Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008027.1 Hibiscus syriacus cultivar Beakdansim tig00110503_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: 7662336
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 18 of 38
Found at i:3827264 original size:21 final size:21
Alignment explanation
Indices: 3827240--3827279 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
3827230 TCATATTCGT
* *
3827240 TTGAGGGGGTATCGATTCCCC
1 TTGAAGGGGTACCGATTCCCC
*
3827261 TTGAATGGGTACCGATTCC
1 TTGAAGGGGTACCGATTCC
3827280 TCTAGACCAG
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.17, C:0.23, G:0.30, T:0.30
Consensus pattern (21 bp):
TTGAAGGGGTACCGATTCCCC
Found at i:3828682 original size:31 final size:31
Alignment explanation
Indices: 3828647--3828786 Score: 228
Period size: 31 Copynumber: 4.5 Consensus size: 31
3828637 TTCAACGTCC
3828647 AAGTGACCAAAACTTAATAACACGATAACGT
1 AAGTGACCAAAACTTAATAACACGATAACGT
3828678 AAGTGACCAAAACTTAATAACAC-ACTAACGT
1 AAGTGACCAAAACTTAATAACACGA-TAACGT
3828709 AAGTGACCAAAACTTAATAACACGATAACGT
1 AAGTGACCAAAACTTAATAACACGATAACGT
* * *
3828740 AAGTGACCAAAACTTAATAAAACAATAATGT
1 AAGTGACCAAAACTTAATAACACGATAACGT
*
3828771 GAGTGACCAAAACTTA
1 AAGTGACCAAAACTTA
3828787 TGTTTTTTGA
Statistics
Matches: 103, Mismatches: 4, Indels: 4
0.93 0.04 0.04
Matches are distributed among these distances:
30 1 0.01
31 101 0.98
32 1 0.01
ACGTcount: A:0.49, C:0.19, G:0.12, T:0.20
Consensus pattern (31 bp):
AAGTGACCAAAACTTAATAACACGATAACGT
Found at i:3829079 original size:59 final size:58
Alignment explanation
Indices: 3828973--3829098 Score: 225
Period size: 59 Copynumber: 2.2 Consensus size: 58
3828963 AAAATAAAAT
*
3828973 GAAAGTGACCATATATTATATTTTTTAATTAAGTGTGTAAAAGTTATAATACTCAAAC
1 GAAAGTGACCATATATTATATTTTTTAATTAAGTGTGGAAAAGTTATAATACTCAAAC
*
3829031 GAAAGTGACCATATATTATATTTTTTTAATTAAGTGTGGGAAAGTTATAATACTCAAAC
1 GAAAGTGACCATATATTATA-TTTTTTAATTAAGTGTGGAAAAGTTATAATACTCAAAC
3829090 GAAAGTGAC
1 GAAAGTGAC
3829099 TATTTTGAAA
Statistics
Matches: 65, Mismatches: 2, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
58 20 0.31
59 45 0.69
ACGTcount: A:0.40, C:0.09, G:0.15, T:0.36
Consensus pattern (58 bp):
GAAAGTGACCATATATTATATTTTTTAATTAAGTGTGGAAAAGTTATAATACTCAAAC
Found at i:3829159 original size:20 final size:20
Alignment explanation
Indices: 3829125--3829174 Score: 68
Period size: 20 Copynumber: 2.6 Consensus size: 20
3829115 AATTTAAAGA
*
3829125 TAATAT-AATATTTTAAAAT
1 TAATATAAAAATTTTAAAAT
3829144 TAATATAAAAATTTTAAAAT
1 TAATATAAAAATTTTAAAAT
*
3829164 TATTA-AAAAAT
1 TAATATAAAAAT
3829175 GCAATGTCAC
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
19 12 0.43
20 16 0.57
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (20 bp):
TAATATAAAAATTTTAAAAT
Found at i:3830793 original size:36 final size:37
Alignment explanation
Indices: 3830753--3830830 Score: 122
Period size: 38 Copynumber: 2.1 Consensus size: 37
3830743 AACTTAATAT
3830753 TAAATTTTGAATG-GGATACTAAAATAAAACAAAAAC
1 TAAATTTTGAATGAGGATACTAAAATAAAACAAAAAC
* *
3830789 TAAATTTTTAATGACGGGTACTAAAATAAAACAAAAAC
1 TAAATTTTGAATGA-GGATACTAAAATAAAACAAAAAC
3830827 TAAA
1 TAAA
3830831 CTTTAAGTAT
Statistics
Matches: 38, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
36 12 0.32
38 26 0.68
ACGTcount: A:0.55, C:0.09, G:0.10, T:0.26
Consensus pattern (37 bp):
TAAATTTTGAATGAGGATACTAAAATAAAACAAAAAC
Found at i:3831067 original size:11 final size:12
Alignment explanation
Indices: 3831051--3831080 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
3831041 ATATATGAGT
3831051 TTTTTAT-AATC
1 TTTTTATAAATC
3831062 TTTTTATAAATC
1 TTTTTATAAATC
3831074 TTTTTAT
1 TTTTTAT
3831081 TTTTAATAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 7 0.39
12 11 0.61
ACGTcount: A:0.27, C:0.07, G:0.00, T:0.67
Consensus pattern (12 bp):
TTTTTATAAATC
Found at i:3833492 original size:96 final size:97
Alignment explanation
Indices: 3833327--3833517 Score: 276
Period size: 96 Copynumber: 2.0 Consensus size: 97
3833317 AACTTTGATG
* *** * *
3833327 AAAGTTTTGAAACTCTTACTTAAAAATTATGTTTGTTGAAGAAAATCGAGTCGTTAAAACAGGTT
1 AAAGTTTCGAAACTCTTACTTAAAAATTATGACCGTTAAAGAAAATCGAGTCGTTAAAACAAGTT
*
3833392 CAGGGGGCAAAGTTTCAAAATTTTATCAAATC
66 CAGGGGACAAAGTTTCAAAATTTTATCAAATC
* * *
3833424 AAAGTTTCGAAACTCTTACTTAAAAA-TATGACCGTTAAAGAAAATTGGGTCGTTAAAACAATTT
1 AAAGTTTCGAAACTCTTACTTAAAAATTATGACCGTTAAAGAAAATCGAGTCGTTAAAACAAGTT
*
3833488 CAGGGGACAAAGTTTCGAAATTTTATCAAA
66 CAGGGGACAAAGTTTCAAAATTTTATCAAA
3833518 AGTTTCGAAA
Statistics
Matches: 83, Mismatches: 11, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
96 58 0.70
97 25 0.30
ACGTcount: A:0.40, C:0.12, G:0.17, T:0.31
Consensus pattern (97 bp):
AAAGTTTCGAAACTCTTACTTAAAAATTATGACCGTTAAAGAAAATCGAGTCGTTAAAACAAGTT
CAGGGGACAAAGTTTCAAAATTTTATCAAATC
Found at i:3834589 original size:27 final size:28
Alignment explanation
Indices: 3834558--3834610 Score: 90
Period size: 27 Copynumber: 1.9 Consensus size: 28
3834548 TGAGATACTA
3834558 ATTTGAAAAAAAT-TGATATCAATTGAT
1 ATTTGAAAAAAATATGATATCAATTGAT
*
3834585 ATTTGAAAAAAATATGATATTAATTG
1 ATTTGAAAAAAATATGATATCAATTG
3834611 TAGGTATAGA
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
27 13 0.54
28 11 0.46
ACGTcount: A:0.49, C:0.02, G:0.11, T:0.38
Consensus pattern (28 bp):
ATTTGAAAAAAATATGATATCAATTGAT
Found at i:3845248 original size:11 final size:11
Alignment explanation
Indices: 3845232--3845264 Score: 57
Period size: 11 Copynumber: 3.0 Consensus size: 11
3845222 CATTGCATGG
3845232 TATTTAGTTTA
1 TATTTAGTTTA
3845243 TATTTAGTTTA
1 TATTTAGTTTA
*
3845254 TATTTTGTTTA
1 TATTTAGTTTA
3845265 GTTCTCTTTA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 21 1.00
ACGTcount: A:0.24, C:0.00, G:0.09, T:0.67
Consensus pattern (11 bp):
TATTTAGTTTA
Found at i:3848670 original size:18 final size:18
Alignment explanation
Indices: 3848643--3848691 Score: 82
Period size: 18 Copynumber: 2.8 Consensus size: 18
3848633 CAGAATGTCG
3848643 AAAT-GGTATCGATACTA
1 AAATAGGTATCGATACTA
3848660 AAATAGGTATCGATACTA
1 AAATAGGTATCGATACTA
*
3848678 AAGTAGGTATCGAT
1 AAATAGGTATCGAT
3848692 GCCATAGAAG
Statistics
Matches: 30, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
17 4 0.13
18 26 0.87
ACGTcount: A:0.41, C:0.10, G:0.20, T:0.29
Consensus pattern (18 bp):
AAATAGGTATCGATACTA
Found at i:3849494 original size:24 final size:24
Alignment explanation
Indices: 3849465--3849511 Score: 85
Period size: 24 Copynumber: 2.0 Consensus size: 24
3849455 ACAAATCTAT
*
3849465 GTGGCACTTCGGTGCACATTATAC
1 GTGGCACTTCGGTGCAAATTATAC
3849489 GTGGCACTTCGGTGCAAATTATA
1 GTGGCACTTCGGTGCAAATTATA
3849512 TGAGCAGTGG
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.23, C:0.21, G:0.26, T:0.30
Consensus pattern (24 bp):
GTGGCACTTCGGTGCAAATTATAC
Found at i:3850829 original size:20 final size:20
Alignment explanation
Indices: 3850806--3850858 Score: 72
Period size: 20 Copynumber: 2.6 Consensus size: 20
3850796 ACTGCACATG
3850806 AAGTTTCGAAACTTTAGA-GC
1 AAGTTTCGAAACTTT-GATGC
*
3850826 AAGTGTCGAAACTTTGATGC
1 AAGTTTCGAAACTTTGATGC
*
3850846 AAGTTTCAAAACT
1 AAGTTTCGAAACT
3850859 ATTGTGAAAG
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
19 2 0.07
20 27 0.93
ACGTcount: A:0.36, C:0.15, G:0.19, T:0.30
Consensus pattern (20 bp):
AAGTTTCGAAACTTTGATGC
Found at i:3851086 original size:20 final size:20
Alignment explanation
Indices: 3851061--3851107 Score: 69
Period size: 20 Copynumber: 2.4 Consensus size: 20
3851051 ATTTTTTTAT
3851061 ATTTTAAA-AGCTTTAAACAC
1 ATTTTAAACA-CTTTAAACAC
*
3851081 ATTTTAAACACTTTAAACAT
1 ATTTTAAACACTTTAAACAC
3851101 ATTTTAA
1 ATTTTAA
3851108 TTAACTTAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
20 24 0.96
21 1 0.04
ACGTcount: A:0.45, C:0.13, G:0.02, T:0.40
Consensus pattern (20 bp):
ATTTTAAACACTTTAAACAC
Found at i:3851260 original size:2 final size:2
Alignment explanation
Indices: 3851253--3851279 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
3851243 AAGTTCAACA
3851253 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 A
3851280 ATTTTTAAAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:3852976 original size:37 final size:37
Alignment explanation
Indices: 3852903--3852976 Score: 105
Period size: 37 Copynumber: 2.0 Consensus size: 37
3852893 TTATATTTTA
*
3852903 AATTTTTTAAAAAAAATTATATAAATATTATGAATTT
1 AATTTTTTAAAAAAAATTATATAAATATTATCAATTT
* *
3852940 AATTTTTTAAAGAAAA-TATATAAATATTTTACAATTT
1 AATTTTTTAAAAAAAATTATATAAATATTAT-CAATTT
3852977 CTAATATTAT
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
36 13 0.39
37 20 0.61
ACGTcount: A:0.50, C:0.01, G:0.03, T:0.46
Consensus pattern (37 bp):
AATTTTTTAAAAAAAATTATATAAATATTATCAATTT
Found at i:3853468 original size:7 final size:6
Alignment explanation
Indices: 3853441--3853466 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
3853431 CTAATAATAT
3853441 AATAAA AATAAA AATAAA AATAAA AA
1 AATAAA AATAAA AATAAA AATAAA AA
3853467 ATTTAATAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.85, C:0.00, G:0.00, T:0.15
Consensus pattern (6 bp):
AATAAA
Found at i:3854289 original size:12 final size:12
Alignment explanation
Indices: 3854274--3854328 Score: 65
Period size: 12 Copynumber: 4.6 Consensus size: 12
3854264 GTTATTTAAA
3854274 CGGGTATTGGGC
1 CGGGTATTGGGC
*
3854286 CGGGTATTGGGT
1 CGGGTATTGGGC
*
3854298 CGGGTATTGGGT
1 CGGGTATTGGGC
* * *
3854310 CGAGAATCGGGC
1 CGGGTATTGGGC
3854322 CGGGTAT
1 CGGGTAT
3854329 ATATATATAT
Statistics
Matches: 36, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
12 36 1.00
ACGTcount: A:0.13, C:0.15, G:0.47, T:0.25
Consensus pattern (12 bp):
CGGGTATTGGGC
