Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01009610.1 Hibiscus syriacus cultivar Beakdansim tig00116996_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: 3811333
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 13 of 18
Found at i:2636536 original size:12 final size:12
Alignment explanation
Indices: 2636519--2636568 Score: 55
Period size: 12 Copynumber: 4.1 Consensus size: 12
2636509 TAAATAAATT
2636519 TATAATATAAAA
1 TATAATATAAAA
*
2636531 TATAATATATAA
1 TATAATATAAAA
* *
2636543 TATAATTGTAAAG
1 TATAA-TATAAAA
*
2636556 TATAACATAAAA
1 TATAATATAAAA
2636568 T
1 T
2636569 TAAATAATAA
Statistics
Matches: 30, Mismatches: 7, Indels: 2
0.77 0.18 0.05
Matches are distributed among these distances:
12 21 0.70
13 9 0.30
ACGTcount: A:0.58, C:0.02, G:0.04, T:0.36
Consensus pattern (12 bp):
TATAATATAAAA
Found at i:2642453 original size:2 final size:2
Alignment explanation
Indices: 2642446--2642479 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
2642436 ATTAAAACAT
2642446 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
2642480 CACTGTGATT
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):
TA
Found at i:2646591 original size:23 final size:23
Alignment explanation
Indices: 2646545--2646611 Score: 82
Period size: 23 Copynumber: 2.8 Consensus size: 23
2646535 CATTTAAATA
*
2646545 ATAAACGAAACACGAACGAACGAAC
1 ATAAAC-AAACAC-AACAAACGAAC
2646570 ATAAACAAACACAACAAACGAAC
1 ATAAACAAACACAACAAACGAAC
*
2646593 ATAAACGAACA-ACACAAAC
1 ATAAACAAACACA-ACAAAC
2646612 ACAAAAAAAA
Statistics
Matches: 39, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
22 1 0.03
23 26 0.67
24 6 0.15
25 6 0.15
ACGTcount: A:0.61, C:0.25, G:0.09, T:0.04
Consensus pattern (23 bp):
ATAAACAAACACAACAAACGAAC
Found at i:2646612 original size:27 final size:24
Alignment explanation
Indices: 2646545--2646601 Score: 89
Period size: 23 Copynumber: 2.4 Consensus size: 24
2646535 CATTTAAATA
*
2646545 ATAAACGAAACACGAACGAACGAAC
1 ATAAACGAAACAC-AACAAACGAAC
2646570 ATAAAC-AAACACAACAAACGAAC
1 ATAAACGAAACACAACAAACGAAC
2646593 ATAAACGAA
1 ATAAACGAA
2646602 CAACACAAAC
Statistics
Matches: 30, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
23 16 0.53
24 8 0.27
25 6 0.20
ACGTcount: A:0.61, C:0.23, G:0.11, T:0.05
Consensus pattern (24 bp):
ATAAACGAAACACAACAAACGAAC
Found at i:2647395 original size:2 final size:2
Alignment explanation
Indices: 2647379--2647411 Score: 52
Period size: 2 Copynumber: 17.5 Consensus size: 2
2647369 TATTGCAAAC
2647379 TA TA T- TA TA TA -A TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
