATCTTGCTCGAAAGACTTACAGATGACCCGAAGGATTTAA
TCAACATGCTCGAAAGACTTACTAATAGCCCGAAGGACTTATAAATTTTGGAAATAGTCTACTGG
TA
Found at i:1839987 original size:24 final size:24
Alignment explanation
Indices: 1839955--1840011 Score: 105
Period size: 24 Copynumber: 2.4 Consensus size: 24
1839945 GTAGTGATCA
1839955 ATTCTTTTAACAAAAATATCTTGC
1 ATTCTTTTAACAAAAATATCTTGC
1839979 ATTCTTTTAACAAAAATATCTTGC
1 ATTCTTTTAACAAAAATATCTTGC
*
1840003 ATTTTTTTA
1 ATTCTTTTA
1840012 TATGAGTTGG
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 32 1.00
ACGTcount: A:0.35, C:0.14, G:0.04, T:0.47
Consensus pattern (24 bp):
ATTCTTTTAACAAAAATATCTTGC
Found at i:1841240 original size:9 final size:9
Alignment explanation
Indices: 1841226--1841346 Score: 109
Period size: 9 Copynumber: 13.1 Consensus size: 9
1841216 ATTTATTGTC
*
1841226 TTTTTTTAT
1 TTTTTTTCT
1841235 TTTTTTTCT
1 TTTTTTTCT
* *
1841244 ATTTTTCTAT
1 -TTTTTTTCT
1841254 TTTTTTTCT
1 TTTTTTTCT
1841263 TTTTTTTCT
1 TTTTTTTCT
*
1841272 ATTTTTTC-
1 TTTTTTTCT
1841280 TTTTTTTCT
1 TTTTTTTCT
*
1841289 ATTTTTTCT
1 TTTTTTTCT
*
1841298 TTTTTCTCT
1 TTTTTTTCT
1841307 TTTTTCCTTCT
1 TTTTT--TTCT
*
1841318 TCTTTTTCT
1 TTTTTTTCT
* *
1841327 CTCTTTTCT
1 TTTTTTTCT
*
1841336 CTTTTCTTCT
1 -TTTTTTTCT
1841346 T
1 T
1841347 CTCTCTCCTC
Statistics
Matches: 89, Mismatches: 18, Indels: 10
0.76 0.15 0.09
Matches are distributed among these distances:
8 7 0.08
9 62 0.70
10 13 0.15
11 7 0.08
ACGTcount: A:0.04, C:0.17, G:0.00, T:0.79
Consensus pattern (9 bp):
TTTTTTTCT
Found at i:1841248 original size:17 final size:16
Alignment explanation
Indices: 1841227--1841312 Score: 75
Period size: 17 Copynumber: 5.0 Consensus size: 16
1841217 TTTATTGTCT
1841227 TTTTTTATTTTTTTTC
1 TTTTTTATTTTTTTTC
1841243 TATTTTTCTATTTTTTTTC
1 --TTTTT-TATTTTTTTTC
*
1841262 TTTTTTTTCTATTTTTTC
1 TTTTTTAT-T-TTTTTTC
1841280 TTTTTT-TCTATTTTTTC
1 TTTTTTAT-T-TTTTTTC
* *
1841297 TTTTTTCTCTTTTTTC
1 TTTTTTATTTTTTTTC
1841313 CTTCTTCTTT
Statistics
Matches: 62, Mismatches: 2, Indels: 10
0.84 0.03 0.14
Matches are distributed among these distances:
16 9 0.15
17 23 0.37
18 19 0.31
19 11 0.18
ACGTcount: A:0.06, C:0.12, G:0.00, T:0.83
Consensus pattern (16 bp):
TTTTTTATTTTTTTTC
Found at i:1841309 original size:8 final size:8
Alignment explanation
Indices: 1841237--1841340 Score: 60
Period size: 8 Copynumber: 13.5 Consensus size: 8
1841227 TTTTTTATTT
*
1841237 TTTTTCTA
1 TTTTTCTC
*
1841245 TTTTTCTA
1 TTTTTCTC
1841253 TTTTT-T-
1 TTTTTCTC
*
1841259 TTCTT-T-
1 TTTTTCTC
*
1841265 TTTTTCTA
1 TTTTTCTC
1841273 TTTTT-TC
1 TTTTTCTC
*
1841280 TTTTTTTC
1 TTTTTCTC
*
1841288 TATTTTTTC
1 T-TTTTCTC
1841297 TTTTTTCTC
1 -TTTTTCTC
1841306 TTTTT-TC
1 TTTTTCTC
* *
1841313 CTTCT-TC
1 TTTTTCTC
1841320 TTTTTCTC
1 TTTTTCTC
1841328 TCTTTTCTC
1 T-TTTTCTC
1841337 TTTT
1 TTTT
1841341 CTTCTTCTCT
Statistics
Matches: 81, Mismatches: 8, Indels: 14
0.79 0.08 0.14
Matches are distributed among these distances:
6 9 0.11
7 18 0.22
8 32 0.40
9 21 0.26
10 1 0.01
ACGTcount: A:0.04, C:0.17, G:0.00, T:0.79
Consensus pattern (8 bp):
TTTTTCTC
Found at i:1841326 original size:22 final size:22
Alignment explanation
Indices: 1841292--1841352 Score: 79
Period size: 22 Copynumber: 2.7 Consensus size: 22
1841282 TTTTTCTATT
*
1841292 TTTTCTTTTT-TCTCTTTTTTCC
1 TTTTCTTTTTCTCTCTTTTCT-C
1841314 TTCTTCTTTTTCTCTCTTTTCTC
1 TT-TTCTTTTTCTCTCTTTTCTC
*
1841337 TTTTCTTCTTCTCTCT
1 TTTTCTTTTTCTCTCT
1841353 CCTCTTTATC
Statistics
Matches: 35, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
22 15 0.43
23 11 0.31
24 9 0.26
ACGTcount: A:0.00, C:0.28, G:0.00, T:0.72
Consensus pattern (22 bp):
TTTTCTTTTTCTCTCTTTTCTC
Found at i:1841340 original size:17 final size:17
Alignment explanation
Indices: 1841256--1841352 Score: 64
Period size: 15 Copynumber: 6.1 Consensus size: 17
1841246 TTTTCTATTT
* * *
1841256 TTTTTCTTTTTTTTCTA
1 TTTTTCTCTCTTTTCTC
*
1841273 TTTTT-TCT-TTTTTTC
1 TTTTTCTCTCTTTTCTC
* *
1841288 TATTTTTTCTTTTTTCTC
1 T-TTTTCTCTCTTTTCTC
*
1841306 TTTTT-TC-CTTCT-TC
1 TTTTTCTCTCTTTTCTC
1841320 TTTTTCTCTCTTTTCTC
1 TTTTTCTCTCTTTTCTC
*
1841337 -TTTTCT-TCTTCTCTC
1 TTTTTCTCTCTTTTCTC
1841352 T
1 T
1841353 CCTCTTTATC
Statistics
Matches: 65, Mismatches: 8, Indels: 15