Found at i:3854412 original size:32 final size:32
Alignment explanation
Indices: 3854327--3854428 Score: 102
Period size: 32 Copynumber: 3.2 Consensus size: 32
3854317 CGGGCCGGGT
* *
3854327 ATATATATATATATATTTAAATTAAATATATAA
1 ATAT-TATATATATATTTAAATTAAATTTATTA
* *
3854360 ATA-TATATTTTTTATTTAAATTAAATTTATTA
1 ATATTATA-TATATATTTAAATTAAATTTATTA
*
3854392 ATATTATATATATATATAAA-TAATTATTT-TTA
1 ATATTATATATATATTTAAATTAA--ATTTATTA
3854424 ATATT
1 ATATT
3854429 TATCGGGTCA
Statistics
Matches: 58, Mismatches: 7, Indels: 9
0.78 0.09 0.12
Matches are distributed among these distances:
31 7 0.12
32 40 0.69
33 11 0.19
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (32 bp):
ATATTATATATATATTTAAATTAAATTTATTA
Found at i:3861505 original size:33 final size:33
Alignment explanation
Indices: 3861437--3861523 Score: 124
Period size: 33 Copynumber: 2.7 Consensus size: 33
3861427 CCTAACGTTT
*
3861437 ACTTTTTCTTTCATTTTAGTA--CCCGACTTTA
1 ACTTTTTATTTCATTTTAGTACCCCCGACTTTA
* *
3861468 ACTTTTTGTTTCATTTTAGTACCCCCGCCTTTA
1 ACTTTTTATTTCATTTTAGTACCCCCGACTTTA
*
3861501 ACTTTTTATTGCATTTTAGTACC
1 ACTTTTTATTTCATTTTAGTACC
3861524 AAATATTTTA
Statistics
Matches: 50, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
31 20 0.40
33 30 0.60
ACGTcount: A:0.18, C:0.23, G:0.08, T:0.51
Consensus pattern (33 bp):
ACTTTTTATTTCATTTTAGTACCCCCGACTTTA
Found at i:3862044 original size:23 final size:24
Alignment explanation
Indices: 3862009--3862053 Score: 74
Period size: 23 Copynumber: 1.9 Consensus size: 24
3861999 AAATATTTTT
3862009 TACTTTTAATTAAAAATTTATATA
1 TACTTTTAATTAAAAATTTATATA
*
3862033 TACTTTT-TTTAAAAATTTATA
1 TACTTTTAATTAAAAATTTATA
3862054 AGTTTTTTAT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
23 13 0.65
24 7 0.35
ACGTcount: A:0.42, C:0.04, G:0.00, T:0.53
Consensus pattern (24 bp):
TACTTTTAATTAAAAATTTATATA
Found at i:3862473 original size:15 final size:14
Alignment explanation
Indices: 3862453--3862484 Score: 55
Period size: 14 Copynumber: 2.2 Consensus size: 14
3862443 AAAAAAATCT
3862453 AAAATTTATAAAAAA
1 AAAATTTA-AAAAAA
3862468 AAAATTTAAAAAAA
1 AAAATTTAAAAAAA
3862482 AAA
1 AAA
3862485 CGATGTCCTT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 9 0.53
15 8 0.47
ACGTcount: A:0.78, C:0.00, G:0.00, T:0.22
Consensus pattern (14 bp):
AAAATTTAAAAAAA
Found at i:3863958 original size:28 final size:29
Alignment explanation
Indices: 3863903--3863961 Score: 75
Period size: 28 Copynumber: 2.1 Consensus size: 29
3863893 TATGGGTGTG
* *
3863903 TATGGGTTAAATGATTAAGAATTTAGGTT
1 TATGGGTTAAATGATTAACAATTGAGGTT
* *
3863932 TATGGGTT-AATGTTTAACCATTGAGGTT
1 TATGGGTTAAATGATTAACAATTGAGGTT
3863960 TA
1 TA
3863962 ATGCTTTTGT
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
28 18 0.69
29 8 0.31
ACGTcount: A:0.31, C:0.03, G:0.24, T:0.42
Consensus pattern (29 bp):
TATGGGTTAAATGATTAACAATTGAGGTT
Found at i:3865231 original size:23 final size:23
Alignment explanation
Indices: 3865205--3865261 Score: 105
Period size: 23 Copynumber: 2.5 Consensus size: 23
3865195 CTCGTATAAA
3865205 TGCACCGAAGTGCCACGTAGAAT
1 TGCACCGAAGTGCCACGTAGAAT
*
3865228 TGCACCGAAGTGCCGCGTAGAAT
1 TGCACCGAAGTGCCACGTAGAAT
3865251 TGCACCGAAGT
1 TGCACCGAAGT
3865262 TCCATATAAA
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
23 33 1.00
ACGTcount: A:0.28, C:0.26, G:0.28, T:0.18
Consensus pattern (23 bp):
TGCACCGAAGTGCCACGTAGAAT
Found at i:3866454 original size:24 final size:20
Alignment explanation
Indices: 3866401--3866458 Score: 71
Period size: 20 Copynumber: 2.7 Consensus size: 20
3866391 TTCCCCTTGA
*
3866401 AGTGCATCGATACATTCTAT
1 AGTGCATCGATGCATTCTAT
3866421 AGTGCATCGATGCATTCTTTAAT
1 AGTGCATCGATGCATTC--T-AT
3866444 ATGTGCATCGATGCA
1 A-GTGCATCGATGCA
3866459 ATACCCATGC
Statistics
Matches: 33, Mismatches: 1, Indels: 4
0.87 0.03 0.11
Matches are distributed among these distances:
20 16 0.48
22 1 0.03
23 3 0.09
24 13 0.39
ACGTcount: A:0.28, C:0.19, G:0.19, T:0.34
Consensus pattern (20 bp):
AGTGCATCGATGCATTCTAT
Found at i:3866535 original size:19 final size:19
Alignment explanation
Indices: 3866511--3866562 Score: 95
Period size: 19 Copynumber: 2.7 Consensus size: 19
3866501 TTTAAGGGGG
*
3866511 TGCATCAATGCACTCCTTA
1 TGCATCGATGCACTCCTTA
3866530 TGCATCGATGCACTCCTTA
1 TGCATCGATGCACTCCTTA
3866549 TGCATCGATGCACT
1 TGCATCGATGCACT
3866563 AACTGCATTC
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
19 32 1.00
ACGTcount: A:0.23, C:0.31, G:0.15, T:0.31
Consensus pattern (19 bp):
TGCATCGATGCACTCCTTA
Found at i:3868827 original size:69 final size:71
Alignment explanation
Indices: 3868732--3868873 Score: 207
Period size: 69 Copynumber: 2.0 Consensus size: 71
3868722 CACACATCTT
* *
3868732 GTGCTTAATATCGAGGAATGATTCCCTTACGACCGGTATAAGACCTTACAAAACAGTAC-AAAAT
1 GTGCTTAACATCGAGGAATGATTCCCTTACGAACGGTATAAGACCTTACAAAACAGTACAAAAAT
3868796 GCATCA
66 GCATCA
* * * * *
3868802 GTGCTTAACATCG-GGGATGATTCCCTTATGAATGGTATAAGACCTTGCAAAATAGTACAAAAAT
1 GTGCTTAACATCGAGGAATGATTCCCTTACGAACGGTATAAGACCTTACAAAACAGTACAAAAAT
3868866 GCATCA
66 GCATCA
3868872 GT
1 GT
3868874 AGTCAATAAA
Statistics
Matches: 64, Mismatches: 7, Indels: 2
0.88 0.10 0.03
Matches are distributed among these distances:
69 39 0.61
70 25 0.39
ACGTcount: A:0.36, C:0.19, G:0.19, T:0.26
Consensus pattern (71 bp):
GTGCTTAACATCGAGGAATGATTCCCTTACGAACGGTATAAGACCTTACAAAACAGTACAAAAAT
GCATCA
Found at i:3870802 original size:20 final size:20
Alignment explanation
Indices: 3870759--3870812 Score: 65
Period size: 20 Copynumber: 2.7 Consensus size: 20
3870749 ATTTTCCTGT
*
3870759 AGTTTTGAAACTATCTCAAG
1 AGTTTTGAAACTTTCTCAAG
*
3870779 AGTTTTGAAACTTTCATTAA-
1 AGTTTTGAAACTTTC-TCAAG
*
3870799 AGTTTTGATACTTT
1 AGTTTTGAAACTTT
3870813 GGGTCCAACA
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
20 27 0.90
21 3 0.10
ACGTcount: A:0.31, C:0.11, G:0.13, T:0.44
Consensus pattern (20 bp):
AGTTTTGAAACTTTCTCAAG
Found at i:3876524 original size:20 final size:20
Alignment explanation
Indices: 3876501--3876547 Score: 76
Period size: 20 Copynumber: 2.4 Consensus size: 20
3876491 ATTTCCAAAT
*
3876501 TCGCAACGTGAATCTGTAAA
1 TCGCAACGCGAATCTGTAAA
*
3876521 TCGCAACGCGAATTTGTAAA
1 TCGCAACGCGAATCTGTAAA
3876541 TCGCAAC
1 TCGCAAC
3876548 ACAGAAGTCA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.34, C:0.23, G:0.19, T:0.23
Consensus pattern (20 bp):
TCGCAACGCGAATCTGTAAA
Found at i:3876564 original size:20 final size:20
Alignment explanation
Indices: 3876541--3876727 Score: 211
Period size: 20 Copynumber: 9.3 Consensus size: 20
3876531 AATTTGTAAA
3876541 TCGCAACACAGAAGTCAAAT
1 TCGCAACACAGAAGTCAAAT
*
3876561 TCGCAACACAGAAGTTAAAT
1 TCGCAACACAGAAGTCAAAT
3876581 TCGCAACAC-GATAGTCAAAT
1 TCGCAACACAGA-AGTCAAAT
* *
3876601 TCGCAACACTGAATTCAAAT
1 TCGCAACACAGAAGTCAAAT
3876621 TCGCAACACAGAAGTCAAAT
1 TCGCAACACAGAAGTCAAAT
*
3876641 TCGCAACACTA-AATTTCAAAT
1 TCGCAACAC-AGAA-GTCAAAT
* *
3876662 TCGCAGCACAAAAGTCAAAT
1 TCGCAACACAGAAGTCAAAT
*
3876682 TCGCAACGC-GATAGTCAAAT
1 TCGCAACACAGA-AGTCAAAT
* **
3876702 TCACAATGC-GATAGTCAAAT
1 TCGCAACACAGA-AGTCAAAT
3876722 TCGCAA
1 TCGCAA
3876728 AGCGCGTTTA
Statistics
Matches: 147, Mismatches: 14, Indels: 12
0.85 0.08 0.07
Matches are distributed among these distances:
19 3 0.02
20 125 0.85
21 19 0.13
ACGTcount: A:0.42, C:0.24, G:0.14, T:0.20
Consensus pattern (20 bp):
TCGCAACACAGAAGTCAAAT
Found at i:3876585 original size:60 final size:61
Alignment explanation
Indices: 3876517--3876688 Score: 210
Period size: 60 Copynumber: 2.9 Consensus size: 61
3876507 CGTGAATCTG
*
3876517 TAAA-TCGCAACGCGAATTTGTAAA-TCGCAACACAGAAGTCAAATTCGCAACACAGAAGT
1 TAAATTCGCAACACGAATTTGTAAATTCGCAACACAGAAGTCAAATTCGCAACACAGAAGT
* * *
3876576 TAAATTCGCAACACG-A-TAGTCAAATTCGCAACACTGAATTCAAATTCGCAACACAGAAGT
1 TAAATTCGCAACACGAATTTGT-AAATTCGCAACACAGAAGTCAAATTCGCAACACAGAAGT
* * * * *
3876636 CAAATTCGCAACACTAAATTT-CAAATTCGCAGCACAAAAGTCAAATTCGCAAC
1 TAAATTCGCAACAC-GAATTTGTAAATTCGCAACACAGAAGTCAAATTCGCAAC
3876689 GCGATAGTCA
Statistics
Matches: 95, Mismatches: 12, Indels: 10
0.81 0.10 0.09
Matches are distributed among these distances:
58 3 0.03
59 8 0.08
60 55 0.58
61 27 0.28
62 1 0.01
63 1 0.01
ACGTcount: A:0.42, C:0.24, G:0.13, T:0.20
Consensus pattern (61 bp):
TAAATTCGCAACACGAATTTGTAAATTCGCAACACAGAAGTCAAATTCGCAACACAGAAGT
Found at i:3876905 original size:22 final size:22
Alignment explanation
Indices: 3876880--3876937 Score: 107
Period size: 22 Copynumber: 2.6 Consensus size: 22
3876870 TCACTCTCTA
*
3876880 CGGCGACATCCGTCCCCATCTC
1 CGGCGAAATCCGTCCCCATCTC
3876902 CGGCGAAATCCGTCCCCATCTC
1 CGGCGAAATCCGTCCCCATCTC
3876924 CGGCGAAATCCGTC
1 CGGCGAAATCCGTC
3876938 TATCTCCATC
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
22 35 1.00
ACGTcount: A:0.17, C:0.45, G:0.21, T:0.17
Consensus pattern (22 bp):
CGGCGAAATCCGTCCCCATCTC
Found at i:3879451 original size:21 final size:21
Alignment explanation
Indices: 3879373--3879466 Score: 116
Period size: 21 Copynumber: 4.5 Consensus size: 21
3879363 ATTCACCTGT
*
3879373 CATCGTTCAAGAGGCACCTCC
1 CATCGTTCAAGAGGCCCCTCC
* * *
3879394 TATCGTTCAAGAGGCTCCTCT
1 CATCGTTCAAGAGGCCCCTCC
3879415 CATCGTTCAAGAGGCCCCTCC
1 CATCGTTCAAGAGGCCCCTCC
* * **
3879436 CACCGTTCAAGAGGCCTCTGT
1 CATCGTTCAAGAGGCCCCTCC
3879457 CATCGTTCAA
1 CATCGTTCAA
3879467 TGGGTCCCTC
Statistics
Matches: 62, Mismatches: 11, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 62 1.00
ACGTcount: A:0.21, C:0.35, G:0.19, T:0.24
Consensus pattern (21 bp):
CATCGTTCAAGAGGCCCCTCC
Found at i:3879476 original size:42 final size:41
Alignment explanation
Indices: 3879368--3879489 Score: 140
Period size: 42 Copynumber: 2.9 Consensus size: 41