2647412 TCATTATGTT
Statistics
Matches: 29, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
1 2 0.07
2 27 0.93
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:2647572 original size:28 final size:28
Alignment explanation
Indices: 2647532--2647595 Score: 121
Period size: 28 Copynumber: 2.3 Consensus size: 28
2647522 CGTGAACCAA
2647532 CAGTAACCCGAACCAGGGCTAGGGTTTC
1 CAGTAACCCGAACCAGGGCTAGGGTTTC
2647560 CAGTAACCCGAACCAGGGCTAGGGTTTC
1 CAGTAACCCGAACCAGGGCTAGGGTTTC
2647588 CAG-AACCC
1 CAGTAACCC
2647596 TAGCAGATCC
Statistics
Matches: 36, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
27 5 0.14
28 31 0.86
ACGTcount: A:0.27, C:0.31, G:0.27, T:0.16
Consensus pattern (28 bp):
CAGTAACCCGAACCAGGGCTAGGGTTTC
Found at i:2648528 original size:18 final size:17
Alignment explanation
Indices: 2648495--2648557 Score: 65
Period size: 18 Copynumber: 3.6 Consensus size: 17
2648485 TCCCCTCGCA
*
2648495 TTTTGATTTATTTATTTCC
1 TTTTTATTT-TTTATTT-C
2648514 TTTTTATTTTTTA-TTC
1 TTTTTATTTTTTATTTC
* *
2648530 TTTTTATATATTATATTC
1 TTTTTATTTTTTAT-TTC
2648548 TTTTTATTTT
1 TTTTTATTTT
2648558 CATTAGTATT
Statistics
Matches: 37, Mismatches: 5, Indels: 5
0.79 0.11 0.11
Matches are distributed among these distances:
16 12 0.32
17 2 0.05
18 15 0.41
19 8 0.22
ACGTcount: A:0.17, C:0.06, G:0.02, T:0.75
Consensus pattern (17 bp):
TTTTTATTTTTTATTTC
Found at i:2648534 original size:16 final size:16
Alignment explanation
Indices: 2648501--2648557 Score: 64
Period size: 16 Copynumber: 3.5 Consensus size: 16
2648491 CGCATTTTGA
2648501 TTTA-TTTAT-TTCCTT
1 TTTATTTTATATT-CTT
*
2648516 TTTATTTTTTATTCTT
1 TTTATTTTATATTCTT
2648532 TTTATATATTATATTCTT
1 TTTAT-T-TTATATTCTT
2648550 TTTATTTT
1 TTTATTTT
2648558 CATTAGTATT
Statistics
Matches: 36, Mismatches: 2, Indels: 7
0.80 0.04 0.16
Matches are distributed among these distances:
15 4 0.11
16 14 0.39
17 4 0.11
18 14 0.39
ACGTcount: A:0.18, C:0.07, G:0.00, T:0.75
Consensus pattern (16 bp):
TTTATTTTATATTCTT
Found at i:2648647 original size:19 final size:20
Alignment explanation
Indices: 2648620--2648661 Score: 59
Period size: 19 Copynumber: 2.1 Consensus size: 20
2648610 TTACCATTTT
*
2648620 TTTTAATTTTTATTATTATA
1 TTTTAATTTTCATTATTATA
*
2648640 TTTT-ATTTTCATTATTTTA
1 TTTTAATTTTCATTATTATA
2648659 TTT
1 TTT
2648662 CTCCACTATT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
19 16 0.80
20 4 0.20
ACGTcount: A:0.24, C:0.02, G:0.00, T:0.74
Consensus pattern (20 bp):
TTTTAATTTTCATTATTATA
Found at i:2648976 original size:4 final size:4
Alignment explanation
Indices: 2648967--2648993 Score: 54