0.74 0.09 0.17
Matches are distributed among these distances:
14 7 0.11
15 19 0.29
16 18 0.28
17 14 0.22
18 7 0.11
ACGTcount: A:0.02, C:0.22, G:0.00, T:0.76
Consensus pattern (17 bp):
TTTTTCTCTCTTTTCTC
Found at i:1848990 original size:16 final size:18
Alignment explanation
Indices: 1848969--1849005 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
1848959 TCAAGGAGAA
1848969 AATAG-AGATAAA-ATGC
1 AATAGAAGATAAATATGC
*
1848985 AATAGAATATAAATATGC
1 AATAGAAGATAAATATGC
1849003 AAT
1 AAT
1849006 GCAACGACAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
16 5 0.28
17 6 0.33
18 7 0.39
ACGTcount: A:0.57, C:0.05, G:0.14, T:0.24
Consensus pattern (18 bp):
AATAGAAGATAAATATGC
Found at i:1850992 original size:81 final size:80
Alignment explanation
Indices: 1850865--1851512 Score: 833
Period size: 81 Copynumber: 8.1 Consensus size: 80
1850855 ATTCCTTCAG
* * * * * * *
1850865 TCTTTTACCCAAAGGCATTTAACCTTTCATCTAACTTGCATGATTGACATGTTTCTGCCAAATGC
1 TCTTTTACTCAACGGTATTGAACCGTTCATCTAACTGGCATAATTGACAT-TTTCTGCCAAATGC
*
1850930 ACATCTAGGCCATTTA
65 ACAACTAGGCCATTTA
*
1850946 TCTTTTACTCAACGGTATTAAACCGTTCATCTAACTGGCATAATTGACACTTTTCTGCCAAATGC
1 TCTTTTACTCAACGGTATTGAACCGTTCATCTAACTGGCATAATTGACA-TTTTCTGCCAAATGC
1851011 ACAACTAGGCCATTTA
65 ACAACTAGGCCATTTA
* * * * *
1851027 TCTTTTACTCAACAGTATTAAACCGTTCATCTAAATGGCATAATTGACACCTTTCTGCAAAATGC
1 TCTTTTACTCAACGGTATTGAACCGTTCATCTAACTGGCATAATTGACA-TTTTCTGCCAAATGC
*
1851092 ACAGCTAGGCCATTTA
65 ACAACTAGGCCATTTA
** * * *
1851108 TCTTTTACTCAACGACATTGAATCGTTCATCTAACTGGCACAATTGACACCTTTCTGCCAAATGC
1 TCTTTTACTCAACGGTATTGAACCGTTCATCTAACTGGCATAATTGACA-TTTTCTGCCAAATGC
1851173 ACAACTAGGCCATTTA
65 ACAACTAGGCCATTTA
* *
1851189 TATTTTACTCAACGGTATTGAACCATTCATCTAACTGGCATAATTGA-ATCTTTCTGCCAAATGC
1 TCTTTTACTCAACGGTATTGAACCGTTCATCTAACTGGCATAATTGACAT-TTTCTGCCAAATGC
1851253 ACAACTAGGCCATTTA
65 ACAACTAGGCCATTTA
* * *
1851269 TCTTTCACTCAACGGTATTCAACCGTTCATCTAACTGGCATAA-T--C--TTTCTACCAAATGCA
1 TCTTTTACTCAACGGTATTGAACCGTTCATCTAACTGGCATAATTGACATTTTCTGCCAAATGCA
*
1851329 CAGCTAGGCCATTTA
66 CAACTAGGCCATTTA
* * * *
1851344 TATTTTACTCAACGATATTGAACCATTCATCTAACTGGCATAATTGAAACTTTTCTGCCAAATGC
1 TCTTTTACTCAACGGTATTGAACCGTTCATCTAACTGGCATAATTGACA-TTTTCTGCCAAATGC
* *
1851409 ACAGCTGGGCCATTTA
65 ACAACTAGGCCATTTA
* * * **
1851425 TCTTTTACTCAATGGTATTGAATCGTTCATCTAACTGGCATAATTGACACATTTCTATCAAATGC
1 TCTTTTACTCAACGGTATTGAACCGTTCATCTAACTGGCATAATTGACA-TTTTCTGCCAAATGC
*
1851490 ACATCTAGGCCA-TTA
65 ACAACTAGGCCATTTA
1851505 GTCTTTTA
1 -TCTTTTA
1851513 AACTTAGAAT
Statistics
Matches: 503, Mismatches: 54, Indels: 20
0.87 0.09 0.03
Matches are distributed among these distances:
75 66 0.13
76 1 0.00
79 1 0.00
80 73 0.15
81 361 0.72
82 1 0.00
ACGTcount: A:0.30, C:0.24, G:0.12, T:0.34
Consensus pattern (80 bp):
TCTTTTACTCAACGGTATTGAACCGTTCATCTAACTGGCATAATTGACATTTTCTGCCAAATGCA
CAACTAGGCCATTTA
Found at i:1851773 original size:55 final size:55
Alignment explanation
Indices: 1851714--1851825 Score: 181
Period size: 55 Copynumber: 2.0 Consensus size: 55
1851704 ACATATATTT
* * *
1851714 CCCATAC-AGAAATTTATACACTTAGTATGGATTTCTTAGTTTTGCACACATAGTG
1 CCCATACGA-AAATTCATACACTTAGTATGAATTCCTTAGTTTTGCACACATAGTG
1851769 CCCATACGAAAATTCATACACTTAGTATGAATTCCTTAGTTTTGCACACATAGTG
1 CCCATACGAAAATTCATACACTTAGTATGAATTCCTTAGTTTTGCACACATAGTG
1851824 CC
1 CC
1851826 ATTTGGTAAT
Statistics
Matches: 53, Mismatches: 3, Indels: 2
0.91 0.05 0.03
Matches are distributed among these distances:
55 52 0.98
56 1 0.02
ACGTcount: A:0.31, C:0.21, G:0.13, T:0.34
Consensus pattern (55 bp):
CCCATACGAAAATTCATACACTTAGTATGAATTCCTTAGTTTTGCACACATAGTG
Found at i:1852210 original size:19 final size:21
Alignment explanation
Indices: 1852166--1852210 Score: 58
Period size: 22 Copynumber: 2.2 Consensus size: 21
1852156 CCCCCACCAT
*
1852166 GGTATCGATACTACTATACTAT
1 GGTATCGATACTACTATA-TAC
1852188 GGTATCGATACT-CTAT-TAC
1 GGTATCGATACTACTATATAC
1852207 GGTA
1 GGTA
1852211 CTGATACCAT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
19 6 0.27
21 4 0.18
22 12 0.55
ACGTcount: A:0.29, C:0.18, G:0.18, T:0.36
Consensus pattern (21 bp):
GGTATCGATACTACTATATAC
Found at i:1852264 original size:20 final size:21
Alignment explanation