3879358 GCCTGATTCA
* *
3879368 CCTGTCATCGTTCAAGAGGCACCTCCTATCGTTCAAGAGGCT
1 CCTGTCATCGTTCAAGAGGC-CCTCCCACCGTTCAAGAGGCT
*
3879410 CCTCTCATCGTTCAAGAGGCCCCTCCCACCGTTCAAGAGGC-
1 CCTGTCATCGTTCAAGAGG-CCCTCCCACCGTTCAAGAGGCT
* *
3879451 CTCTGTCATCGTTCAATG-GGTCCCTCTCACTGTTCAAGA
1 C-CTGTCATCGTTCAA-GAGG-CCCTCCCACCGTTCAAGA
3879490 ACCTGATTCA
Statistics
Matches: 70, Mismatches: 7, Indels: 6
0.84 0.08 0.07
Matches are distributed among these distances:
41 1 0.01
42 67 0.96
43 2 0.03
ACGTcount: A:0.20, C:0.34, G:0.20, T:0.26
Consensus pattern (41 bp):
CCTGTCATCGTTCAAGAGGCCCTCCCACCGTTCAAGAGGCT
Found at i:3880951 original size:28 final size:28
Alignment explanation
Indices: 3880904--3880959 Score: 76
Period size: 28 Copynumber: 2.0 Consensus size: 28
3880894 TTGCTTGTTT
*
3880904 AGTTGATTTGTAAAAGTTGATTTGTAAA
1 AGTTGATTTGTAAAAGTTGATGTGTAAA
** *
3880932 AGTTGATTTGTTTAATTTGATGTGTAAA
1 AGTTGATTTGTAAAAGTTGATGTGTAAA
3880960 TAAGAATTAT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
28 24 1.00
ACGTcount: A:0.32, C:0.00, G:0.21, T:0.46
Consensus pattern (28 bp):
AGTTGATTTGTAAAAGTTGATGTGTAAA
Found at i:3880952 original size:14 final size:14
Alignment explanation
Indices: 3880904--3880942 Score: 78
Period size: 14 Copynumber: 2.8 Consensus size: 14
3880894 TTGCTTGTTT
3880904 AGTTGATTTGTAAA
1 AGTTGATTTGTAAA
3880918 AGTTGATTTGTAAA
1 AGTTGATTTGTAAA
3880932 AGTTGATTTGT
1 AGTTGATTTGT
3880943 TTAATTTGAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 25 1.00
ACGTcount: A:0.31, C:0.00, G:0.23, T:0.46
Consensus pattern (14 bp):
AGTTGATTTGTAAA
Found at i:3880993 original size:81 final size:77
Alignment explanation
Indices: 3880853--3881009 Score: 233
Period size: 81 Copynumber: 2.0 Consensus size: 77
3880843 TTTTACATTG
*
3880853 AAAGTTGATTTGTTTAATTGATGAGGAAATAAGAATTTGTTTTGCTTGTTTAGTTGATTTGTAAA
1 AAAGTTGATTTGTTTAATTGATGAGGAAATAAGAATTTGTTTTGCTTGTTTAATTGATTTGTAAA
3880918 AGTTGATTTGTA
66 AGTTGATTTGTA
* * * *
3880930 AAAGTTGATTTGTTTAATTTGATGTGTAAATAAGAATTATTTTTTTTGGTTGTTTAATTGATTTG
1 AAAGTTGATTTGTTTAA-TTGATGAGGAAATAAG-A--ATTTGTTTTGCTTGTTTAATTGATTTG
3880995 TAAAAGTTGATTTGT
62 TAAAAGTTGATTTGT
3881010 TGTTTTAAAT
Statistics
Matches: 71, Mismatches: 5, Indels: 4
0.89 0.06 0.05
Matches are distributed among these distances:
77 17 0.24
78 14 0.20
79 1 0.01
81 39 0.55
ACGTcount: A:0.29, C:0.01, G:0.20, T:0.50
Consensus pattern (77 bp):
AAAGTTGATTTGTTTAATTGATGAGGAAATAAGAATTTGTTTTGCTTGTTTAATTGATTTGTAAA
AGTTGATTTGTA
Found at i:3881170 original size:20 final size:20
Alignment explanation
Indices: 3881115--3881171 Score: 78
Period size: 20 Copynumber: 2.9 Consensus size: 20
3881105 TCGTTGCGAT
* *
3881115 AGTCAAATTCGCAACACGAA
1 AGTCAAATTCGCAACGCAAA
* *
3881135 TGTCAAATTCACAACGCAAA
1 AGTCAAATTCGCAACGCAAA
3881155 AGTCAAATTCGCAACGC
1 AGTCAAATTCGCAACGC
3881172 GATTTTTGGT
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.42, C:0.26, G:0.14, T:0.18
Consensus pattern (20 bp):
AGTCAAATTCGCAACGCAAA
Found at i:3883735 original size:24 final size:24
Alignment explanation
Indices: 3883708--3883761 Score: 90
Period size: 24 Copynumber: 2.2 Consensus size: 24
3883698 CTGAAACACC
3883708 ATCAAAATCCGAGTATTGACCAAG
1 ATCAAAATCCGAGTATTGACCAAG
* *
3883732 ATCAAAGTCCGGGTATTGACCAAG
1 ATCAAAATCCGAGTATTGACCAAG
3883756 ATCAAA
1 ATCAAA
3883762 TTTTGAATAC
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.41, C:0.20, G:0.19, T:0.20
Consensus pattern (24 bp):
ATCAAAATCCGAGTATTGACCAAG
Found at i:3883908 original size:12 final size:12
Alignment explanation
Indices: 3883887--3883920 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
3883877 GGTTGTGGGT
*
3883887 TTTGAGATTGTG
1 TTTGATATTGTG
3883899 TTTGATATTGTG
1 TTTGATATTGTG
*
3883911 TTTGGTATTG
1 TTTGATATTG
3883921 GAAATGTGGT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.15, C:0.00, G:0.29, T:0.56
Consensus pattern (12 bp):
TTTGATATTGTG
Found at i:3884761 original size:20 final size:20
Alignment explanation
Indices: 3884732--3884819 Score: 97
Period size: 20 Copynumber: 4.4 Consensus size: 20
3884722 TTCGTATTGA
*
3884732 GAATTCGAAAATCGAGTTGC
1 GAATTTGAAAATCGAGTTGC
*
3884752 GAATTTGAAATTC-AGTTGC
1 GAATTTGAAAATCGAGTTGC
* *
3884771 GAATTTGAAATTCAGTGTTGC
1 GAATTTGAAAATC-GAGTTGC
** *
3884792 GAATTTGACTATCGCGTTGC
1 GAATTTGAAAATCGAGTTGC
3884812 GAATTTGA
1 GAATTTGA
3884820 CTTCTGTGTT
Statistics
Matches: 59, Mismatches: 7, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
19 19 0.32
20 25 0.42
21 15 0.25
ACGTcount: A:0.30, C:0.12, G:0.24, T:0.34
Consensus pattern (20 bp):
GAATTTGAAAATCGAGTTGC
Found at i:3884768 original size:19 final size:19
Alignment explanation
Indices: 3884732--3884799 Score: 91
Period size: 19 Copynumber: 3.4 Consensus size: 19
3884722 TTCGTATTGA
* *
3884732 GAATTCGAAAATCGAGTTGC
1 GAATTTGAAATTC-AGTTGC
3884752 GAATTTGAAATTCAGTTGC
1 GAATTTGAAATTCAGTTGC
3884771 GAATTTGAAATTCAGTGTTGC
1 GAATTTGAAATTCA--GTTGC
3884792 GAATTTGA
1 GAATTTGA
3884800 CTATCGCGTT
Statistics
Matches: 44, Mismatches: 2, Indels: 3
0.90 0.04 0.06
Matches are distributed among these distances:
19 20 0.45
20 11 0.25
21 13 0.30
ACGTcount: A:0.32, C:0.10, G:0.24, T:0.34
Consensus pattern (19 bp):
GAATTTGAAATTCAGTTGC
Found at i:3884820 original size:20 final size:20
Alignment explanation
Indices: 3884766--3885133 Score: 339
Period size: 20 Copynumber: 18.4 Consensus size: 20
3884756 TTGAAATTCA
*
3884766 GTTGCGAATTTGA-AATTCAGT
1 GTTGCGAATTTGACTA-TC-GT
*
3884787 GTTGCGAATTTGACTATCGC
1 GTTGCGAATTTGACTATCGT
3884807 GTTGCGAATTTGACT-TCTGT
1 GTTGCGAATTTGACTATC-GT
*
3884827 GTTGTGAATTTGACT-TCTGT
1 GTTGCGAATTTGACTATC-GT
* *
3884847 GTTGCG-ATTT-ACAGATTCGC
1 GTTGCGAATTTGAC-TA-TCGT
* *
3884867 GTTGCGAATTTGACTTTTGT
1 GTTGCGAATTTGACTATCGT
*
3884887 GTTGTGAATTTGACT-TCAGT
1 GTTGCGAATTTGACTATC-GT
* *
3884907 GTTGCGAATTTAACTATCGC
1 GTTGCGAATTTGACTATCGT
*
3884927 GTTGCGAATTTGACTATCGC
1 GTTGCGAATTTGACTATCGT
*
3884947 GTTGTGAATTTGACT-TCTGT
1 GTTGCGAATTTGACTATC-GT
3884967 GTTGCGAATTTGACTTAT-GT
1 GTTGCGAATTTGAC-TATCGT
* *
3884987 GTTGCG-ATTT-ACAGATTCGC
1 GTTGCGAATTTGAC-TA-TCGT
* *
3885007 GTTGCGAATTTGACTTTTGT
1 GTTGCGAATTTGACTATCGT
3885027 GTTGCGAATTTGACT-TCAGT
1 GTTGCGAATTTGACTATC-GT
* *
3885047 GTTGCGAATTTAACTATCGC
1 GTTGCGAATTTGACTATCGT
*
3885067 GTTGCGAATTTGACTATCGC
1 GTTGCGAATTTGACTATCGT
*
3885087 GTTGTGAATTTGACT-TCTGT
1 GTTGCGAATTTGACTATC-GT
3885107 GTTGCGAATTTGACT-TCTGT
1 GTTGCGAATTTGACTATC-GT
3885127 GTTGCGA
1 GTTGCGA
3885134 TTTACAAATT
Statistics
Matches: 294, Mismatches: 34, Indels: 39
0.80 0.09 0.11
Matches are distributed among these distances:
18 5 0.02
19 17 0.06
20 236 0.80
21 30 0.10
22 6 0.02
ACGTcount: A:0.19, C:0.15, G:0.25, T:0.42
Consensus pattern (20 bp):
GTTGCGAATTTGACTATCGT
Found at i:3885198 original size:140 final size:140
Alignment explanation
Indices: 3884747--3885158 Score: 704
Period size: 140 Copynumber: 2.9 Consensus size: 140
3884737 CGAAAATCGA
* * *
3884747 GTTGCGAATTTGAAATTCA--GTTGCGAATTTGAAAT-TCAGTGTTGCGAATTTGACTATCGCGT
1 GTTGCGAATTTG-ACTTCAGTGTTGCGAATTT-AACTATC-GCGTTGCGAATTTGACTATCGCGT
* *
3884809 TGCGAATTTGACTTCTGTGTTGTGAATTTGACTTCTGTGTTGCGATTTACAGATTCGCGTTGCGA
63 TGTGAATTTGACTTCTGTGTTGCGAATTTGACTTCTGTGTTGCGATTTACAGATTCGCGTTGCGA
3884874 ATTTGACTTTTGT
128 ATTTGACTTTTGT
*
3884887 GTTGTGAATTTGACTTCAGTGTTGCGAATTTAACTATCGCGTTGCGAATTTGACTATCGCGTTGT
1 GTTGCGAATTTGACTTCAGTGTTGCGAATTTAACTATCGCGTTGCGAATTTGACTATCGCGTTGT
*
3884952 GAATTTGACTTCTGTGTTGCGAATTTGACTTATGTGTTGCGATTTACAGATTCGCGTTGCGAATT
66 GAATTTGACTTCTGTGTTGCGAATTTGACTTCTGTGTTGCGATTTACAGATTCGCGTTGCGAATT
3885017 TGACTTTTGT
131 TGACTTTTGT
3885027 GTTGCGAATTTGACTTCAGTGTTGCGAATTTAACTATCGCGTTGCGAATTTGACTATCGCGTTGT
1 GTTGCGAATTTGACTTCAGTGTTGCGAATTTAACTATCGCGTTGCGAATTTGACTATCGCGTTGT
*
3885092 GAATTTGACTTCTGTGTTGCGAATTTGACTTCTGTGTTGCGATTTACAAATTCGCGTTGCGAATT
66 GAATTTGACTTCTGTGTTGCGAATTTGACTTCTGTGTTGCGATTTACAGATTCGCGTTGCGAATT
3885157 TG
131 TG
3885159 GAAACTGAGT
Statistics
Matches: 259, Mismatches: 10, Indels: 6
0.94 0.04 0.02
Matches are distributed among these distances:
139 5 0.02
140 241 0.93
141 13 0.05
ACGTcount: A:0.20, C:0.15, G:0.24, T:0.41
Consensus pattern (140 bp):
GTTGCGAATTTGACTTCAGTGTTGCGAATTTAACTATCGCGTTGCGAATTTGACTATCGCGTTGT
GAATTTGACTTCTGTGTTGCGAATTTGACTTCTGTGTTGCGATTTACAGATTCGCGTTGCGAATT
TGACTTTTGT
Found at i:3885840 original size:42 final size:40
Alignment explanation
Indices: 3885794--3885884 Score: 105
Period size: 42 Copynumber: 2.2 Consensus size: 40
3885784 TATTTTACTA
* * *
3885794 AAATATATTTTTTAA-ATTATTAAAAATTTAA-AATATATTAT
1 AAATATATTATTTAACAGT-TT-AAAATATAATAA-ATATTAT
3885835 CAAATATATTATTTAACAGTTTAAAATATAATAAATATTAT
1 -AAATATATTATTTAACAGTTTAAAATATAATAAATATTAT
3885876 AAATATATT
1 AAATATATT
3885885 GTTATTGTAA
Statistics
Matches: 44, Mismatches: 3, Indels: 6
0.83 0.06 0.11
Matches are distributed among these distances:
40 9 0.20
41 15 0.34
42 18 0.41
43 2 0.05
ACGTcount: A:0.52, C:0.02, G:0.01, T:0.45
Consensus pattern (40 bp):
AAATATATTATTTAACAGTTTAAAATATAATAAATATTAT
Found at i:3888909 original size:2 final size:2
Alignment explanation
Indices: 3888902--3888936 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
3888892 TTTTTAAAAC
3888902 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
3888937 CCCCCATCCG
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:3889162 original size:24 final size:24
Alignment explanation
Indices: 3889135--3889266 Score: 167
Period size: 24 Copynumber: 5.5 Consensus size: 24
3889125 TATATCAAAA
* * *
3889135 ATCAAATCATAATTCATGTCAAGT
1 ATCAGATCAGAATCCATGTCAAGT
* * *
3889159 ATCATATCAAAATCCAGGTCAAGT
1 ATCAGATCAGAATCCATGTCAAGT
*