Period size: 4 Copynumber: 6.8 Consensus size: 4
2648957 AGATTGTTAT
2648967 TTTA TTTA TTTA TTTA TTTA TTTA TTT
1 TTTA TTTA TTTA TTTA TTTA TTTA TTT
2648994 TTCATTTTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 23 1.00
ACGTcount: A:0.22, C:0.00, G:0.00, T:0.78
Consensus pattern (4 bp):
TTTA
Found at i:2649020 original size:8 final size:8
Alignment explanation
Indices: 2648963--2649103 Score: 59
Period size: 8 Copynumber: 15.9 Consensus size: 8
2648953 ATATAGATTG
2648963 TTATTTTAT
1 TTATTTT-T
*
2648972 TTATTTAT
1 TTATTTTT
*
2648980 TTATTTAT
1 TTATTTTT
2648988 TTA-TTTT
1 TTATTTTT
*
2648995 TCATTTTT
1 TTATTTTT
** *
2649003 TCCTATTT
1 TTATTTTT
2649011 TTATTTTT
1 TTATTTTT
*
2649019 TTATTCCTTC
1 TTATT--TTT
2649029 TTATTTTCT
1 TTATTTT-T
2649038 TTATCCTTTT
1 TTAT--TTTT
* *
2649048 CTCTTTTCAT
1 TTATTTT--T
2649058 GTTATTTTCT
1 -TTATTTT-T
2649068 TTATTTCCTT
1 TTATTT--TT
2649078 TGTATTTTT
1 T-TATTTTT
2649087 TCTATTTTAT
1 T-TATTTT-T
2649097 TTATTTT
1 TTATTTT
2649104 CATCTTTTCT
Statistics
Matches: 103, Mismatches: 16, Indels: 26
0.71 0.11 0.18
Matches are distributed among these distances:
7 5 0.05
8 37 0.36
9 31 0.30
10 16 0.16
11 14 0.14
ACGTcount: A:0.14, C:0.11, G:0.01, T:0.73
Consensus pattern (8 bp):
TTATTTTT
Found at i:2649032 original size:18 final size:18
Alignment explanation
Indices: 2649011--2649045 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
2649001 TTTCCTATTT
2649011 TTATTTT-TTTATTCCTTC
1 TTATTTTCTTTA-TCCTTC
2649029 TTATTTTCTTTATCCTT
1 TTATTTTCTTTATCCTT
2649046 TTCTCTTTTC
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 12 0.75
19 4 0.25
ACGTcount: A:0.11, C:0.17, G:0.00, T:0.71
Consensus pattern (18 bp):
TTATTTTCTTTATCCTTC
Found at i:2653900 original size:2 final size:2
Alignment explanation
Indices: 2653893--2653917 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
2653883 TTGAGAAACA
2653893 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
2653918 GTTTTCATAA
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:2654400 original size:21 final size:21
Alignment explanation
Indices: 2654376--2654451 Score: 57
Period size: 23 Copynumber: 3.5 Consensus size: 21
2654366 CCAGGCGGGT
2654376 ATCGATTCCCCTGTGGGGGGA
1 ATCGATTCCCCTGTGGGGGGA
* *
2654397 ATCGGTTCCCCT-TCAAAGGGGGA
1 ATCGATTCCCCTGT---GGGGGGA
* *
2654420 ATCGGTTCCCTCATG-GGGGGGG
1 ATCGATTCCC-C-TGTGGGGGGA
2654442 ATCGATTCCC
1 ATCGATTCCC
2654452 TCTGCACCAA
Statistics
Matches: 44, Mismatches: 5, Indels: 11
0.73 0.08 0.18
Matches are distributed among these distances:
20 1 0.02
21 11 0.25
22 14 0.32