Indices: 1852239--1852293 Score: 71
Period size: 20 Copynumber: 2.7 Consensus size: 21
1852229 TCTGTGATCA
1852239 ATGGTATCGATACCATCAT-T
1 ATGGTATCGATACCATCATCT
*
1852259 ATGGTATCGATACTC-TCCTCT
1 ATGGTATCGATAC-CATCATCT
1852280 -TGGTATCGATACCA
1 ATGGTATCGATACCA
1852294 CTTTGAATCG
Statistics
Matches: 31, Mismatches: 1, Indels: 6
0.82 0.03 0.16
Matches are distributed among these distances:
19 1 0.03
20 28 0.90
21 2 0.06
ACGTcount: A:0.25, C:0.24, G:0.16, T:0.35
Consensus pattern (21 bp):
ATGGTATCGATACCATCATCT
Found at i:1854146 original size:41 final size:41
Alignment explanation
Indices: 1854101--1854191 Score: 119
Period size: 41 Copynumber: 2.2 Consensus size: 41
1854091 ATTACAACAA
* *
1854101 TATTGATATTGATATTAATACGAGTATTGATACTAAAATAG
1 TATTGATACTGATATTAATACGAGTATTGATAATAAAATAG
* * * *
1854142 TATTGATACTGGTATTGATACGAGTATTGGTAATATAATAG
1 TATTGATACTGATATTAATACGAGTATTGATAATAAAATAG
*
1854183 TATCGATAC
1 TATTGATAC
1854192 AAGTATCAAT
Statistics
Matches: 43, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
41 43 1.00
ACGTcount: A:0.37, C:0.07, G:0.18, T:0.38
Consensus pattern (41 bp):
TATTGATACTGATATTAATACGAGTATTGATAATAAAATAG
Found at i:1854536 original size:43 final size:43
Alignment explanation
Indices: 1854477--1854828 Score: 249
Period size: 43 Copynumber: 8.2 Consensus size: 43
1854467 TGAGAACAAA
* * *
1854477 AAACGCCGCAATAGGTCAATATATATTA-CGGTGTTTTTTGAAC
1 AAACGCCGCAAAAGGTCAATATATA-TAGCGGCGTTTTTAGAAC
* * * * *
1854520 AAACGCCGTAAAAGGTCGATATCTATAGCGGCATTTTTGGAAC
1 AAACGCCGCAAAAGGTCAATATATATAGCGGCGTTTTTAGAAC
* * * *
1854563 AAACGCCGCAAAAAGT-TATGATATATAGCGGCGTTTCTAGAAA
1 AAACGCCGCAAAAGGTCAAT-ATATATAGCGGCGTTTTTAGAAC
* * *
1854606 AAACGCCGCAAAAGGTC-AGATCTATAGCGGCGTTTTTGGATAC
1 AAACGCCGCAAAAGGTCAATATATATAGCGGCGTTTTTAGA-AC
* * ** *
1854649 AAACACCGCAAAAGAG-C-AGACCTATA-CTGGCATTTTTAGAAC
1 AAACGCCGCAAAAG-GTCAATATATATAGC-GGCGTTTTTAGAAC
* ** *
1854691 AAACGCCGCAAAAGGTC-AGACCTATAGCGGCGTTTTTGGACAC
1 AAACGCCGCAAAAGGTCAATATATATAGCGGCGTTTTTAGA-AC
* ** *
1854734 AAACGCTGCAAAAGGTCAGACCTATA-A-CGGCGTTTTTAAACAC
1 AAACGCCGCAAAAGGTCA-ATATATATAGCGGCGTTTTTAGA-AC
* ** *
1854777 AAACGCCGCAAAAAGTCAGACCTATA-A-CGGCGTTTTTGGATAC
1 AAACGCCGCAAAAGGTCA-ATATATATAGCGGCGTTTTTAGA-AC
1854820 AAACGCCGC
1 AAACGCCGC
1854829 TAATTACCTT
Statistics
Matches: 258, Mismatches: 40, Indels: 22
0.81 0.12 0.07
Matches are distributed among these distances:
41 1 0.00
42 58 0.22
43 194 0.75
44 2 0.01
45 3 0.01
ACGTcount: A:0.35, C:0.22, G:0.21, T:0.22
Consensus pattern (43 bp):
AAACGCCGCAAAAGGTCAATATATATAGCGGCGTTTTTAGAAC
Found at i:1854689 original size:85 final size:85
Alignment explanation
Indices: 1854503--1854828 Score: 383
Period size: 85 Copynumber: 3.8 Consensus size: 85
1854493 CAATATATAT
* * * * * * *
1854503 TACGGTGTTTTTTGAACAAACGCCGTAAAAGGTCGATATCTATAGCGGCATTTTTGGA-ACAAAC
1 TACGGCGTTTTTAGAAAAAACGCCGCAAAAGGTC-AGACCTATAGCGGCGTTTTTGGATACAAAC
* **
1854567 GCCGCAAAA-AGTTATGATATA
65 GCCGCAAAAGAGTCA-GACCTA
* *
1854588 TAGCGGCGTTTCTAGAAAAAACGCCGCAAAAGGTCAGATCTATAGCGGCGTTTTTGGATACAAAC
1 TA-CGGCGTTTTTAGAAAAAACGCCGCAAAAGGTCAGACCTATAGCGGCGTTTTTGGATACAAAC
*
1854653 ACCGCAAAAGAG-CAGACCTA
65 GCCGCAAAAGAGTCAGACCTA
* * *
1854673 TACTGGCATTTTTAGAACAAACGCCGCAAAAGGTCAGACCTATAGCGGCGTTTTTGGACACAAAC
1 TAC-GGCGTTTTTAGAAAAAACGCCGCAAAAGGTCAGACCTATAGCGGCGTTTTTGGATACAAAC
*
1854738 GCTGCAAAAG-GTCAGACCTA
65 GCCGCAAAAGAGTCAGACCTA
* *
1854758 TAACGGCGTTTTTA-AACACAAACGCCGCAAAAAGTCAGACCTATAACGGCGTTTTTGGATACAA
1 T-ACGGCGTTTTTAGAA-A-AAACGCCGCAAAAGGTCAGACCTATAGCGGCGTTTTTGGATACAA
1854822 ACGCCGC
63 ACGCCGC
1854829 TAATTACCTT
Statistics
Matches: 209, Mismatches: 24, Indels: 15
0.84 0.10 0.06
Matches are distributed among these distances:
84 4 0.02
85 111 0.53
86 92 0.44
87 2 0.01
ACGTcount: A:0.34, C:0.22, G:0.22, T:0.22
Consensus pattern (85 bp):
TACGGCGTTTTTAGAAAAAACGCCGCAAAAGGTCAGACCTATAGCGGCGTTTTTGGATACAAACG
CCGCAAAAGAGTCAGACCTA
Found at i:1854703 original size:128 final size:128
Alignment explanation
Indices: 1854542--1854828 Score: 364
Period size: 128 Copynumber: 2.2 Consensus size: 128
1854532 AGGTCGATAT
* * *
1854542 CTATAGCGGCATTTTTGGAACAAACGCCGCAAAAAGTTATGATATATAGCGGCGTTTCTAGA-AA
1 CTATAACGGCATTTTTGGAACAAACGCCGCAAAAAGTCA-GACATATAGCGGCGTTTCTAGACAA