3889183 ATCAGATCAGAATCCAAGTCAAGT
1 ATCAGATCAGAATCCATGTCAAGT
*
3889207 ATCAGATCAGAATCCATGT-TAGAT
1 ATCAGATCAGAATCCATGTCAAG-T
*
3889231 ATCAGATCTGAATCCATGTCAAGT
1 ATCAGATCAGAATCCATGTCAAGT
3889255 ATCAGATCAGAA
1 ATCAGATCAGAA
3889267 ATCAAATAAA
Statistics
Matches: 94, Mismatches: 12, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
23 2 0.02
24 90 0.96
25 2 0.02
ACGTcount: A:0.40, C:0.19, G:0.14, T:0.27
Consensus pattern (24 bp):
ATCAGATCAGAATCCATGTCAAGT
Found at i:3889283 original size:48 final size:49
Alignment explanation
Indices: 3889131--3889283 Score: 143
Period size: 48 Copynumber: 3.2 Consensus size: 49
3889121 CGGATATATC
* * * * *
3889131 AAAAATCAAATCAT-AATTCATGTCAAGTATCATATCA-AAATCCAGGTC
1 AAAAATCAGATC-TGAATCCATGTCAAGTATCAGATCAGAAATCCAAGTA
** * * * *
3889179 AAGTATCAGATCAGAATCCAAGTCAAGTATCAGATCAG-AATCCATGTT
1 AAAAATCAGATCTGAATCCATGTCAAGTATCAGATCAGAAATCCAAGTA
* * *
3889227 AGATATCAGATCTGAATCCATGTCAAGTATCAGATCAGAAAT-CAAATA
1 AAAAATCAGATCTGAATCCATGTCAAGTATCAGATCAGAAATCCAAGTA
3889275 AAAAATCAG
1 AAAAATCAG
3889284 GTAAAATATT
Statistics
Matches: 84, Mismatches: 18, Indels: 6
0.78 0.17 0.06
Matches are distributed among these distances:
48 81 0.96
49 3 0.04
ACGTcount: A:0.44, C:0.18, G:0.13, T:0.25
Consensus pattern (49 bp):
AAAAATCAGATCTGAATCCATGTCAAGTATCAGATCAGAAATCCAAGTA
Found at i:3893177 original size:21 final size:21
Alignment explanation
Indices: 3893144--3893196 Score: 61
Period size: 21 Copynumber: 2.5 Consensus size: 21
3893134 ATTCTGACTA
3893144 TCGCATTGCGATTTCCCAAAT
1 TCGCATTGCGATTTCCCAAAT
* * * *
3893165 TCGCGTTGTGATTTTCCTAAT
1 TCGCATTGCGATTTCCCAAAT
*
3893186 TCGCAATGCGA
1 TCGCATTGCGA
3893197 AAACGTAAAT
Statistics
Matches: 25, Mismatches: 7, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.21, C:0.25, G:0.19, T:0.36
Consensus pattern (21 bp):
TCGCATTGCGATTTCCCAAAT
Found at i:3893211 original size:20 final size:20
Alignment explanation
Indices: 3893186--3893277 Score: 103
Period size: 20 Copynumber: 4.5 Consensus size: 20
3893176 TTTTCCTAAT
*
3893186 TCGCAATGCGAAAACGTAAA
1 TCGCAATGCGAATACGTAAA
* ** *
3893206 TCGCAACGCGAATTTGGAAAA
1 TCGCAATGCGAA-TACGTAAA
* *
3893227 TCGCAATGCGATTACATAAA
1 TCGCAATGCGAATACGTAAA
*
3893247 TCGCAATGTGAATACGTAAA
1 TCGCAATGCGAATACGTAAA
3893267 TCGCAATGCGA
1 TCGCAATGCGA
3893278 TTTACATAGC
Statistics
Matches: 56, Mismatches: 15, Indels: 2
0.77 0.21 0.03
Matches are distributed among these distances:
20 42 0.75
21 14 0.25
ACGTcount: A:0.39, C:0.20, G:0.21, T:0.21
Consensus pattern (20 bp):
TCGCAATGCGAATACGTAAA
Found at i:3893479 original size:22 final size:22
Alignment explanation
Indices: 3893454--3893515 Score: 78
Period size: 22 Copynumber: 3.0 Consensus size: 22
3893444 GGTGACATCC
3893454 GTCCCCATCTCCGACGAAATCA
1 GTCCCCATCTCCGACGAAATCA
*
3893476 GTCCCCA----CGACGATATCA
1 GTCCCCATCTCCGACGAAATCA
*
3893494 GTCTCCATCTCCGACGAAATCA
1 GTCCCCATCTCCGACGAAATCA
3893516 TTCACGGTCA
Statistics
Matches: 33, Mismatches: 3, Indels: 8
0.75 0.07 0.18
Matches are distributed among these distances:
18 16 0.48
22 17 0.52
ACGTcount: A:0.27, C:0.39, G:0.15, T:0.19
Consensus pattern (22 bp):
GTCCCCATCTCCGACGAAATCA
Found at i:3893910 original size:20 final size:20
Alignment explanation
Indices: 3893885--3893931 Score: 76
Period size: 20 Copynumber: 2.4 Consensus size: 20
3893875 CGATTCTTGC
3893885 TTGCGATAGTCATTTTCGTG
1 TTGCGATAGTCATTTTCGTG
**
3893905 TTGCGATTTTCATTTTCGTG
1 TTGCGATAGTCATTTTCGTG
3893925 TTGCGAT
1 TTGCGAT
3893932 TTAAAGTTTC
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.13, C:0.15, G:0.23, T:0.49
Consensus pattern (20 bp):
TTGCGATAGTCATTTTCGTG
Found at i:3893932 original size:20 final size:20
Alignment explanation
Indices: 3893894--3893933 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
3893884 CTTGCGATAG
3893894 TCATTTTCGTGTTGCGATTT
1 TCATTTTCGTGTTGCGATTT
3893914 TCATTTTCGTGTTGCGATTT
1 TCATTTTCGTGTTGCGATTT
3893934 AAAGTTTCAG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.10, C:0.15, G:0.20, T:0.55
Consensus pattern (20 bp):
TCATTTTCGTGTTGCGATTT
Found at i:3893941 original size:20 final size:20
Alignment explanation
Indices: 3893898--3893941 Score: 61
Period size: 20 Copynumber: 2.2 Consensus size: 20
3893888 CGATAGTCAT
** *
3893898 TTTCGTGTTGCGATTTTCAT
1 TTTCGTGTTGCGATTTAAAG
3893918 TTTCGTGTTGCGATTTAAAG
1 TTTCGTGTTGCGATTTAAAG
3893938 TTTC
1 TTTC
3893942 AGAAACTATT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.14, C:0.14, G:0.20, T:0.52
Consensus pattern (20 bp):
TTTCGTGTTGCGATTTAAAG
Found at i:3895843 original size:20 final size:20
Alignment explanation
Indices: 3895818--3895938 Score: 155
Period size: 20 Copynumber: 6.3 Consensus size: 20
3895808 AGAATAGTTT
3895818 ACTATCGCAATGCGAAAATG
1 ACTATCGCAATGCGAAAATG
*
3895838 ACTATCGCAA--CG-AGA-G
1 ACTATCGCAATGCGAAAATG
3895854 A--ATCGCAATGCGAAAATG
1 ACTATCGCAATGCGAAAATG
*
3895872 ACTATTGCAATGCGAAAATG
1 ACTATCGCAATGCGAAAATG
3895892 ACTATCGCAATGCGAAAATG
1 ACTATCGCAATGCGAAAATG
* **
3895912 ACTATCGCAATGTGAATTTG
1 ACTATCGCAATGCGAAAATG
3895932 ACTATCG
1 ACTATCG
3895939 TAACGAAAGA
Statistics
Matches: 88, Mismatches: 7, Indels: 12
0.82 0.07 0.11
Matches are distributed among these distances:
14 7 0.08
16 4 0.05
17 4 0.05
18 4 0.05
20 69 0.78
ACGTcount: A:0.38, C:0.19, G:0.21, T:0.22
Consensus pattern (20 bp):
ACTATCGCAATGCGAAAATG
Found at i:3895864 original size:34 final size:38
Alignment explanation
Indices: 3895821--3895921 Score: 138
Period size: 34 Copynumber: 2.7 Consensus size: 38
3895811 ATAGTTTACT
*
3895821 ATCGCAATGCGAAAATGACTATCGCAA-CG-AGA-GA-
1 ATCGCAATGCGAAAATGACTATCGCAAGCGAAAATGAC
*
3895855 ATCGCAATGCGAAAATGACTATTGCAATGCGAAAATGAC
1 ATCGCAATGCGAAAATGACTATCGCAA-GCGAAAATGAC
3895894 TATCGCAATGCGAAAATGACTATCGCAA
1 -ATCGCAATGCGAAAATGACTATCGCAA
3895922 TGTGAATTTG
Statistics
Matches: 58, Mismatches: 3, Indels: 6
0.87 0.04 0.09
Matches are distributed among these distances:
34 26 0.45
36 2 0.03
37 2 0.03
38 2 0.03
40 26 0.45
ACGTcount: A:0.41, C:0.20, G:0.21, T:0.19
Consensus pattern (38 bp):
ATCGCAATGCGAAAATGACTATCGCAAGCGAAAATGAC
Found at i:3896029 original size:20 final size:20
Alignment explanation
Indices: 3896006--3896141 Score: 84
Period size: 20 Copynumber: 7.5 Consensus size: 20
3895996 GTTAAATTCA
*
3896006 CATTGCTATAGTCATTTTCG
1 CATTGCGATAGTCATTTTCG
3896026 CATTGCGATAGTCATTTTCG
1 CATTGCGATAGTCATTTTCG
*
3896046 CGTTGCGAT--T--TTGTT-G
1 CATTGCGATAGTCATT-TTCG
* **
3896062 --TTGTGATTTTCA-TTTCG
1 CATTGCGATAGTCATTTTCG
*
3896079 CATTGCGAT--TC--TCTCG
1 CATTGCGATAGTCATTTTCG
3896095 --TTGCGATAGTCATTTTCG
1 CATTGCGATAGTCATTTTCG
* *
3896113 CGTTGCGATACTCATTTTCG
1 CATTGCGATAGTCATTTTCG
*
3896133 CGTTGCGAT
1 CATTGCGAT
3896142 TTTAAGTTCC
Statistics
Matches: 95, Mismatches: 7, Indels: 28
0.73 0.05 0.22
Matches are distributed among these distances:
14 13 0.14
16 12 0.13
17 6 0.06
18 5 0.05
19 6 0.06
20 53 0.56
ACGTcount: A:0.15, C:0.20, G:0.21, T:0.44
Consensus pattern (20 bp):
CATTGCGATAGTCATTTTCG
Found at i:3896108 original size:33 final size:34
Alignment explanation
Indices: 3896028--3896121 Score: 118
Period size: 33 Copynumber: 2.8 Consensus size: 34
3896018 CATTTTCGCA
* * *
3896028 TTGCGATAGTCATTTTCGCGTTGCGATTTTGTTG
1 TTGCGATAGTCATTTTCGCGTTGCGATTCTCTCG
* ** *
3896062 TTGTGATTTTCA-TTTCGCATTGCGATTCTCTCG
1 TTGCGATAGTCATTTTCGCGTTGCGATTCTCTCG
3896095 TTGCGATAGTCATTTTCGCGTTGCGAT
1 TTGCGATAGTCATTTTCGCGTTGCGAT
3896122 ACTCATTTTC
Statistics
Matches: 48, Mismatches: 11, Indels: 2
0.79 0.18 0.03
Matches are distributed among these distances:
33 26 0.54
34 22 0.46
ACGTcount: A:0.13, C:0.18, G:0.23, T:0.46
Consensus pattern (34 bp):
TTGCGATAGTCATTTTCGCGTTGCGATTCTCTCG
Found at i:3896666 original size:18 final size:19
Alignment explanation
Indices: 3896627--3896668 Score: 59
Period size: 21 Copynumber: 2.2 Consensus size: 19
3896617 CTCACCTATC
3896627 ATCGTTCAAGAGGCCTCCCCT
1 ATCGTTCAAGAGG-C-CCCCT
3896648 ATCGTTCAAGAGG-CCCCT
1 ATCGTTCAAGAGGCCCCCT
3896666 ATC
1 ATC
3896669 ATCCCTCAAG
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
18 8 0.38
21 13 0.62
ACGTcount: A:0.21, C:0.36, G:0.19, T:0.24
Consensus pattern (19 bp):
ATCGTTCAAGAGGCCCCCT
Found at i:3896716 original size:21 final size:19
Alignment explanation
Indices: 3896625--3896723 Score: 54
Period size: 21 Copynumber: 4.8 Consensus size: 19
3896615 GACTCACCTA
*
3896625 TCATCGTTCAAGAGGCCTCC
1 TCATCGTTCAAGAGGCC-CG
* *
3896645 CCTATCGTTCAAGAGGCCCCTA
1 TC-ATCGTTCAAGAGG-CCC-G
** *
3896667 TCATCCCTCAAGAGTCCCG
1 TCATCGTTCAAGAGGCCCG
*
3896686 TCCCACCGTTCAAGAGGCCACTG
1 T--CATCGTTCAAGAGGCC-C-G
*
3896709 TCATCGTTGAAGAGG
1 TCATCGTTCAAGAGG
3896724 TCCCTCCCAA
Statistics
Matches: 59, Mismatches: 13, Indels: 13
0.69 0.15 0.15
Matches are distributed among these distances:
19 1 0.02
20 4 0.07
21 48 0.81
22 4 0.07
23 2 0.03
ACGTcount: A:0.22, C:0.34, G:0.21, T:0.22
Consensus pattern (19 bp):
TCATCGTTCAAGAGGCCCG
Found at i:3896722 original size:42 final size:42
Alignment explanation
Indices: 3896650--3896732 Score: 105
Period size: 42 Copynumber: 2.0 Consensus size: 42
3896640 CCTCCCCTAT
*
3896650 CGTTCAAGAGGCCCCTATCATCCCTCAAGA-GTCCCGTCCCAC
1 CGTTCAAGAGGCCACTATCATCCCTCAAGAGGTCCC-TCCCAC
* ** *
3896692 CGTTCAAGAGGCCACTGTCATCGTTGAAGAGGTCCCTCCCA
1 CGTTCAAGAGGCCACTATCATCCCTCAAGAGGTCCCTCCCA
3896733 ACATTCTAGA
Statistics
Matches: 35, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
42 30 0.86
43 5 0.14
ACGTcount: A:0.22, C:0.37, G:0.20, T:0.20
Consensus pattern (42 bp):
CGTTCAAGAGGCCACTATCATCCCTCAAGAGGTCCCTCCCAC
Found at i:3898106 original size:14 final size:14
Alignment explanation