23 16 0.36
24 1 0.02
25 1 0.02
ACGTcount: A:0.16, C:0.26, G:0.34, T:0.24
Consensus pattern (21 bp):
ATCGATTCCCCTGTGGGGGGA
Found at i:2654439 original size:22 final size:21
Alignment explanation
Indices: 2654390--2654453 Score: 65
Period size: 22 Copynumber: 2.9 Consensus size: 21
2654380 ATTCCCCTGT
2654390 GGGGGGAATCGGTTCCCCTTCAA
1 GGGGGGAATCGGTT-CCC-TCAA
* *
2654413 AGGGGGAATCGGTTCCCTCATG
1 GGGGGGAATCGGTTCCCTCA-A
* *
2654435 GGGGGGGATCGATTCCCTC
1 GGGGGGAATCGGTTCCCTC
2654454 TGCACCAAAA
Statistics
Matches: 35, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
21 3 0.09
22 19 0.54
23 13 0.37
ACGTcount: A:0.16, C:0.25, G:0.38, T:0.22
Consensus pattern (21 bp):
GGGGGGAATCGGTTCCCTCAA
Found at i:2654561 original size:24 final size:24
Alignment explanation
Indices: 2654529--2654574 Score: 92
Period size: 24 Copynumber: 1.9 Consensus size: 24
2654519 ATAGGCAACT
2654529 TATTGAAAAATAATTATGTTCATA
1 TATTGAAAAATAATTATGTTCATA
2654553 TATTGAAAAATAATTATGTTCA
1 TATTGAAAAATAATTATGTTCA
2654575 AACAATTAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.46, C:0.04, G:0.09, T:0.41
Consensus pattern (24 bp):
TATTGAAAAATAATTATGTTCATA
Found at i:2662235 original size:95 final size:97
Alignment explanation
Indices: 2662053--2662315 Score: 313
Period size: 95 Copynumber: 2.7 Consensus size: 97
2662043 AGATTATAAT
* * * *
2662053 ATTATATATATATAATAAAGCTTGAGTTGTCCCTCTAAAGCAATTGGTTAAACGCCCCGGCTTTA
1 ATTATATCTATACAATAAAGCTTGAGTTGTCCCTCTAAAGCAATTGGTTAAACACCCCGTCTTTA
*
2662118 TGGATAATAGTCAACTAACCTGATAAA-GATG
66 TGGATAATAGTCAACTAACCTGATAAAGGATA
* *
2662149 ATTGTA-CTATACAATAAAGCTTGAGTTGTCCCTCTAAAGCAATTGGTTAAACTCCCCGTCTTTA
1 ATTATATCTATACAATAAAGCTTGAGTTGTCCCTCTAAAGCAATTGGTTAAACACCCCGTCTTTA
* * * *
2662213 TGGATAATATTGAGCTAGCCTGATAAAGGTGATA
66 TGGATAATAGTCAACTAACCTGATAAA-G-GATA
* * *
2662247 ATTATATTTATACAATAATA--TTGAGTT-TCCCCTTTAGAGCAATTGGTTAAACACCCC-TGCT
1 ATTATATCTATACAATAA-AGCTTGAGTTGT-CCCTCTAAAGCAATTGGTTAAACACCCCGT-CT
2662308 TTATGGAT
63 TTATGGAT
2662316 TCAGCTAGCC
Statistics
Matches: 145, Mismatches: 15, Indels: 12
0.84 0.09 0.07
Matches are distributed among these distances:
95 77 0.53
96 5 0.03
97 2 0.01
98 50 0.34
99 10 0.07
100 1 0.01
ACGTcount: A:0.33, C:0.17, G:0.16, T:0.34
Consensus pattern (97 bp):
ATTATATCTATACAATAAAGCTTGAGTTGTCCCTCTAAAGCAATTGGTTAAACACCCCGTCTTTA
TGGATAATAGTCAACTAACCTGATAAAGGATA
Found at i:2663625 original size:110 final size:110
Alignment explanation
Indices: 2663421--2664156 Score: 1107
Period size: 110 Copynumber: 6.7 Consensus size: 110
2663411 GTCGAGAAAA
* * *