* * ** *
1854606 AAACGCCGCAAAAGGTCAGATCTATAGCGGCGTTTTTGGATACAAACACCGCAAAAGAG-CAGAC
65 AAACGCCGCAAAAGGTCAGACCTATAACGGCGTTTTTAAACACAAACACCGCAAAA-AGTCAGAC
* * * * * *
1854670 CTAT-ACTGGCATTTTTAGAACAAACGCCGCAAAAGGTCAGACCTATAGCGGCGTTTTTGGACAC
1 CTATAAC-GGCATTTTTGGAACAAACGCCGCAAAAAGTCAGACATATAGCGGCGTTTCTAGACAA
* *
1854734 AAACGCTGCAAAAGGTCAGACCTATAACGGCGTTTTTAAACACAAACGCCGCAAAAAGTCAGAC
65 AAACGCCGCAAAAGGTCAGACCTATAACGGCGTTTTTAAACACAAACACCGCAAAAAGTCAGAC
*
1854798 CTATAACGGCGTTTTTGGATACAAACGCCGC
1 CTATAACGGCATTTTTGGA-ACAAACGCCGC
1854829 TAATTACCTT
Statistics
Matches: 136, Mismatches: 18, Indels: 9
0.83 0.11 0.06
Matches are distributed among these distances:
127 21 0.15
128 102 0.75
129 13 0.10
ACGTcount: A:0.34, C:0.23, G:0.22, T:0.21
Consensus pattern (128 bp):
CTATAACGGCATTTTTGGAACAAACGCCGCAAAAAGTCAGACATATAGCGGCGTTTCTAGACAAA
AACGCCGCAAAAGGTCAGACCTATAACGGCGTTTTTAAACACAAACACCGCAAAAAGTCAGAC
Found at i:1858303 original size:41 final size:41
Alignment explanation
Indices: 1858235--1858638 Score: 413
Period size: 41 Copynumber: 9.8 Consensus size: 41
1858225 TATGACAATT
* *
1858235 GCGGCGTTTG-GTATTAAAACGCCACTAAAGTATGAGTCTATC
1 GCGGCGTTTGTGTA--AAAACGCCACTAAAGTACGAGTCTATA
* * *
1858277 GCGGTGTTTGTGTAAAAACGCCACTAATGTACGAATCTATA
1 GCGGCGTTTGTGTAAAAACGCCACTAAAGTACGAGTCTATA
* * *
1858318 GTGGCGTTTG-GTATTAAAACGCCACAAAAGTACGTGTCTATA
1 GCGGCGTTTGTGTA--AAAACGCCACTAAAGTACGAGTCTATA
*
1858360 GCGGCGTTTGTGTAAAAATGCCACTAAAGTACGAGTCTATA
1 GCGGCGTTTGTGTAAAAACGCCACTAAAGTACGAGTCTATA
* *
1858401 GCGGCGTTTG-GTATTAAAATGCCA-TAAAAGTACGTGTCTATA
1 GCGGCGTTTGTGTA--AAAACGCCACT-AAAGTACGAGTCTATA
*
1858443 GCGGCGTTTGTGTAAAAATGCCACTAAAGTACGAGTCTATA
1 GCGGCGTTTGTGTAAAAACGCCACTAAAGTACGAGTCTATA
* * *
1858484 GCGGCGTTTG-GTATTAAAACGCCACAAAAGTATGTGTCTATA
1 GCGGCGTTTGTGTA--AAAACGCCACTAAAGTACGAGTCTATA
* * * *
1858526 GCGGCGTTTGTATAAAAACGCCACTAAAATACTAGTTTATA
1 GCGGCGTTTGTGTAAAAACGCCACTAAAGTACGAGTCTATA
* * * * * * * *
1858567 GCGGTGTTTGTATAAAAACGCCACTATATTACAATTATTTA
1 GCGGCGTTTGTGTAAAAACGCCACTAAAGTACGAGTCTATA
* * * *
1858608 GCGGCGTTTTTATACAAACGTCACTAAAGTA
1 GCGGCGTTTGTGTAAAAACGCCACTAAAGTA
1858639 TAATATTTTG
Statistics
Matches: 309, Mismatches: 41, Indels: 25
0.82 0.11 0.07
Matches are distributed among these distances:
40 9 0.03
41 180 0.58
42 109 0.35
43 11 0.04
ACGTcount: A:0.32, C:0.17, G:0.22, T:0.29
Consensus pattern (41 bp):
GCGGCGTTTGTGTAAAAACGCCACTAAAGTACGAGTCTATA
Found at i:1858326 original size:83 final size:83
Alignment explanation
Indices: 1858235--1858592 Score: 522
Period size: 83 Copynumber: 4.3 Consensus size: 83
1858225 TATGACAATT
* * * *
1858235 GCGGCGTTTGGTATTAAAACGCCACTAAAGTATGAGTCTATCGCGGTGTTTGTGTAAAAACGCCA
1 GCGGCGTTTGGTATTAAAACGCCACTAAAGTACGTGTCTATAGCGGCGTTTGTGTAAAAACGCCA
* *
1858300 CTAATGTACGAATCTATA
66 CTAAAGTACGAGTCTATA
* * *
1858318 GTGGCGTTTGGTATTAAAACGCCACAAAAGTACGTGTCTATAGCGGCGTTTGTGTAAAAATGCCA
1 GCGGCGTTTGGTATTAAAACGCCACTAAAGTACGTGTCTATAGCGGCGTTTGTGTAAAAACGCCA
1858383 CTAAAGTACGAGTCTATA
66 CTAAAGTACGAGTCTATA
* *
1858401 GCGGCGTTTGGTATTAAAATGCCA-TAAAAGTACGTGTCTATAGCGGCGTTTGTGTAAAAATGCC
1 GCGGCGTTTGGTATTAAAACGCCACT-AAAGTACGTGTCTATAGCGGCGTTTGTGTAAAAACGCC
1858465 ACTAAAGTACGAGTCTATA
65 ACTAAAGTACGAGTCTATA
* * *
1858484 GCGGCGTTTGGTATTAAAACGCCACAAAAGTATGTGTCTATAGCGGCGTTTGTATAAAAACGCCA
1 GCGGCGTTTGGTATTAAAACGCCACTAAAGTACGTGTCTATAGCGGCGTTTGTGTAAAAACGCCA
* * *
1858549 CTAAAATACTAGTTTATA
66 CTAAAGTACGAGTCTATA
* *
1858567 GCGGTGTTT-GTATAAAAACGCCACTA
1 GCGGCGTTTGGTATTAAAACGCCACTA
1858593 TATTACAATT
Statistics
Matches: 250, Mismatches: 23, Indels: 5
0.90 0.08 0.02
Matches are distributed among these distances:
82 15 0.06
83 235 0.94
ACGTcount: A:0.32, C:0.17, G:0.23, T:0.28
Consensus pattern (83 bp):
GCGGCGTTTGGTATTAAAACGCCACTAAAGTACGTGTCTATAGCGGCGTTTGTGTAAAAACGCCA
CTAAAGTACGAGTCTATA
Found at i:1858492 original size:166 final size:166
Alignment explanation
Indices: 1858235--1858638 Score: 542
Period size: 166 Copynumber: 2.4 Consensus size: 166
1858225 TATGACAATT
* * *
1858235 GCGGCGTTTGGTATTAAAACGCCACTAAAGTATGAGTCTATCGCGGTGTTTGTGTAAAAACGCCA
1 GCGGCGTTTGGTATTAAAACGCCACTAAAGTACGAGTCTATAGCGGCGTTTGTGTAAAAACGCCA
* *