Indices: 3898087--3898122 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 14
3898077 ATTGTTTAAT
3898087 TGATTTGTAAAAGA
1 TGATTTGTAAAAGA
* *
3898101 TGATTTGTAAATGT
1 TGATTTGTAAAAGA
3898115 TGATTTGT
1 TGATTTGT
3898123 TTAATTGATG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.31, C:0.00, G:0.22, T:0.47
Consensus pattern (14 bp):
TGATTTGTAAAAGA
Found at i:3898283 original size:14 final size:14
Alignment explanation
Indices: 3898264--3898317 Score: 54
Period size: 14 Copynumber: 3.5 Consensus size: 14
3898254 GAGAATCACA
3898264 TTGCGATTCTCTCG
1 TTGCGATTCTCTCG
*
3898278 TTGCGATTTTCATTTCG
1 TTGCGA--TTC-TCTCG
3898295 CATTGCGATTCTCTCG
1 --TTGCGATTCTCTCG
3898311 TTGCGAT
1 TTGCGAT
3898318 AGTCATTTCC
Statistics
Matches: 33, Mismatches: 2, Indels: 10
0.73 0.04 0.22
Matches are distributed among these distances:
14 13 0.39
16 7 0.21
17 7 0.21
19 6 0.18
ACGTcount: A:0.11, C:0.24, G:0.20, T:0.44
Consensus pattern (14 bp):
TTGCGATTCTCTCG
Found at i:3898304 original size:33 final size:34
Alignment explanation
Indices: 3898262--3898337 Score: 118
Period size: 33 Copynumber: 2.3 Consensus size: 34
3898252 GAGAGAATCA
**
3898262 CATTGCGATTCTCTCGTTGCGATTTTCATTT-CG
1 CATTGCGATTCTCTCGTTGCGATAGTCATTTCCG
3898295 CATTGCGATTCTCTCGTTGCGATAGTCATTTCCG
1 CATTGCGATTCTCTCGTTGCGATAGTCATTTCCG
*
3898329 CGTTGCGAT
1 CATTGCGAT
3898338 AGTCAATTCC
Statistics
Matches: 39, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
33 29 0.74
34 10 0.26
ACGTcount: A:0.13, C:0.25, G:0.21, T:0.41
Consensus pattern (34 bp):
CATTGCGATTCTCTCGTTGCGATAGTCATTTCCG
Found at i:3898334 original size:20 final size:20
Alignment explanation
Indices: 3898309--3898402 Score: 136
Period size: 20 Copynumber: 4.7 Consensus size: 20
3898299 GCGATTCTCT
3898309 CGTTGCGATAGTCATTTCCG
1 CGTTGCGATAGTCATTTCCG
*
3898329 CGTTGCGATAGTCAATTCCG
1 CGTTGCGATAGTCATTTCCG
* *
3898349 CTTTGCGATAGTCATTTCTG
1 CGTTGCGATAGTCATTTCCG
*
3898369 TGTTGCGATAGTCATATT-CG
1 CGTTGCGATAGTCAT-TTCCG
3898389 CGTTGCGATAGTCA
1 CGTTGCGATAGTCA
3898403 AATGAATGTC
Statistics
Matches: 65, Mismatches: 8, Indels: 2
0.87 0.11 0.03
Matches are distributed among these distances:
20 63 0.97
21 2 0.03
ACGTcount: A:0.18, C:0.21, G:0.24, T:0.36
Consensus pattern (20 bp):
CGTTGCGATAGTCATTTCCG
Found at i:3900469 original size:24 final size:24
Alignment explanation
Indices: 3900402--3900461 Score: 84
Period size: 24 Copynumber: 2.5 Consensus size: 24
3900392 CTGGAAAATC
3900402 ATCAAAATTCGAGTATTGACCAAG
1 ATCAAAATTCGAGTATTGACCAAG
* * *
3900426 ATCAAAGTCCGGGTATTGACCAAG
1 ATCAAAATTCGAGTATTGACCAAG
*
3900450 ATCAAATTTCGA
1 ATCAAAATTCGA
3900462 ATACTGACTA
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 30 1.00
ACGTcount: A:0.38, C:0.18, G:0.18, T:0.25
Consensus pattern (24 bp):
ATCAAAATTCGAGTATTGACCAAG
Found at i:3901904 original size:19 final size:19
Alignment explanation
Indices: 3901880--3901940 Score: 79
Period size: 19 Copynumber: 3.2 Consensus size: 19
3901870 GCTGGAAACT
* *
3901880 GGTTTTGATCGGTTTAACC
1 GGTTTTGACCGGTTTGACC
3901899 GGTTTTGAACCGGTTTTGACC
1 GGTTTTG-ACCGG-TTTGACC
3901920 GG-TTTGACCGGTTTGACC
1 GGTTTTGACCGGTTTGACC
3901938 GGT
1 GGT
3901941 CACGACCCGT
Statistics
Matches: 37, Mismatches: 2, Indels: 6
0.82 0.04 0.13
Matches are distributed among these distances:
18 9 0.24
19 12 0.32
20 8 0.22
21 8 0.22
ACGTcount: A:0.13, C:0.18, G:0.31, T:0.38
Consensus pattern (19 bp):
GGTTTTGACCGGTTTGACC
Found at i:3901911 original size:11 final size:10
Alignment explanation
Indices: 3901880--3901940 Score: 74
Period size: 9 Copynumber: 6.3 Consensus size: 10
3901870 GCTGGAAACT
*
3901880 GGTTTTGATC
1 GGTTTTGACC
*
3901890 GG-TTTAACC
1 GGTTTTGACC
3901899 GGTTTTGAACC
1 GGTTTTG-ACC
3901910 GGTTTTGACC
1 GGTTTTGACC
3901920 GG-TTTGACC
1 GGTTTTGACC
3901929 GG-TTTGACC
1 GGTTTTGACC
3901938 GGT
1 GGT
3901941 CACGACCCGT
Statistics
Matches: 45, Mismatches: 3, Indels: 6
0.83 0.06 0.11
Matches are distributed among these distances:
9 25 0.56
10 10 0.22
11 10 0.22
ACGTcount: A:0.13, C:0.18, G:0.31, T:0.38
Consensus pattern (10 bp):
GGTTTTGACC
Found at i:3901916 original size:30 final size:28
Alignment explanation
Indices: 3901880--3901940 Score: 86
Period size: 30 Copynumber: 2.1 Consensus size: 28
3901870 GCTGGAAACT
*
3901880 GGTTTTGATCGGTTTAACCGGTTTTGAACC
1 GGTTTTGACCGGTTTAACCGG-TTTG-ACC
*
3901910 GGTTTTGACCGGTTTGACCGGTTTGACC
1 GGTTTTGACCGGTTTAACCGGTTTGACC
3901938 GGT
1 GGT
3901941 CACGACCCGT
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
28 6 0.21
29 4 0.14
30 19 0.66
ACGTcount: A:0.13, C:0.18, G:0.31, T:0.38
Consensus pattern (28 bp):
GGTTTTGACCGGTTTAACCGGTTTGACC
Found at i:3901965 original size:13 final size:13
Alignment explanation
Indices: 3901943--3901973 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
3901933 TGACCGGTCA
*
3901943 CGACCCGTTTACC
1 CGACCAGTTTACC
3901956 CGACCAGTTTACC
1 CGACCAGTTTACC
3901969 CGACC
1 CGACC
3901974 CGACCGTTGA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.19, C:0.45, G:0.16, T:0.19
Consensus pattern (13 bp):
CGACCAGTTTACC
Found at i:3901992 original size:17 final size:18
Alignment explanation
Indices: 3901953--3901992 Score: 55
Period size: 17 Copynumber: 2.3 Consensus size: 18
3901943 CGACCCGTTT
*
3901953 ACCCGACCAGTTTACCCG
1 ACCCGACCAGTTGACCCG
*
3901971 ACCCGACC-GTTGACCTG
1 ACCCGACCAGTTGACCCG
3901988 ACCCG
1 ACCCG
3901993 TTGACCGTTG
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
17 12 0.60
18 8 0.40
ACGTcount: A:0.20, C:0.45, G:0.20, T:0.15
Consensus pattern (18 bp):
ACCCGACCAGTTGACCCG
Found at i:3902000 original size:7 final size:7
Alignment explanation
Indices: 3901975--3902020 Score: 69
Period size: 7 Copynumber: 6.7 Consensus size: 7
3901965 TACCCGACCC
3901975 GACCGTT
1 GACCGTT
3901982 GACC--T
1 GACCGTT
3901987 GACCCGTT
1 GA-CCGTT
3901995 GACCGTT
1 GACCGTT
3902002 GACCGTT
1 GACCGTT
3902009 GACCGTT
1 GACCGTT
3902016 GACCG
1 GACCG
3902021 GTGCTATTCT
Statistics
Matches: 36, Mismatches: 0, Indels: 6
0.86 0.00 0.14
Matches are distributed among these distances:
5 3 0.08
6 2 0.06
7 28 0.78
8 3 0.08
ACGTcount: A:0.15, C:0.33, G:0.28, T:0.24
Consensus pattern (7 bp):
GACCGTT
Found at i:3902081 original size:29 final size:29
Alignment explanation
Indices: 3902020--3902086 Score: 82
Period size: 29 Copynumber: 2.3 Consensus size: 29
3902010 ACCGTTGACC
* ** *
3902020 GGTGCTATTCTGGGAATTAATTTAGTTTT
1 GGTGCTATTCTGGGAATTAATTGAGAATG
3902049 GGTGCTATTCTGGGAATTAATTCGA-AATG
1 GGTGCTATTCTGGGAATTAATT-GAGAATG
3902078 GGTGCTATT
1 GGTGCTATT
3902087 TTAGTAATTT
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
29 32 0.97
30 1 0.03
ACGTcount: A:0.22, C:0.09, G:0.27, T:0.42
Consensus pattern (29 bp):
GGTGCTATTCTGGGAATTAATTGAGAATG
Found at i:3902145 original size:28 final size:29
Alignment explanation
Indices: 3902048--3902144 Score: 90
Period size: 29 Copynumber: 3.4 Consensus size: 29
3902038 AATTTAGTTT
*
3902048 TGGTGCTATTCTGGGAATTAATTCG-AAA
1 TGGTGCTATTTTGGGAATTAATTCGAAAA
* * *
3902076 TGGGTGCTATTTTAGTAATT-TTTCGAAAA
1 T-GGTGCTATTTTGGGAATTAATTCGAAAA
*** **
3902105 AAATAATATTTTGGGAATTAATTCGAAAA
1 TGGTGCTATTTTGGGAATTAATTCGAAAA
3902134 TGGTGCTATTT
1 TGGTGCTATTT
3902145 GTGTAAAATG
Statistics
Matches: 49, Mismatches: 17, Indels: 5
0.69 0.24 0.07
Matches are distributed among these distances:
28 17 0.35
29 32 0.65
ACGTcount: A:0.32, C:0.07, G:0.21, T:0.40
Consensus pattern (29 bp):
TGGTGCTATTTTGGGAATTAATTCGAAAA
Found at i:3909238 original size:10 final size:10
Alignment explanation
Indices: 3909196--3909247 Score: 72
Period size: 9 Copynumber: 5.3 Consensus size: 10
3909186 GCTGGAAACT
3909196 GGTTTTGACC
1 GGTTTTGACC
*
3909206 GG-TTTAACC
1 GGTTTTGACC
3909215 GGTTTTGAACC
1 GGTTTTG-ACC
3909226 GGTTTTGACC
1 GGTTTTGACC
3909236 GG-TTTGACC
1 GGTTTTGACC
3909245 GGT
1 GGT
3909248 CACGACCCGT
Statistics
Matches: 37, Mismatches: 2, Indels: 6
0.82 0.04 0.13
Matches are distributed among these distances:
9 17 0.46
10 10 0.27
11 10 0.27
ACGTcount: A:0.13, C:0.19, G:0.31, T:0.37
Consensus pattern (10 bp):
GGTTTTGACC
Found at i:3909277 original size:18 final size:17
Alignment explanation
Indices: 3909254--3909304 Score: 84
Period size: 18 Copynumber: 2.9 Consensus size: 17
3909244 CGGTCACGAC
3909254 CCGTTTACCCGACCCGA
1 CCGTTTACCCGACCCGA
3909271 CCAGTTTACCCGACCCGA
1 CC-GTTTACCCGACCCGA
*
3909289 CCGTTGACCCGACCCG
1 CCGTTTACCCGACCCG
3909305 TTGACCGTTG
Statistics
Matches: 32, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
17 15 0.47
18 17 0.53
ACGTcount: A:0.18, C:0.47, G:0.20, T:0.16
Consensus pattern (17 bp):
CCGTTTACCCGACCCGA
Found at i:3909299 original size:12 final size:13
Alignment explanation
Indices: 3909282--3909310 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
3909272 CAGTTTACCC
3909282 GACCCGA-CCGTT
1 GACCCGACCCGTT
3909294 GACCCGACCCGTT
1 GACCCGACCCGTT
3909307 GACC
1 GACC
3909311 GTTGACCGTT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 7 0.44
13 9 0.56
ACGTcount: A:0.17, C:0.45, G:0.24, T:0.14
Consensus pattern (13 bp):
GACCCGACCCGTT
Found at i:3909448 original size:29 final size:29
Alignment explanation
Indices: 3909325--3909449 Score: 92
Period size: 29 Copynumber: 4.3 Consensus size: 29
3909315 ACCGTTGATC
* ****
3909325 GGTGCTATTCTGGGAATTAATTCGGTTTT
1 GGTGCTATTTTGGGAATTAATTCGAAAAT
*
3909354 GGTGCTATTCTGGGAATTAATTCG-AAAT
1 GGTGCTATTTTGGGAATTAATTCGAAAAT
* * * * *
3909382 GGGTTCTATTTTAGTAATT-TTTCGAAAAA
1 -GGTGCTATTTTGGGAATTAATTCGAAAAT
** **
3909411 AATAATATTTTGGGAATTAATTCGAAAAT
1 GGTGCTATTTTGGGAATTAATTCGAAAAT
3909440 GGTGCTATTT
1 GGTGCTATTT
3909450 GTGTAAAATG
Statistics