2663421 ACTGACTATCAACAAACAACTTTTCAGTTTCATTCAGAGTCAATTTCAACTTCACAGTGAAGGAT
1 ACTGACTGTCAACAAACAACTTTTCAGTTTCATTCAGAGTCAATTTCAACTTCACAGCGAATGAT
* * * * *
2663486 ATTAGACTCGAGACAACACAAGTTGAACTTCACAGCGAAGGAGCG
66 ATTGGACTCGAGACAACACAAGCTCAACTTCACAGCGAAGGGGTG
* * *
2663531 ACTGACTGTCAAAAAACAACTTTTCAGTTTCATTCAGAGTCAATTTCAACTTCACAACGAATAAT
1 ACTGACTGTCAACAAACAACTTTTCAGTTTCATTCAGAGTCAATTTCAACTTCACAGCGAATGAT
* * * **
2663596 ATTGGACTCGAGACAATACATGCTCAACTTCACAGCGAATGGGCC
66 ATTGGACTCGAGACAACACAAGCTCAACTTCACAGCGAAGGGGTG
*
2663641 ACTGACTGTCAACAAACAACTTTTCAGTTTTATTCAGAGTCAATTTCAACTTCACAGCGAATGAT
1 ACTGACTGTCAACAAACAACTTTTCAGTTTCATTCAGAGTCAATTTCAACTTCACAGCGAATGAT
* *
2663706 ATTGGACACGAGACAACACAGGCTCAACTTCACAGCGAAGGGGTG
66 ATTGGACTCGAGACAACACAAGCTCAACTTCACAGCGAAGGGGTG
* * * * *
2663751 ATTGATTGTCAACAAATAACTTTTCAGTTTCATTCAAAGTCAATTTCAACTTCACAGCGAAGGAT
1 ACTGACTGTCAACAAACAACTTTTCAGTTTCATTCAGAGTCAATTTCAACTTCACAGCGAATGAT
*
2663816 ATTGGACTCGAGACAACACAAGTTCAACTTCACAGCGAAGGGGTG
66 ATTGGACTCGAGACAACACAAGCTCAACTTCACAGCGAAGGGGTG
* * * *
2663861 ACTGACTGTCAACAAAAAACTTCTCAGTTTCATTCGGAGTCAATTT-AACTTCATAGCGAATGAT
1 ACTGACTGTCAACAAACAACTTTTCAGTTTCATTCAGAGTCAATTTCAACTTCACAGCGAATGAT
* *
2663925 ATTGGACTCGAGAAAACACAAGCTCAACTTCACAGCGAATGGGTG
66 ATTGGACTCGAGACAACACAAGCTCAACTTCACAGCGAAGGGGTG
* * *
2663970 ACTGACTGTCAACAAAACAACTTTTCAATTTCATTCAGAGTCAATTTCAACTTCACAACGAACGA
1 ACTGACTGTCAAC-AAACAACTTTTCAGTTTCATTCAGAGTCAATTTCAACTTCACAGCGAATGA
2664035 TATTGGACTCGAGACAACACAAGCTCAACTTCACAGCGAAGGGGTG
65 TATTGGACTCGAGACAACACAAGCTCAACTTCACAGCGAAGGGGTG
* *
2664081 ACTGACTGTCAACAAATAACTTTTCAGTTTCATTCAGAGTCAATTTCAACTTCACAGTGAA-GTA
1 ACTGACTGTCAACAAACAACTTTTCAGTTTCATTCAGAGTCAATTTCAACTTCACAGCGAATG-A
*
2664145 TATTGAACTCGA
65 TATTGGACTCGA
2664157 AGCGAAACAA
Statistics
Matches: 565, Mismatches: 58, Indels: 6
0.90 0.09 0.01
Matches are distributed among these distances:
109 72 0.13
110 422 0.75
111 71 0.13
ACGTcount: A:0.35, C:0.22, G:0.17, T:0.26
Consensus pattern (110 bp):
ACTGACTGTCAACAAACAACTTTTCAGTTTCATTCAGAGTCAATTTCAACTTCACAGCGAATGAT
ATTGGACTCGAGACAACACAAGCTCAACTTCACAGCGAAGGGGTG
Found at i:2665965 original size:9 final size:9
Alignment explanation
Indices: 2665951--2666019 Score: 66
Period size: 9 Copynumber: 7.3 Consensus size: 9
2665941 GCTGCTGGAA
2665951 ACCGGTTTG
1 ACCGGTTTG
*
2665960 ACCGGTTTCA
1 ACCGGTTT-G
* *
2665970 ACTGGTTCG
1 ACCGGTTTG
2665979 AACCGGTTTG
1 -ACCGGTTTG
*
2665989 ACCGGTCTG
1 ACCGGTTTG
2665998 AACCGGTTTG
1 -ACCGGTTTG
*
2666008 ACCGGTCTG
1 ACCGGTTTG
2666017 ACC
1 ACC
2666020 TGACCCGACC
Statistics
Matches: 48, Mismatches: 9, Indels: 6