1858300 CTAATGTACGAATCTATAGTGGCGTTTGGTATTAAAACGCCACAAAAGTACGTGTCTATAGCGGC
66 CTAAAGTACGAATCTATAGCGGCGTTTGGTATTAAAACGCCACAAAAGTACGTGTCTATAGCGGC
* * *
1858365 GTTTGTGTAAAAATGCCACTAAAGTACGAGTCTATA
131 GTTTGTATAAAAACGCCACTAAAATACGAGTCTATA
* * *
1858401 GCGGCGTTTGGTATTAAAATGCCA-TAAAAGTACGTGTCTATAGCGGCGTTTGTGTAAAAATGCC
1 GCGGCGTTTGGTATTAAAACGCCACT-AAAGTACGAGTCTATAGCGGCGTTTGTGTAAAAACGCC
* *
1858465 ACTAAAGTACGAGTCTATAGCGGCGTTTGGTATTAAAACGCCACAAAAGTATGTGTCTATAGCGG
65 ACTAAAGTACGAATCTATAGCGGCGTTTGGTATTAAAACGCCACAAAAGTACGTGTCTATAGCGG
* *
1858530 CGTTTGTATAAAAACGCCACTAAAATACTAGTTTATA
130 CGTTTGTATAAAAACGCCACTAAAATACGAGTCTATA
* * * * * * * * * * * *
1858567 GCGGTGTTT-GTATAAAAACGCCACTATATTACAATTATTTAGCGGCGTTTTTATACAAACGTCA
1 GCGGCGTTTGGTATTAAAACGCCACTAAAGTACGAGTCTATAGCGGCGTTTGTGTAAAAACGCCA
1858631 CTAAAGTA
66 CTAAAGTA
1858639 TAATATTTTG
Statistics
Matches: 206, Mismatches: 30, Indels: 5
0.85 0.12 0.02
Matches are distributed among these distances:
165 48 0.23
166 158 0.77
ACGTcount: A:0.32, C:0.17, G:0.22, T:0.29
Consensus pattern (166 bp):
GCGGCGTTTGGTATTAAAACGCCACTAAAGTACGAGTCTATAGCGGCGTTTGTGTAAAAACGCCA
CTAAAGTACGAATCTATAGCGGCGTTTGGTATTAAAACGCCACAAAAGTACGTGTCTATAGCGGC
GTTTGTATAAAAACGCCACTAAAATACGAGTCTATA
Found at i:1859069 original size:16 final size:17
Alignment explanation
Indices: 1859045--1859082 Score: 51
Period size: 16 Copynumber: 2.3 Consensus size: 17
1859035 AGCTCAAAGG
* *
1859045 AAAATAAGAAGA-AGAT
1 AAAAGAAGAAGACAAAT
1859061 AAAAGAAGAAGACAAAT
1 AAAAGAAGAAGACAAAT
1859078 AAAAG
1 AAAAG
1859083 GCTTTTAGAC
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
16 11 0.58
17 8 0.42
ACGTcount: A:0.71, C:0.03, G:0.18, T:0.08
Consensus pattern (17 bp):
AAAAGAAGAAGACAAAT
Found at i:1865828 original size:65 final size:64
Alignment explanation
Indices: 1865710--1865920 Score: 250
Period size: 65 Copynumber: 3.3 Consensus size: 64
1865700 TTTTTCAGAG
* * *
1865710 TGATGCACCGATGCACCAATCCATGCATCGATGCAC-CATGA-ATTAAATT-AAACATCTAATGC
1 TGATGCATCGATGCACCAA-CCATGCATCGATGCACTCAGGATATT---TTGAAACATCGAATGC
1865772 ATT
62 ATT
* ** *
1865775 TCATGCATCGATGCACTTACCATGCATCGATGCACTGAGGAT-TTTATGAAAACATCGAATGCAT
1 TGATGCATCGATGCACCAACCATGCATCGATGCACTCAGGATATTT-TG-AAACATCGAATGCAT
1865839 T
64 T
* * *
1865840 TGATGCATCGATGCACCAACCATGCATCGATGCACTCTGGCTATTTTGAAACATCGAATGCACT
1 TGATGCATCGATGCACCAACCATGCATCGATGCACTCAGGATATTTTGAAACATCGAATGCATT
1865904 TGATGCATCGATGCACC
1 TGATGCATCGATGCACC
1865921 CTTAGTGCAG
Statistics
Matches: 126, Mismatches: 14, Indels: 13
0.82 0.09 0.08
Matches are distributed among these distances:
62 1 0.01
63 1 0.01
64 48 0.38
65 73 0.58
66 3 0.02
ACGTcount: A:0.31, C:0.25, G:0.18, T:0.27
Consensus pattern (64 bp):
TGATGCATCGATGCACCAACCATGCATCGATGCACTCAGGATATTTTGAAACATCGAATGCATT
Found at i:1871225 original size:24 final size:24
Alignment explanation
Indices: 1871197--1871276 Score: 73
Period size: 24 Copynumber: 3.5 Consensus size: 24
1871187 CACTTAACAA
1871197 TGCATCGATGCATCCCTTTGAATG
1 TGCATCGATGCATCCCTTTGAATG
* *
1871221 TGCATCGATTCAT-CATGTTG-A--
1 TGCATCGATGCATCCCT-TTGAATG
*
1871242 TGCACCGATGCA-CTCC-TTGAATG
1 TGCATCGATGCATC-CCTTTGAATG
1871265 TGCATCGATGCA
1 TGCATCGATGCA
1871277 CGGGGTCATG
Statistics
Matches: 44, Mismatches: 6, Indels: 13
0.70 0.10 0.21
Matches are distributed among these distances:
20 3 0.07
21 11 0.25
22 1 0.02
23 14 0.32
24 15 0.34
ACGTcount: A:0.23, C:0.25, G:0.21, T:0.31
Consensus pattern (24 bp):
TGCATCGATGCATCCCTTTGAATG
Found at i:1872853 original size:21 final size:21
Alignment explanation
Indices: 1872811--1872854 Score: 52
Period size: 21 Copynumber: 2.1 Consensus size: 21
1872801 ACTCCGGGAG
* *
1872811 CTAGTTCCTCACGAGCTGCTC
1 CTAGCTCCTCACGAGCTCCTC
* *
1872832 CTAGCTCCTCTCGTGCTCCTC
1 CTAGCTCCTCACGAGCTCCTC
1872853 CT
1 CT
1872855 CCTCCTCCGG
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.09, C:0.43, G:0.16, T:0.32
Consensus pattern (21 bp):
CTAGCTCCTCACGAGCTCCTC
Found at i:1873542 original size:22 final size:23
Alignment explanation
Indices: 1873512--1873558 Score: 60
Period size: 23 Copynumber: 2.1 Consensus size: 23
1873502 ACTTTTTGAT
*
1873512 TTAAC-AAAAAAGGGGAGAAATG
1 TTAACAAAAAAAAGGGAGAAATG
* *
1873534 TTAAGAAAAAAAAGGGAGAAGTG