Matches: 72, Mismatches: 21, Indels: 6
0.73 0.21 0.06
Matches are distributed among these distances:
28 17 0.24
29 55 0.76
ACGTcount: A:0.29, C:0.08, G:0.22, T:0.42
Consensus pattern (29 bp):
GGTGCTATTTTGGGAATTAATTCGAAAAT
Found at i:3911362 original size:20 final size:20
Alignment explanation
Indices: 3911339--3911427 Score: 142
Period size: 20 Copynumber: 4.5 Consensus size: 20
3911329 CAGAATCTCG
**
3911339 TTGCGATTTACGTATTTACA
1 TTGCGATTTACGTATTCGCA
*
3911359 TTGCGATTTACGTATTCGTA
1 TTGCGATTTACGTATTCGCA
*
3911379 TTGCGATTTACGTAATCGCA
1 TTGCGATTTACGTATTCGCA
3911399 TTGCGATTTACGTATTCGCA
1 TTGCGATTTACGTATTCGCA
3911419 TTGCGATTT
1 TTGCGATTT
3911428 TCCAAATTCG
Statistics
Matches: 63, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 63 1.00
ACGTcount: A:0.21, C:0.17, G:0.19, T:0.43
Consensus pattern (20 bp):
TTGCGATTTACGTATTCGCA
Found at i:3911543 original size:21 final size:21
Alignment explanation
Indices: 3911412--3911532 Score: 233
Period size: 21 Copynumber: 5.8 Consensus size: 21
3911402 CGATTTACGT
*
3911412 ATTCGCATTGCGATTTTCCAA
1 ATTCGCGTTGCGATTTTCCAA
3911433 ATTCGCGTTGCGATTTTCCAA
1 ATTCGCGTTGCGATTTTCCAA
3911454 ATTCGCGTTGCGATTTTCCAA
1 ATTCGCGTTGCGATTTTCCAA
3911475 ATTCGCGTTGCGATTTTCCAA
1 ATTCGCGTTGCGATTTTCCAA
3911496 ATTCGCGTTGCGATTTTCCAA
1 ATTCGCGTTGCGATTTTCCAA
3911517 ATTCGCGTTGCGATTT
1 ATTCGCGTTGCGATTT
3911533 AGGAAAATCG
Statistics
Matches: 99, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
21 99 1.00
ACGTcount: A:0.19, C:0.23, G:0.19, T:0.39
Consensus pattern (21 bp):
ATTCGCGTTGCGATTTTCCAA
Found at i:3912768 original size:16 final size:16
Alignment explanation
Indices: 3912725--3912805 Score: 77
Period size: 16 Copynumber: 5.4 Consensus size: 16
3912715 AATAAATAAA
3912725 AAAATATATTAAAT-TT
1 AAAA-ATATTAAATATT
3912741 --AAAT-TTAAATA-T
1 AAAAATATTAAATATT
3912753 AAAAATATTCAAATATT
1 AAAAATATT-AAATATT
* *
3912770 TAAAATATTAAGTATT
1 AAAAATATTAAATATT
3912786 AAAAA-ATTAAA-ATT
1 AAAAATATTAAATATT
3912800 AAAAAT
1 AAAAAT
3912806 TCAATTACTA
Statistics
Matches: 54, Mismatches: 4, Indels: 15
0.74 0.05 0.21
Matches are distributed among these distances:
12 7 0.13
13 2 0.04
14 14 0.26
15 7 0.13
16 15 0.28
17 9 0.17
ACGTcount: A:0.60, C:0.01, G:0.01, T:0.37
Consensus pattern (16 bp):
AAAAATATTAAATATT
Found at i:3912780 original size:8 final size:8
Alignment explanation
Indices: 3912747--3912828 Score: 57
Period size: 8 Copynumber: 10.8 Consensus size: 8
3912737 ATTTAAATTT
*
3912747 AAATATAA
1 AAATATTA
*
3912755 AAATATTC
1 AAATATTA
3912763 AAATATTTA
1 AAATA-TTA
3912772 AAATATT-
1 AAATATTA
*
3912779 AAGTATTA
1 AAATATTA
*
3912787 AAAAATT-
1 AAATATTA
3912794 AAA-ATTA
1 AAATATTA
*
3912801 AAA-ATTC
1 AAATATTA
* *
3912808 AATTACTA
1 AAATATTA
3912816 AAA-ATTA
1 AAATATTA
3912823 AAATAT
1 AAATAT
3912829 ATCTATTTAA
Statistics
Matches: 57, Mismatches: 12, Indels: 10
0.72 0.15 0.13
Matches are distributed among these distances:
6 3 0.05
7 23 0.40
8 24 0.42
9 7 0.12
ACGTcount: A:0.61, C:0.04, G:0.01, T:0.34
Consensus pattern (8 bp):
AAATATTA
Found at i:3913998 original size:17 final size:16
Alignment explanation
Indices: 3913972--3914006 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 16
3913962 AGTAATTTAA
3913972 TTTTTATTTTAAATAT
1 TTTTTATTTTAAATAT
*
3913988 TTTTATATTTTTAATAT
1 TTTT-TATTTTAAATAT
3914005 TT
1 TT
3914007 AAAATTTAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 4 0.24
17 13 0.76
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (16 bp):
TTTTTATTTTAAATAT
Found at i:3914043 original size:32 final size:32
Alignment explanation
Indices: 3913979--3914041 Score: 94
Period size: 31 Copynumber: 2.0 Consensus size: 32
3913969 TAATTTTTAT
*
3913979 TTTAAATATTTTTATATTTTTAATATTTAAAA
1 TTTAAATATTTTAATATTTTTAATATTTAAAA
3914011 TTTAAA-ATTTTCAATATTTTT-ATATTTAAAA
1 TTTAAATATTTT-AATATTTTTAATATTTAAAA
3914042 ATAAATTTAA
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
31 15 0.52
32 14 0.48
ACGTcount: A:0.41, C:0.02, G:0.00, T:0.57
Consensus pattern (32 bp):
TTTAAATATTTTAATATTTTTAATATTTAAAA
Found at i:3915727 original size:13 final size:14
Alignment explanation
Indices: 3915695--3915740 Score: 51
Period size: 14 Copynumber: 3.4 Consensus size: 14
3915685 TAAATAAAAA
3915695 TATAATTTAAATTC
1 TATAATTTAAATTC
**
3915709 TATAATTTTGATT-
1 TATAATTTAAATTC
3915722 TATAATTT-AATGTC
1 TATAATTTAAAT-TC
3915736 TATAA
1 TATAA
3915741 AAACATTTTA
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
12 2 0.07
13 9 0.33
14 16 0.59
ACGTcount: A:0.39, C:0.04, G:0.04, T:0.52
Consensus pattern (14 bp):
TATAATTTAAATTC
Found at i:3919890 original size:24 final size:24
Alignment explanation
Indices: 3919862--3919911 Score: 100
Period size: 24 Copynumber: 2.1 Consensus size: 24
3919852 AACTCTTATT
3919862 TTCTCGAGATCGAACTAACCATTC
1 TTCTCGAGATCGAACTAACCATTC
3919886 TTCTCGAGATCGAACTAACCATTC
1 TTCTCGAGATCGAACTAACCATTC
3919910 TT
1 TT
3919912 GTTACATTGC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.28, C:0.28, G:0.12, T:0.32
Consensus pattern (24 bp):
TTCTCGAGATCGAACTAACCATTC
Found at i:3920773 original size:13 final size:13
Alignment explanation
Indices: 3920726--3920762 Score: 65
Period size: 13 Copynumber: 2.8 Consensus size: 13
3920716 GTCACAACCC
3920726 GACCCGACCCGTT
1 GACCCGACCCGTT
*
3920739 TACCCGACCCGTT
1 GACCCGACCCGTT
3920752 GACCCGACCCG
1 GACCCGACCCG
3920763 ACCCGTTGAC
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
13 22 1.00
ACGTcount: A:0.16, C:0.49, G:0.22, T:0.14
Consensus pattern (13 bp):
GACCCGACCCGTT
Found at i:3923318 original size:23 final size:24
Alignment explanation
Indices: 3923271--3923361 Score: 121
Period size: 24 Copynumber: 3.8 Consensus size: 24
3923261 TCCGACTTGA
* * *
3923271 ATTCTGTTATGATACCTGACCTGG
1 ATTCTGATCTGATACTTGACCTGG
*
3923295 ATTCTGATCTGATA-TTGACATGG
1 ATTCTGATCTGATACTTGACCTGG
*
3923318 ATTCTGATCTGATACATGACCTGG
1 ATTCTGATCTGATACTTGACCTGG
*
3923342 ATTCTGATATGATACTTGAC
1 ATTCTGATCTGATACTTGAC
3923362 TTGAATTATG
Statistics
Matches: 58, Mismatches: 8, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
23 21 0.36
24 37 0.64
ACGTcount: A:0.25, C:0.18, G:0.20, T:0.37
Consensus pattern (24 bp):
ATTCTGATCTGATACTTGACCTGG
Found at i:3923331 original size:47 final size:48
Alignment explanation
Indices: 3923271--3923361 Score: 139
Period size: 47 Copynumber: 1.9 Consensus size: 48
3923261 TCCGACTTGA
* * *
3923271 ATTCTGTTATGATACCTGACCTGGATTCTGATCTGATA-TTGACATGG
1 ATTCTGATATGATACATGACCTGGATTCTGATATGATACTTGACATGG
*
3923318 ATTCTGATCTGATACATGACCTGGATTCTGATATGATACTTGAC
1 ATTCTGATATGATACATGACCTGGATTCTGATATGATACTTGAC
3923362 TTGAATTATG
Statistics
Matches: 39, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
47 34 0.87
48 5 0.13
ACGTcount: A:0.25, C:0.18, G:0.20, T:0.37
Consensus pattern (48 bp):
ATTCTGATATGATACATGACCTGGATTCTGATATGATACTTGACATGG
Found at i:3925501 original size:9 final size:9
Alignment explanation
Indices: 3925487--3925563 Score: 55
Period size: 9 Copynumber: 7.9 Consensus size: 9
3925477 AAGGGAAAAG
3925487 TGACCGGTT
1 TGACCGGTT
3925496 TGACCGGTTT
1 TGACCGG-TT
* *
3925506 TGGAACTGTTT
1 T-G-ACCGGTT
3925517 TGACCGGTT
1 TGACCGGTT
3925526 TGACCGGTTT
1 TGACCGG-TT
* *
3925536 TGGAACTGTTT
1 T-G-ACCGGTT
3925547 TGACCGGTT
1 TGACCGGTT
*
3925556 CGACCGGT
1 TGACCGGT
3925564 CACAACCCGA
Statistics
Matches: 53, Mismatches: 9, Indels: 12
0.72 0.12 0.16
Matches are distributed among these distances:
9 31 0.58
10 8 0.15
11 8 0.15
12 6 0.11
ACGTcount: A:0.13, C:0.19, G:0.31, T:0.36
Consensus pattern (9 bp):
TGACCGGTT
Found at i:3925521 original size:30 final size:30
Alignment explanation
Indices: 3925487--3925563 Score: 145
Period size: 30 Copynumber: 2.6 Consensus size: 30
3925477 AAGGGAAAAG
3925487 TGACCGGTTTGACCGGTTTTGGAACTGTTT
1 TGACCGGTTTGACCGGTTTTGGAACTGTTT
3925517 TGACCGGTTTGACCGGTTTTGGAACTGTTT
1 TGACCGGTTTGACCGGTTTTGGAACTGTTT
*
3925547 TGACCGGTTCGACCGGT
1 TGACCGGTTTGACCGGT
3925564 CACAACCCGA
Statistics
Matches: 46, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
30 46 1.00
ACGTcount: A:0.13, C:0.19, G:0.31, T:0.36
Consensus pattern (30 bp):
TGACCGGTTTGACCGGTTTTGGAACTGTTT
Found at i:3925591 original size:13 final size:13
Alignment explanation
Indices: 3925572--3925614 Score: 77
Period size: 13 Copynumber: 3.3 Consensus size: 13
3925562 GTCACAACCC
3925572 GACCCGACCCGTT
1 GACCCGACCCGTT
*
3925585 TACCCGACCCGTT
1 GACCCGACCCGTT
3925598 GACCCGACCCGTT
1 GACCCGACCCGTT
3925611 GACC
1 GACC
3925615 GTTGACCGGA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
13 28 1.00
ACGTcount: A:0.16, C:0.47, G:0.21, T:0.16
Consensus pattern (13 bp):
GACCCGACCCGTT
Found at i:3928198 original size:23 final size:24
Alignment explanation
Indices: 3928151--3928241 Score: 121
Period size: 24 Copynumber: 3.8 Consensus size: 24
3928141 TCCGACTTGA
* * *
3928151 ATTCTGTTATGATACCTGACCTGG
1 ATTCTGATCTGATACTTGACCTGG
*
3928175 ATTCTGATCTGATA-TTGACATGG
1 ATTCTGATCTGATACTTGACCTGG
*
3928198 ATTCTGATCTGATACATGACCTGG
1 ATTCTGATCTGATACTTGACCTGG
*
3928222 ATTCTGATATGATACTTGAC
1 ATTCTGATCTGATACTTGAC
3928242 TTGAATTATG
Statistics
Matches: 58, Mismatches: 8, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
23 21 0.36
24 37 0.64
ACGTcount: A:0.25, C:0.18, G:0.20, T:0.37
Consensus pattern (24 bp):
ATTCTGATCTGATACTTGACCTGG
Found at i:3928211 original size:47 final size:48
Alignment explanation
Indices: 3928151--3928241 Score: 139
Period size: 47 Copynumber: 1.9 Consensus size: 48
3928141 TCCGACTTGA
* * *
3928151 ATTCTGTTATGATACCTGACCTGGATTCTGATCTGATA-TTGACATGG
1 ATTCTGATATGATACATGACCTGGATTCTGATATGATACTTGACATGG
*
3928198 ATTCTGATCTGATACATGACCTGGATTCTGATATGATACTTGAC