1 TTAACAAAAAAAAGGGAGAAATG
1873557 TT
1 TT
1873559 TAAGTAAGAA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
22 4 0.19
23 17 0.81
ACGTcount: A:0.53, C:0.02, G:0.28, T:0.17
Consensus pattern (23 bp):
TTAACAAAAAAAAGGGAGAAATG
Found at i:1873998 original size:19 final size:19
Alignment explanation
Indices: 1873976--1874041 Score: 123
Period size: 19 Copynumber: 3.5 Consensus size: 19
1873966 TTTCATGTAT
1873976 CGATGCACTTACCATGCAC
1 CGATGCACTTACCATGCAC
*
1873995 CGATACACTTACCATGCAC
1 CGATGCACTTACCATGCAC
1874014 CGATGCACTTACCATGCAC
1 CGATGCACTTACCATGCAC
1874033 CGATGCACT
1 CGATGCACT
1874042 GAGGATTTTA
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 45 1.00
ACGTcount: A:0.27, C:0.36, G:0.15, T:0.21
Consensus pattern (19 bp):
CGATGCACTTACCATGCAC
Found at i:1874103 original size:47 final size:47
Alignment explanation
Indices: 1874025--1874115 Score: 114
Period size: 47 Copynumber: 1.9 Consensus size: 47
1874015 GATGCACTTA
*
1874025 CCATGCACCGATGCACTGAGGATTTTATGAAAACATCG-ATGCACCAG
1 CCATGCACCGATGCACTCAGGATTTTATG-AAACATCGAATGCACCAG
* * *
1874072 CCATGCATCGATGCACTCTGGCTATTT-TGAAACATCGAATGCAC
1 CCATGCACCGATGCACTCAGGAT-TTTATGAAACATCGAATGCAC
1874116 TTGATGCATC
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
46 8 0.21
47 27 0.71
48 3 0.08
ACGTcount: A:0.30, C:0.26, G:0.20, T:0.24
Consensus pattern (47 bp):
CCATGCACCGATGCACTCAGGATTTTATGAAACATCGAATGCACCAG
Found at i:1877945 original size:24 final size:24
Alignment explanation
Indices: 1877912--1877981 Score: 77
Period size: 24 Copynumber: 2.9 Consensus size: 24
1877902 TTTTCAACTT
* *
1877912 GAATTTTGTTCTGATTTCTGATCT
1 GAATTCTGTTCTGATTTCTGATCC
* * *
1877936 GGATTCTGTTCTGATATCTAATCC
1 GAATTCTGTTCTGATTTCTGATCC
* *
1877960 GAATTCTGTTTTGATTTTTGAT
1 GAATTCTGTTCTGATTTCTGAT
1877982 ATCTCCGTTT
Statistics
Matches: 36, Mismatches: 10, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
24 36 1.00
ACGTcount: A:0.19, C:0.13, G:0.17, T:0.51
Consensus pattern (24 bp):
GAATTCTGTTCTGATTTCTGATCC
Found at i:1879123 original size:29 final size:29
Alignment explanation
Indices: 1879080--1879137 Score: 98
Period size: 29 Copynumber: 2.0 Consensus size: 29
1879070 TTGATTCCAC
* *
1879080 AAGGATAAATTTGTTCTGATTATTTTATT
1 AAGGATAAATCTGTTATGATTATTTTATT
1879109 AAGGATAAATCTGTTATGATTATTTTATT
1 AAGGATAAATCTGTTATGATTATTTTATT
1879138 GGAATGAGGG
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.33, C:0.03, G:0.14, T:0.50
Consensus pattern (29 bp):
AAGGATAAATCTGTTATGATTATTTTATT
Found at i:1882944 original size:24 final size:24
Alignment explanation
Indices: 1882914--1882986 Score: 92
Period size: 24 Copynumber: 3.0 Consensus size: 24
1882904 ATTTTCGACT
*
1882914 TGAATTCTGTTCTGATATCTGATA
1 TGAATTCTGTTATGATATCTGATA
* * *
1882938 TGGATTCTGTTATGATATCTGTTC
1 TGAATTCTGTTATGATATCTGATA
* *
1882962 TGAATTCTGTTTTGATTTCTGATA
1 TGAATTCTGTTATGATATCTGATA
1882986 T
1 T
1882987 CTCTGTTTAA
Statistics
Matches: 40, Mismatches: 9, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
24 40 1.00
ACGTcount: A:0.21, C:0.11, G:0.18, T:0.51
Consensus pattern (24 bp):
TGAATTCTGTTATGATATCTGATA
Found at i:1882958 original size:12 final size:12
Alignment explanation
Indices: 1882919--1882982 Score: 51
Period size: 12 Copynumber: 5.3 Consensus size: 12
1882909 CGACTTGAAT
*
1882919 TCTGTTCTGATA
1 TCTGTTATGATA
*
1882931 TCTGATATGGAT-
1 TCTGTTAT-GATA
1882943 TCTGTTATGATA
1 TCTGTTATGATA
*
1882955 TCTGTTCTGA-A
1 TCTGTTATGATA
* *
1882966 TTCTGTTTTGATT
1 -TCTGTTATGATA
1882979 TCTG
1 TCTG
1882983 ATATCTCTGT
Statistics
Matches: 42, Mismatches: 6, Indels: 8
0.75 0.11 0.14
Matches are distributed among these distances:
11 4 0.10
12 35 0.83
13 3 0.07
ACGTcount: A:0.17, C:0.12, G:0.19, T:0.52
Consensus pattern (12 bp):
TCTGTTATGATA
Found at i:1886606 original size:43 final size:43
Alignment explanation
Indices: 1885969--1886701 Score: 406
Period size: 43 Copynumber: 17.0 Consensus size: 43
1885959 GATATCTAGC
* * * * *
1885969 CCGAAGAGCATTTCATCTAGCTCAA-CCAGCGAAGGGGAATCAT
1 CCGAAGAACATTTCACCTGGCTTAACCCA-CGAAGGGGAGTCAT
* * * * ** * *
1886012 TCGATGAACGTTTCACCTGGCTCAACCCGTGAAAGAGAGTCAT
1 CCGAAGAACATTTCACCTGGCTTAACCCACGAAGGGGAGTCAT
** * * * ** * * *
1886055 CCGAAGAATGTTTCACATGGTTTAACTCGTGAATGAGAGTTAT
1 CCGAAGAACATTTCACCTGGCTTAACCCACGAAGGGGAGTCAT
* * ** * * *
1886098 CCAAAAAATGTTTCACCTAGCTTAA-CC-CGTAAAGAGAGTCAT
1 CCGAAGAACATTTCACCTGGCTTAACCCACG-AAGGGGAGTCAT
* * * * **
1886140 CTGCAA-ATCATTTCACCTGGCTTAAACCGCGAAGACGAGTCAT
1 CCG-AAGAACATTTCACCTGGCTTAACCCACGAAGGGGAGTCAT
** * * * **
1886183 CTAAAGAACATTTCACCAT-GCATAAACCCGCAAAGGAAAGTCAT
1 CCGAAGAACATTTCACC-TGGC-TTAACCCACGAAGGGGAGTCAT
* * * *
1886227 TCAAAGAACATTTCACCTGGCATAACCC-GGAAGGGGAGTCAT
1 CCGAAGAACATTTCACCTGGCTTAACCCACGAAGGGGAGTCAT
* * * * *
1886269 CTGAAGTAGC-TTTCACCTGGTTTGACCCGCGAAGGGGAGTCAT
1 CCGAAG-AACATTTCACCTGGCTTAACCCACGAAGGGGAGTCAT
** *
1886312 CCGAAGATTATTTCACTTGGCTTAA-CCAGCGAAGGGGAGTCAT
1 CCGAAGAACATTTCACCTGGCTTAACCCA-CGAAGGGGAGTCAT
* * *
1886355 CCGTAGAACATTTCACCTGGCTTAACCCACGAATGGGATTCAT
1 CCGAAGAACATTTCACCTGGCTTAACCCACGAAGGGGAGTCAT
* * ** *
1886398 TCAAAGAATGTTTCACCTGGCTTAACCCACGAAGAGGAGTCAT
1 CCGAAGAACATTTCACCTGGCTTAACCCACGAAGGGGAGTCAT
** * * *
1886441 TGGAAGAACATTTCACCTAGCTTAACCCGCGAATGGGAGTCAT
1 CCGAAGAACATTTCACCTGGCTTAACCCACGAAGGGGAGTCAT
* ** ** * ** *
1886484 CCGAAGAACATTTTACCAAGCTTAAACCTGCAAAGGATAATCAT
1 CCGAAGAACATTTCACCTGGCTT-AACCCACGAAGGGGAGTCAT
* *** *
1886528 CCGAAGAACGTTTCACCTGG-TTGAACCCTTAAAGGGGTGTCAT
1 CCGAAGAACATTTCACCTGGCTT-AACCCACGAAGGGGAGTCAT
* * * * *
1886571 CCAAAGAACCTTTCACCTGGCTTGACCTACGAAGGGGAGTCGT
1 CCGAAGAACATTTCACCTGGCTTAACCCACGAAGGGGAGTCAT
* * * ** * *
1886614 CCAAAGAGCTTTTCAATTGGCTTGACCCACGAAAGGGAGTCAT
1 CCGAAGAACATTTCACCTGGCTTAACCCACGAAGGGGAGTCAT
* * * ** *
1886657 CCGATA-AACATTTCTCTTGGCTTGACCCGTGGAGGGGAGTCAT
1 CCGA-AGAACATTTCACCTGGCTTAACCCACGAAGGGGAGTCAT
1886700 CC
1 CC
1886702 AAAATTTGAT
Statistics
Matches: 535, Mismatches: 138, Indels: 34
0.76 0.20 0.05
Matches are distributed among these distances:
41 1 0.00
42 60 0.11
43 400 0.75
44 74 0.14
ACGTcount: A:0.30, C:0.24, G:0.22, T:0.24
Consensus pattern (43 bp):
CCGAAGAACATTTCACCTGGCTTAACCCACGAAGGGGAGTCAT
Found at i:1886974 original size:10 final size:10
Alignment explanation
Indices: 1886940--1887077 Score: 126
Period size: 8 Copynumber: 15.2 Consensus size: 10
1886930 TTATACTTTA
1886940 ATAT-TATAT
1 ATATATATAT
* *
1886949 ATATAAAAAT
1 ATATATATAT
1886959 AT-TATATAT
1 ATATATATAT
1886968 ATATATATAT
1 ATATATATAT
*
1886978 ATATAGTTTAT
1 ATATA-TATAT
*
1886989 AAATATATAT
1 ATATATATAT
1886999 ATATATATAT
1 ATATATATAT
1887009 ATAT-TATAT
1 ATATATATAT
1887018 -TATAT-TAT
1 ATATATATAT
1887026 AT-TATAT-T
1 ATATATATAT
1887034 ATAT-TATAT
1 ATATATATAT
1887043 -TATAT-TAT
1 ATATATATAT
1887051 AT-TATAT-T
1 ATATATATAT
1887059 ATAT-TATAT
1 ATATATATAT
1887068 -TATAT-TAT
1 ATATATATAT
1887076 AT
1 AT
1887078 TTAGACTATA
Statistics
Matches: 106, Mismatches: 8, Indels: 30
0.74 0.06 0.21
Matches are distributed among these distances:
8 36 0.34
9 28 0.26
10 34 0.32
11 8 0.08
ACGTcount: A:0.46, C:0.00, G:0.01, T:0.54
Consensus pattern (10 bp):
ATATATATAT
Found at i:1886978 original size:25 final size:24
Alignment explanation
Indices: 1886892--1887078 Score: 149
Period size: 25 Copynumber: 7.7 Consensus size: 24
1886882 TATTTGGAGT
* *
1886892 TTATATTA-GTAT-TTATTTTATA
1 TTATATTATATATATTATATTATA
*
1886914 TTA-ATTA-ATATA-TATTTTATA
1 TTATATTATATATATTATATTATA
**
1886935 CTTTAATATTATATATA-TA-AAAATA
1 --TT-ATATTATATATATTATATTATA
1886960 TTATA-TATATATA-TATATATATA
1 TTATATTATATATATTATAT-TATA
*
1886983 GTTTATAAATATATATATATATATATATA
1 --TTAT-ATTATATATAT-TATAT-TATA
1887012 TTATATTATATTATATTATATTATA
1 TTATATTATA-TATATTATATTATA
1887037 TTATATTATATTATATTATATTATA
1 TTATATTATA-TATATTATATTATA
1887062 TTATATTATATTATATT
1 TTATATTATA-TATATT
1887079 TAGACTATAT
Statistics
Matches: 143, Mismatches: 7, Indels: 27
0.81 0.04 0.15
Matches are distributed among these distances:
21 26 0.18
22 7 0.05
23 7 0.05
24 1 0.01
25 57 0.40
26 18 0.13
27 17 0.12
29 10 0.07
ACGTcount: A:0.43, C:0.01, G:0.01, T:0.56
Consensus pattern (24 bp):
TTATATTATATATATTATATTATA
Found at i:1887026 original size:15 final size:15
Alignment explanation
Indices: 1886892--1887078 Score: 162
Period size: 15 Copynumber: 11.5 Consensus size: 15
1886882 TATTTGGAGT
*
1886892 TTATATTAGTATTTATT
1 TTATATTA-TA-TTATA
1886909 TTATATTA-ATTAATA
1 TTATATTATATT-ATA
*