1 ATTCTGATATGATACATGACCTGGATTCTGATATGATACTTGAC
3928242 TTGAATTATG
Statistics
Matches: 39, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
47 34 0.87
48 5 0.13
ACGTcount: A:0.25, C:0.18, G:0.20, T:0.37
Consensus pattern (48 bp):
ATTCTGATATGATACATGACCTGGATTCTGATATGATACTTGACATGG
Found at i:3930006 original size:61 final size:60
Alignment explanation
Indices: 3929917--3930033 Score: 139
Period size: 61 Copynumber: 1.9 Consensus size: 60
3929907 ACCTCCTTAA
** *
3929917 ACTATGACTCTCATTCTAAATTATTCCTTAAGA-TTTTGAAAT-TTCCAAATTTCATCCCCTG
1 ACTATGAAACTCATTCTAAATTAGTCCTTAA-ACTTTT-AAATCTTCCAAA-TTCATCCCCTG
* * *
3929978 ACTATGAAACTCATTCTAATTTGGTCCTTAAACTTTTAGATCTTCCAAATTCATCC
1 ACTATGAAACTCATTCTAAATTAGTCCTTAAACTTTTAAATCTTCCAAATTCATCC
3930034 AAATATGTAA
Statistics
Matches: 48, Mismatches: 6, Indels: 5
0.81 0.10 0.08
Matches are distributed among these distances:
60 11 0.23
61 37 0.77
ACGTcount: A:0.30, C:0.23, G:0.07, T:0.40
Consensus pattern (60 bp):
ACTATGAAACTCATTCTAAATTAGTCCTTAAACTTTTAAATCTTCCAAATTCATCCCCTG
Found at i:3931645 original size:153 final size:155
Alignment explanation
Indices: 3931484--3931795 Score: 529
Period size: 154 Copynumber: 2.0 Consensus size: 155
3931474 ATCATGTCAT
3931484 TATTGAAAAACAAAAAAATTATCACATCGGTAGTTCTATTT-TTTTTGGTTAACGACGGGTGACC
1 TATTGAAAAACAAAAAAATTATCACATCGGTAGTTCTATTTATTTTTGGTTAACGACGGGTGACC
* *
3931548 AAAGCATAATCAAAACGTAATGTTAGGTATAATTAAAAAAAGATAGTTGAGTGACCAAAATAAAA
66 AAAACATAATCAAAACATAATGTTAGGTATAATTAAAAAAAGATAGTTGAGTGACCAAAATAAAA
*
3931613 TCAATGTGATAAATGATGAC-AATA
131 TCAAAGTGATAAATGATGACAAATA
* * *
3931637 TATTGAAAAAGAAAAAAATTATCACATCGGTAGTTTTATTTATTTTTTGTTAACGACGGGTGACC
1 TATTGAAAAACAAAAAAATTATCACATCGGTAGTTCTATTTATTTTTGGTTAACGACGGGTGACC
*
3931702 AAAACATAATCAAAACATAATGTTAGGTATAATTTAAAAAAGATAGTTGAGTGACCAAAATAAAA
66 AAAACATAATCAAAACATAATGTTAGGTATAATTAAAAAAAGATAGTTGAGTGACCAAAATAAAA
*
3931767 TCAAAGTGATAAATGGTGACTAAATA
131 TCAAAGTGATAAATGATGAC-AAATA
3931793 TAT
1 TAT
3931796 AGTTTACCCT
Statistics
Matches: 148, Mismatches: 8, Indels: 3
0.93 0.05 0.02
Matches are distributed among these distances:
153 39 0.26
154 102 0.69
156 7 0.05
ACGTcount: A:0.45, C:0.10, G:0.16, T:0.30
Consensus pattern (155 bp):
TATTGAAAAACAAAAAAATTATCACATCGGTAGTTCTATTTATTTTTGGTTAACGACGGGTGACC
AAAACATAATCAAAACATAATGTTAGGTATAATTAAAAAAAGATAGTTGAGTGACCAAAATAAAA
TCAAAGTGATAAATGATGACAAATA
Found at i:3938249 original size:42 final size:42
Alignment explanation
Indices: 3938186--3938300 Score: 185
Period size: 42 Copynumber: 2.7 Consensus size: 42
3938176 TTCTCCGAAA
* *
3938186 TCCCGTGTTTGTTTCATGTAATTCGTTTTCTGAAAAATGTTT
1 TCCCGTGTTTGTTTCACGTAATTCGTTTTCCGAAAAATGTTT
* *
3938228 TCTCGTGTTTGTTTCACGTAATTCGTTTTCCGGAAAATGTTT
1 TCCCGTGTTTGTTTCACGTAATTCGTTTTCCGAAAAATGTTT
*
3938270 TCCCGTGTTTGTTTCACGTAATTCATTTTCC
1 TCCCGTGTTTGTTTCACGTAATTCGTTTTCC
3938301 TAATAACAGG
Statistics
Matches: 67, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
42 67 1.00
ACGTcount: A:0.17, C:0.18, G:0.17, T:0.49
Consensus pattern (42 bp):
TCCCGTGTTTGTTTCACGTAATTCGTTTTCCGAAAAATGTTT
Found at i:3938500 original size:21 final size:23
Alignment explanation
Indices: 3938457--3938507 Score: 70
Period size: 21 Copynumber: 2.3 Consensus size: 23
3938447 CATTTTCATC
3938457 AAAATATTATTTATTAAAATATTT
1 AAAATATTATTTATT-AAATATTT
3938481 AAAATA-TATTTATT-AATATTT
1 AAAATATTATTTATTAAATATTT
*
3938502 ATAATA
1 AAAATA
3938508 ATATAATATT
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
21 12 0.46
23 8 0.31
24 6 0.23
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (23 bp):
AAAATATTATTTATTAAATATTT
Found at i:3938541 original size:26 final size:25
Alignment explanation
Indices: 3938457--3938541 Score: 75
Period size: 23 Copynumber: 3.2 Consensus size: 25
3938447 CATTTTCATC
* *
3938457 AAAATATTATTTATTAA-AATATTT
1 AAAATATTATTTATTAATATTATAT
3938481 AAAATA-TATTTATTAATATTTATAAT
1 AAAATATTATTTATTAATA-TTAT-AT
*
3938507 AATATAATATTATGTTTTTAATATTATAT
1 -A-A-AATATTAT-TTATTAATATTATAT
3938536 AAAATA
1 AAAATA
3938542 ATAAATTATA
Statistics
Matches: 50, Mismatches: 3, Indels: 14
0.75 0.04 0.21
Matches are distributed among these distances:
23 10 0.20
24 7 0.14
25 3 0.06
26 5 0.10
27 2 0.04
28 2 0.04
29 6 0.12
30 7 0.14
31 8 0.16
ACGTcount: A:0.49, C:0.00, G:0.01, T:0.49
Consensus pattern (25 bp):
AAAATATTATTTATTAATATTATAT
Found at i:3938623 original size:30 final size:28
Alignment explanation
Indices: 3938562--3938656 Score: 88
Period size: 29 Copynumber: 3.2 Consensus size: 28
3938552 TTATAATAAT
*
3938562 ATAATATA-AGATATTATATTTTTAT-TTTA
1 ATAATATATA-ATATT-T-TTTATATATTTA
3938591 ATAATATATAATAATTTTTTTATATATTTA
1 ATAATATATAAT-A-TTTTTTATATATTTA
*
3938621 ATAATGA-ATAATATTATTTATATATTTAA
1 ATAAT-ATATAATATTTTTTATATATTT-A
3938650 ATAATAT
1 ATAATAT
3938657 TTTAGTAAAG
Statistics
Matches: 57, Mismatches: 2, Indels: 14
0.78 0.03 0.19
Matches are distributed among these distances:
28 14 0.25
29 23 0.40
30 17 0.30
31 3 0.05
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.53
Consensus pattern (28 bp):
ATAATATATAATATTTTTTATATATTTA
Found at i:3938834 original size:20 final size:20
Alignment explanation
Indices: 3938798--3938837 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
3938788 TAATAAAATT
3938798 ATAAAAAATAATATTTAATA
1 ATAAAAAATAATATTTAATA
*
3938818 ATAAATAAATTAT-TTTAATA
1 ATAAA-AAATAATATTTAATA
3938838 TTTTAAAATA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 12 0.67
21 6 0.33
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (20 bp):
ATAAAAAATAATATTTAATA
Found at i:3939039 original size:14 final size:15
Alignment explanation
Indices: 3939019--3939103 Score: 73
Period size: 15 Copynumber: 5.7 Consensus size: 15
3939009 TCCAAAAATA
*
3939019 TAATTCATTTTTCAG
1 TAATTCATTTTACAG
** *
3939034 -AATTCAAATTCCAG
1 TAATTCATTTTACAG
3939048 TAATTCATTTTACAG
1 TAATTCATTTTACAG
** *
3939063 TAATTCAAATTCCAG
1 TAATTCATTTTACAG
** *
3939078 TAATTCAAATTGCAG
1 TAATTCATTTTACAG
3939093 TAATTCATTTT
1 TAATTCATTTT
3939104 CCGGAAAACC
Statistics
Matches: 57, Mismatches: 12, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
14 11 0.19
15 46 0.81
ACGTcount: A:0.35, C:0.15, G:0.07, T:0.42
Consensus pattern (15 bp):
TAATTCATTTTACAG
Found at i:3939054 original size:15 final size:15
Alignment explanation
Indices: 3939034--3939099 Score: 96
Period size: 15 Copynumber: 4.4 Consensus size: 15
3939024 CATTTTTCAG
3939034 AATTCAAATTCCAGT
1 AATTCAAATTCCAGT
** *
3939049 AATTCATTTTACAGT
1 AATTCAAATTCCAGT
3939064 AATTCAAATTCCAGT
1 AATTCAAATTCCAGT
*
3939079 AATTCAAATTGCAGT
1 AATTCAAATTCCAGT
3939094 AATTCA
1 AATTCA
3939100 TTTTCCGGAA
Statistics
Matches: 44, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
15 44 1.00
ACGTcount: A:0.39, C:0.17, G:0.08, T:0.36
Consensus pattern (15 bp):
AATTCAAATTCCAGT
Found at i:3939070 original size:30 final size:30
Alignment explanation
Indices: 3939019--3939099 Score: 119
Period size: 30 Copynumber: 2.7 Consensus size: 30
3939009 TCCAAAAATA
*
3939019 TAATTCATTTTTCAG-AATTCAAATTCCAG
1 TAATTCATTTTACAGTAATTCAAATTCCAG
3939048 TAATTCATTTTACAGTAATTCAAATTCCAG
1 TAATTCATTTTACAGTAATTCAAATTCCAG
** *
3939078 TAATTCAAATTGCAGTAATTCA
1 TAATTCATTTTACAGTAATTCA
3939100 TTTTCCGGAA
Statistics
Matches: 47, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
29 14 0.30
30 33 0.70
ACGTcount: A:0.37, C:0.16, G:0.07, T:0.40
Consensus pattern (30 bp):
TAATTCATTTTACAGTAATTCAAATTCCAG
Found at i:3939873 original size:20 final size:20
Alignment explanation
Indices: 3939850--3939898 Score: 98
Period size: 20 Copynumber: 2.5 Consensus size: 20
3939840 TGTTCTTACA
3939850 GTATCGATATTGCATGAACT
1 GTATCGATATTGCATGAACT
3939870 GTATCGATATTGCATGAACT
1 GTATCGATATTGCATGAACT
3939890 GTATCGATA
1 GTATCGATA
3939899 CTGTTCACGT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.31, C:0.14, G:0.20, T:0.35
Consensus pattern (20 bp):
GTATCGATATTGCATGAACT
Found at i:3951175 original size:29 final size:29
Alignment explanation
Indices: 3951133--3951211 Score: 72
Period size: 29 Copynumber: 2.7 Consensus size: 29
3951123 ACAATACCTG
* *
3951133 ATTTTCTGAATATTTTTATCTGATATCTA
1 ATTTACTGTATATTTTTATCTGATATCTA
* * *
3951162 ATTTACTGTATATTTCTAATATGATCTCTA
1 ATTTACTGTATATTT-TTATCTGATATCTA
*
3951192 A-TTATTGTAT-TTTTGTATCT
1 ATTTACTGTATATTTT-TATCT
3951212 AATTTCTGAT
Statistics
Matches: 40, Mismatches: 8, Indels: 5
0.75 0.15 0.09
Matches are distributed among these distances:
27 1 0.03
28 6 0.15
29 21 0.52
30 12 0.30
ACGTcount: A:0.27, C:0.10, G:0.08, T:0.56
Consensus pattern (29 bp):
ATTTACTGTATATTTTTATCTGATATCTA
Found at i:3957712 original size:51 final size:53
Alignment explanation
Indices: 3957630--3957729 Score: 141
Period size: 51 Copynumber: 1.9 Consensus size: 53
3957620 GAAGGAGGCT
* * * *
3957630 TTGAAGTTGAAGGTTGCAAGGGGAATGTTAGTGTTGATG-TGCAGTTGAATTG
1 TTGAAGATGAAGGTTGAAAGGGGAATATTAGTGTTAATGATGCAGTTGAATTG
3957682 TTGAAGATGAAGG-TGAAAGGGGAATATTAGTGTTAATGAATGCAGTTG
1 TTGAAGATGAAGGTTGAAAGGGGAATATTAGTGTTAATG-ATGCAGTTG
3957730 CGTGCTGTGC
Statistics
Matches: 42, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
51 22 0.52
52 12 0.29
53 8 0.19
ACGTcount: A:0.30, C:0.03, G:0.35, T:0.32
Consensus pattern (53 bp):
TTGAAGATGAAGGTTGAAAGGGGAATATTAGTGTTAATGATGCAGTTGAATTG
Found at i:3958295 original size:2 final size:2
Alignment explanation
Indices: 3958243--3958276 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
3958233 ATCAACTTGA
3958243 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
3958277 GTATGTATGC
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:3964716 original size:30 final size:30