1886924 TATATTTTATACTTTAATA
1 T-TATATTATA--TT-ATA
**
1886943 TTATATATATAAAAATA
1 TTATAT-TAT-ATTATA
1886960 TTATATATATATATATA
1 TTATAT-TATAT-TATA
*
1886977 TATATAGTT-TATAAATA
1 T-TATA-TTATAT-TATA
1886994 TATATATATATATATATA
1 T-TATAT-TATAT-TATA
1887012 TTATATTATATTATA
1 TTATATTATATTATA
1887027 TTATATTATATTATA
1 TTATATTATATTATA
1887042 TTATATTATATTATA
1 TTATATTATATTATA
1887057 TTATATTATATTATA
1 TTATATTATATTATA
1887072 TTATATT
1 TTATATT
1887079 TAGACTATAT
Statistics
Matches: 149, Mismatches: 9, Indels: 26
0.81 0.05 0.14
Matches are distributed among these distances:
14 2 0.01
15 60 0.40
16 13 0.09
17 45 0.30
18 17 0.11
19 11 0.07
20 1 0.01
ACGTcount: A:0.43, C:0.01, G:0.01, T:0.56
Consensus pattern (15 bp):
TTATATTATATTATA
Found at i:1887078 original size:10 final size:10
Alignment explanation
Indices: 1886892--1887078 Score: 162
Period size: 10 Copynumber: 17.2 Consensus size: 10
1886882 TATTTGGAGT
1886892 TTATATTAGTA
1 TTATATTA-TA
*
1886903 TTTATTTTATA
1 -TTATATTATA
1886914 TTA-ATTAATA
1 TTATATT-ATA
*
1886924 TATATTTTATA
1 T-TATATTATA
1886935 CTTTAATATTATA
1 --TT-ATATTATA
**
1886948 TATATAAAAATA
1 T-TAT-ATTATA
1886960 TTATATATATA
1 TTATAT-TATA
1886971 TATATATATATA
1 T-TATAT-TATA
*
1886983 GTT-TATAAATA
1 -TTATAT-TATA
1886994 TATATATATATA
1 T-TATAT-TATA
1887006 TATATATTATA
1 T-TATATTATA
1887017 TTATATTATA
1 TTATATTATA
1887027 TTATATTATA
1 TTATATTATA
1887037 TTATATTATA
1 TTATATTATA
1887047 TTATATTATA
1 TTATATTATA
1887057 TTATATTATA
1 TTATATTATA
1887067 TTATATTATA
1 TTATATTATA
1887077 TT
1 TT
1887079 TAGACTATAT
Statistics
Matches: 152, Mismatches: 10, Indels: 28
0.80 0.05 0.15
Matches are distributed among these distances:
9 2 0.01
10 70 0.46
11 30 0.20
12 41 0.27
13 9 0.06
ACGTcount: A:0.43, C:0.01, G:0.01, T:0.56
Consensus pattern (10 bp):
TTATATTATA
Found at i:1889075 original size:2 final size:2
Alignment explanation
Indices: 1889068--1889138 Score: 142
Period size: 2 Copynumber: 35.5 Consensus size: 2
1889058 TTAATTTAAA
1889068 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1889110 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1889139 ATAACATTGT
Statistics
Matches: 69, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 69 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:1889672 original size:56 final size:56
Alignment explanation
Indices: 1889601--1889716 Score: 160
Period size: 56 Copynumber: 2.1 Consensus size: 56
1889591 TATAAAAGTT
* * *
1889601 GGGCGCTGGCCTGAGCCACACTAACCCAACAAACAAAATGAAAAGCAAAGAGGCAA
1 GGGCGCTGGCCTGAGCCACACCAACCCAACAAACAAAAGGAAAAACAAAGAGGCAA
* * * * *
1889657 GGGCGCTGGCCTGAGCTACGCCAAGCCAACAAGCAAAAGGAAAAACAACGAGGCAA
1 GGGCGCTGGCCTGAGCCACACCAACCCAACAAACAAAAGGAAAAACAAAGAGGCAA
1889713 GGGC
1 GGGC
1889717 TCTCCATGAG
Statistics
Matches: 52, Mismatches: 8, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
56 52 1.00
ACGTcount: A:0.40, C:0.27, G:0.28, T:0.06
Consensus pattern (56 bp):
GGGCGCTGGCCTGAGCCACACCAACCCAACAAACAAAAGGAAAAACAAAGAGGCAA
Found at i:1892917 original size:135 final size:134
Alignment explanation
Indices: 1892750--1893018 Score: 486
Period size: 135 Copynumber: 2.0 Consensus size: 134
1892740 ATTATAAAAT
* *
1892750 CTTAAAATTCAATAACACTTAATTTGTTATATCGAAATATCAAAATGTTTTCAACAATCTCCCCC
1 CTTAAAATTCAATAACACTTAATTTATTATATCGAAACATCAAAATGTTTTCAACAATCTCCCCC
1892815 TTTTTGATATAACAAAATATTTGAGTAATTTTAAGATTTTTTTTAAAATCA-TTTTTGAAATCAA
66 TTTTTGATATAACAAAATATTTGAGTAATTTTAAGA-TTTTTTTAAAAT-ATTTTTTGAAATCAA
1892879 TTTTGA
129 TTTTGA
*
1892885 CTTAAAATTCAATAACACTTAATTTATTATATCGGAACATCAAAATGTTTTCAACAATCTCCCCC
1 CTTAAAATTCAATAACACTTAATTTATTATATCGAAACATCAAAATGTTTTCAACAATCTCCCCC
1892950 TTTTTGATATAACAAAATATTTGAGTAATTTTAAGATTTTTTTAAAATATTTTTTGAAATCAATT
66 TTTTTGATATAACAAAATATTTGAGTAATTTTAAGATTTTTTTAAAATATTTTTTGAAATCAATT
1893015 TTGA
131 TTGA
1893019 AAATTATCTT
Statistics
Matches: 130, Mismatches: 3, Indels: 3
0.96 0.02 0.02
Matches are distributed among these distances:
133 1 0.01
134 31 0.24
135 98 0.75
ACGTcount: A:0.38, C:0.13, G:0.07, T:0.43
Consensus pattern (134 bp):
CTTAAAATTCAATAACACTTAATTTATTATATCGAAACATCAAAATGTTTTCAACAATCTCCCCC
TTTTTGATATAACAAAATATTTGAGTAATTTTAAGATTTTTTTAAAATATTTTTTGAAATCAATT
TTGA
Done.