Alignment explanation
Indices: 3964648--3964716 Score: 86
Period size: 30 Copynumber: 2.3 Consensus size: 30
3964638 ATACATAAAG
3964648 TATTTTTTTATCAAAATAAGTACCTAAAAT
1 TATTTTTTTATCAAAATAAGTACCTAAAAT
* * * *
3964678 TATATTTTTAGTCAAAATAGGTATCTGAAA-
1 TATTTTTTTA-TCAAAATAAGTACCTAAAAT
3964708 TATTTTTTT
1 TATTTTTTT
3964717 CATCGAAGCA
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
30 17 0.52
31 16 0.48
ACGTcount: A:0.38, C:0.07, G:0.07, T:0.48
Consensus pattern (30 bp):
TATTTTTTTATCAAAATAAGTACCTAAAAT
Found at i:3964762 original size:30 final size:29
Alignment explanation
Indices: 3964728--3964825 Score: 110
Period size: 30 Copynumber: 3.3 Consensus size: 29
3964718 ATCGAAGCAC
3964728 CTAAAGTATTTTTTGGGTCAAAATAAGAAT
1 CTAAAGTATTTTTT-GGTCAAAATAAGAAT
* * * *
3964758 CTAAAGTTATCTTTTAGTCAAAATAGGTAT
1 CTAAAG-TATTTTTTGGTCAAAATAAGAAT
*
3964788 CTAAAGT-GTTTTTGGTCAAAAT-AGATAT
1 CTAAAGTATTTTTTGGTCAAAATAAGA-AT
3964816 CTAAAGTATT
1 CTAAAGTATT
3964826 CAATTTTTCG
Statistics
Matches: 55, Mismatches: 10, Indels: 7
0.76 0.14 0.10
Matches are distributed among these distances:
27 1 0.02
28 21 0.38
29 2 0.04
30 24 0.44
31 7 0.13
ACGTcount: A:0.38, C:0.08, G:0.15, T:0.39
Consensus pattern (29 bp):
CTAAAGTATTTTTTGGTCAAAATAAGAAT
Found at i:3964809 original size:28 final size:28
Alignment explanation
Indices: 3964728--3964825 Score: 115
Period size: 28 Copynumber: 3.4 Consensus size: 28
3964718 ATCGAAGCAC
* *
3964728 CTAAAGTATTTTTTGGGTCAAAATAAGAAT
1 CTAAAGTA-TTTTT-GGTCAAAATAGGTAT
*
3964758 CTAAAGTTATCTTTTAGTCAAAATAGGTAT
1 CTAAAG-TAT-TTTTGGTCAAAATAGGTAT
* *
3964788 CTAAAGTGTTTTTGGTCAAAATAGATAT
1 CTAAAGTATTTTTGGTCAAAATAGGTAT
3964816 CTAAAGTATT
1 CTAAAGTATT
3964826 CAATTTTTCG
Statistics
Matches: 59, Mismatches: 7, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
28 26 0.44
29 2 0.03
30 25 0.42
31 6 0.10
ACGTcount: A:0.38, C:0.08, G:0.15, T:0.39
Consensus pattern (28 bp):
CTAAAGTATTTTTGGTCAAAATAGGTAT
Found at i:3965425 original size:26 final size:27
Alignment explanation
Indices: 3965362--3965425 Score: 87
Period size: 26 Copynumber: 2.4 Consensus size: 27
3965352 GTGTTAGATA
*
3965362 AAAAGGTAAGAAATAAATAAATTAAAT
1 AAAAGATAAGAAATAAATAAATTAAAT
*
3965389 TAAA-ATGAAGAAA-AAATAAATTAAAT
1 AAAAGAT-AAGAAATAAATAAATTAAAT
3965415 AAAAGATAAGA
1 AAAAGATAAGA
3965426 TAAAGAAAGC
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
26 21 0.66
27 11 0.34
ACGTcount: A:0.69, C:0.00, G:0.11, T:0.20
Consensus pattern (27 bp):
AAAAGATAAGAAATAAATAAATTAAAT
Found at i:3965462 original size:4 final size:4
Alignment explanation
Indices: 3965449--3965614 Score: 53
Period size: 4 Copynumber: 41.0 Consensus size: 4
3965439 GATAAAATAG
* * * *
3965449 TAAA TAAAA TAAA TATA TATA TATA -AAA TATAA -AAA -AAA TAAA AAAA
1 TAAA T-AAA TAAA TAAA TAAA TAAA TAAA TA-AA TAAA TAAA TAAA TAAA
* * * *
3965496 TATA TAAA TATA TAAA TAAAA CAAA TAAAA CAAA TAAA TAAA -ATAA TAAA
1 TAAA TAAA TAAA TAAA T-AAA TAAA T-AAA TAAA TAAA TAAA TA-AA TAAA
*
3965546 -AAGA GT-AA -AAA TAATA TATA TATAA TAAA TAAA -AACA TAAA -AAA
1 TAA-A -TAAA TAAA TAA-A TAAA TA-AA TAAA TAAA TAA-A TAAA TAAA
* * * *
3965590 TAGTA TATA TATA TAAA TTAA TAAA
1 TA-AA TAAA TAAA TAAA TAAA TAAA
3965615 ACAGATAATA
Statistics
Matches: 125, Mismatches: 18, Indels: 38
0.69 0.10 0.21
Matches are distributed among these distances:
3 17 0.14
4 83 0.66
5 25 0.20
ACGTcount: A:0.70, C:0.02, G:0.02, T:0.27
Consensus pattern (4 bp):
TAAA
Found at i:3965503 original size:42 final size:42
Alignment explanation
Indices: 3965457--3965675 Score: 130
Period size: 42 Copynumber: 5.1 Consensus size: 42
3965447 AGTAAATAAA
3965457 ATAAATATATATATATAAAATATAAAAAAAATAAAAAAATAT
1 ATAAATATATATATATAAAATATAAAAAAAATAAAAAAATAT
* * *
3965499 ATAAATATATAAATA-AAACAAATAAAACAAATAAATAAAATA-
1 ATAAATATATATATATAAA-ATATAAAAAAAATAAA-AAAATAT
* * * * * * *
3965541 ATAAAAAGAGTAAAAATAATATATATATAATAAATAAAAACATA-
1 ATAAATATA-TATATATAA-A-ATATAAAAAAAATAAAAAAATAT
*
3965585 AAAAATAGTATATATATATAAAT-TAATAAAACAGATAATAAAAA-AT
1 ATAAATA-TATATATATA-AAATATAA-AAAA-A-ATAA-AAAAATAT
* ** * *
3965631 A-ACATATATATATATGTAATCT--AAAAAATAAAAATATAT
1 ATAAATATATATATATAAAATATAAAAAAAATAAAAAAATAT
3965670 ACTAAA
1 A-TAAA
3965676 GTAAAAAAGA
Statistics
Matches: 137, Mismatches: 24, Indels: 33
0.71 0.12 0.17
Matches are distributed among these distances:
38 4 0.03
39 7 0.05
40 1 0.01
41 9 0.07
42 37 0.27
43 19 0.14
44 30 0.22
45 25 0.18
46 5 0.04
ACGTcount: A:0.68, C:0.03, G:0.02, T:0.27
Consensus pattern (42 bp):
ATAAATATATATATATAAAATATAAAAAAAATAAAAAAATAT
Found at i:3965541 original size:9 final size:9
Alignment explanation
Indices: 3965449--3965537 Score: 64
Period size: 9 Copynumber: 10.4 Consensus size: 9
3965439 GATAAAATAG
3965449 TAAATAAAA
1 TAAATAAAA
*
3965458 TAAATATATA
1 TAAATA-AAA
*
3965468 TATATAAAA
1 TAAATAAAA
3965477 T--ATAAAA
1 TAAATAAAA
*
3965484 AAAATAAAA
1 TAAATAAAA
*
3965493 -AAAT-ATA
1 TAAATAAAA
*
3965500 TAAAT-ATA
1 TAAATAAAA
3965508 TAAATAAAA
1 TAAATAAAA
*
3965517 CAAATAAAA
1 TAAATAAAA
*
3965526 CAAAT-AAA
1 TAAATAAAA
3965534 TAAA
1 TAAA
3965538 ATAATAAAAA
Statistics
Matches: 67, Mismatches: 8, Indels: 11
0.78 0.09 0.13
Matches are distributed among these distances:
7 8 0.12
8 22 0.33
9 30 0.45
10 7 0.10
ACGTcount: A:0.73, C:0.02, G:0.00, T:0.25
Consensus pattern (9 bp):
TAAATAAAA
Found at i:3965547 original size:9 final size:9
Alignment explanation
Indices: 3965471--3965561 Score: 59
Period size: 9 Copynumber: 10.3 Consensus size: 9
3965461 ATATATATAT
3965471 ATAAAATATA
1 ATAAAA-ATA
*
3965481 AAAAAAATA
1 ATAAAAATA
3965490 A-AAAAAT-
1 ATAAAAATA
*
3965497 ATATAAAT-
1 ATAAAAATA
*
3965505 ATATAAATA
1 ATAAAAATA
3965514 A-AACAAATA
1 ATAA-AAATA
3965523 A-AACAAATA
1 ATAA-AAATA
3965532 A-ATAAAATA
1 ATA-AAAATA
*
3965541 ATAAAAAGA
1 ATAAAAATA
*
3965550 GTAAAAATA
1 ATAAAAATA
3965559 ATA
1 ATA
3965562 TATATATAAT
Statistics
Matches: 69, Mismatches: 7, Indels: 11
0.79 0.08 0.13
Matches are distributed among these distances:
7 1 0.01
8 20 0.29
9 41 0.59
10 7 0.10
ACGTcount: A:0.75, C:0.02, G:0.02, T:0.21
Consensus pattern (9 bp):
ATAAAAATA
Found at i:3965563 original size:62 final size:62
Alignment explanation
Indices: 3965471--3965587 Score: 159
Period size: 63 Copynumber: 1.9 Consensus size: 62
3965461 ATATATATAT
3965471 ATAAAATATAAAAAAAATAAAAAAATATATAAATAT-ATAAATAAAACAAATAAAACAAATAA
1 ATAAAATATAAAAAAAATAAAAAAATATATAAATATAATAAATAAAA-AAATAAAACAAATAA
* * *
3965533 ATAAAATAATAAAAAGAGTAAAAATAATATAT--ATATAATAAATAAAAACATAAAA
1 ATAAAAT-ATAAAAAAAATAAAAA-AATATATAAATATAATAAATAAAAAAATAAAA
3965588 AATAGTATAT
Statistics
Matches: 49, Mismatches: 3, Indels: 6
0.84 0.05 0.10
Matches are distributed among these distances:
62 18 0.37
63 24 0.49
64 7 0.14
ACGTcount: A:0.74, C:0.03, G:0.02, T:0.22
Consensus pattern (62 bp):
ATAAAATATAAAAAAAATAAAAAAATATATAAATATAATAAATAAAAAAATAAAACAAATAA
Found at i:3966253 original size:37 final size:37
Alignment explanation
Indices: 3966197--3966308 Score: 179
Period size: 37 Copynumber: 3.0 Consensus size: 37
3966187 ATGCTTGTGG
*
3966197 ATCATATTTTTAGGAGTTTGAATCATAGTAAAACTCT
1 ATCATATTTTTAGGAGTTTGAATCCTAGTAAAACTCT
* *
3966234 ATTATATTTTTAGGGGTTTGAATCCTAGTAAAACTCT
1 ATCATATTTTTAGGAGTTTGAATCCTAGTAAAACTCT
* *
3966271 ATCATATTTTTAAGAGTTTGAATCCTACTAAAACTCT
1 ATCATATTTTTAGGAGTTTGAATCCTAGTAAAACTCT
3966308 A
1 A
3966309 ACGTTTGTTT
Statistics
Matches: 68, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
37 68 1.00
ACGTcount: A:0.34, C:0.12, G:0.12, T:0.41
Consensus pattern (37 bp):
ATCATATTTTTAGGAGTTTGAATCCTAGTAAAACTCT
Found at i:3967496 original size:23 final size:25
Alignment explanation
Indices: 3967467--3967519 Score: 65
Period size: 24 Copynumber: 2.2 Consensus size: 25
3967457 AAATAAAAAG
* *
3967467 TAAAAGTAT-GATATTGAAATA-AA
1 TAAAAGTATAGATACTAAAATAGAA
*
3967490 TAAAAGTTTAGATACTAAAATAGAA
1 TAAAAGTATAGATACTAAAATAGAA
3967515 TAAAA
1 TAAAA
3967520 CTGATAGTTT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
23 8 0.32
24 10 0.40
25 7 0.28
ACGTcount: A:0.58, C:0.02, G:0.11, T:0.28
Consensus pattern (25 bp):
TAAAAGTATAGATACTAAAATAGAA
Found at i:3969717 original size:27 final size:28
Alignment explanation
Indices: 3969687--3969763 Score: 77
Period size: 27 Copynumber: 2.7 Consensus size: 28
3969677 TGAGAATATA
3969687 ATATATGCTATGTGATATGAA-CATGTG
1 ATATATGCTATGTGATATGAATCATGTG
* * *
3969714 ATATAAGCTATGTGCCA-AGGAATTATGTG
1 ATATATGCTATGTG--ATATGAATCATGTG
3969743 ATTATATGTCTATGTGATATG
1 A-TATATG-CTATGTGATATG
3969764 TGACTATATA
Statistics
Matches: 39, Mismatches: 5, Indels: 9
0.74 0.09 0.17
Matches are distributed among these distances:
27 13 0.33
28 4 0.10
29 8 0.21
30 7 0.18
31 7 0.18
ACGTcount: A:0.32, C:0.08, G:0.22, T:0.38
Consensus pattern (28 bp):
ATATATGCTATGTGATATGAATCATGTG
Found at i:3970159 original size:42 final size:42
Alignment explanation
Indices: 3970069--3970210 Score: 142
Period size: 42 Copynumber: 3.3 Consensus size: 42
3970059 GGTTCTACGC
* * *
3970069 GGTCCTTCGGGACATATATGTGATCCTTTGGAACATATATGC
1 GGTCCTTCAGGACATATATGTGGTCCTTTGGAACATATATGT
** * *
3970111 ATTCCTTCAGGACATATATTTGGTCCTTTTGAACATATATGT
1 GGTCCTTCAGGACATATATGTGGTCCTTTGGAACATATATGT
* * * *
3970153 GGTCCTT-AGGGACAATTCTATGTGGTCCTTAGGGATATATATGT
1 GGTCCTTCA-GGAC-A-TATATGTGGTCCTTTGGAACATATATGT
*
3970197 GGTCCTTCGGGACA
1 GGTCCTTCAGGACA
3970211 ATTCTATGAG
Statistics
Matches: 80, Mismatches: 16, Indels: 7
0.78 0.16 0.07
Matches are distributed among these distances:
41 1 0.01
42 44 0.55
43 2 0.03
44 33 0.41
ACGTcount: A:0.23, C:0.18, G:0.23, T:0.36
Consensus pattern (42 bp):
GGTCCTTCAGGACATATATGTGGTCCTTTGGAACATATATGT
Done.