0.76 0.14 0.10
Matches are distributed among these distances:
9 27 0.56
10 21 0.44
ACGTcount: A:0.16, C:0.28, G:0.29, T:0.28
Consensus pattern (9 bp):
ACCGGTTTG
Found at i:2666002 original size:19 final size:19
Alignment explanation
Indices: 2665978--2666017 Score: 80
Period size: 19 Copynumber: 2.1 Consensus size: 19
2665968 CAACTGGTTC
2665978 GAACCGGTTTGACCGGTCT
1 GAACCGGTTTGACCGGTCT
2665997 GAACCGGTTTGACCGGTCT
1 GAACCGGTTTGACCGGTCT
2666016 GA
1 GA
2666018 CCTGACCCGA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.17, C:0.25, G:0.33, T:0.25
Consensus pattern (19 bp):
GAACCGGTTTGACCGGTCT
Found at i:2666005 original size:29 final size:29
Alignment explanation
Indices: 2665950--2666019 Score: 88
Period size: 29 Copynumber: 2.4 Consensus size: 29
2665940 GGCTGCTGGA
* *
2665950 AACCGGTTTGACCGGTTTCAACTGGTTCG
1 AACCGGTTTGACCGGTCTCAACCGGTTCG
* *
2665979 AACCGGTTTGACCGGTCTGAACCGGTTTG
1 AACCGGTTTGACCGGTCTCAACCGGTTCG
*
2666008 -ACCGGTCTGACC
1 AACCGGTTTGACC
2666020 TGACCCGACC
Statistics
Matches: 36, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
28 11 0.31
29 25 0.69
ACGTcount: A:0.17, C:0.27, G:0.29, T:0.27
Consensus pattern (29 bp):
AACCGGTTTGACCGGTCTCAACCGGTTCG
Found at i:2666041 original size:17 final size:17
Alignment explanation
Indices: 2666038--2666075 Score: 76
Period size: 17 Copynumber: 2.2 Consensus size: 17
2666028 CCGTTGACCC
2666038 GACCCGACCCGACCGTT
1 GACCCGACCCGACCGTT
2666055 GACCCGACCCGACCGTT
1 GACCCGACCCGACCGTT
2666072 GACC
1 GACC
2666076 GTTGACTTTC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.18, C:0.47, G:0.24, T:0.11
Consensus pattern (17 bp):
GACCCGACCCGACCGTT
Found at i:2666046 original size:22 final size:22
Alignment explanation
Indices: 2666016--2666068 Score: 97
Period size: 22 Copynumber: 2.4 Consensus size: 22
2666006 TGACCGGTCT
*
2666016 GACCTGACCCGACCGTTGACCC
1 GACCCGACCCGACCGTTGACCC
2666038 GACCCGACCCGACCGTTGACCC
1 GACCCGACCCGACCGTTGACCC
2666060 GACCCGACC
1 GACCCGACC
2666069 GTTGACCGTT
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
22 30 1.00
ACGTcount: A:0.19, C:0.49, G:0.23, T:0.09
Consensus pattern (22 bp):
GACCCGACCCGACCGTTGACCC
Found at i:2666075 original size:12 final size:12
Alignment explanation
Indices: 2666020--2666063 Score: 65
Period size: 12 Copynumber: 3.8 Consensus size: 12
2666010 CGGTCTGACC
2666020 TGACCCGACCGT
1 TGACCCGACCGT
2666032 TGACCCGACC--
1 TGACCCGACCGT
*
2666042 CGACCCGACCGT
1 TGACCCGACCGT
2666054 TGACCCGACC
1 TGACCCGACC
2666064 CGACCGTTGA
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
10 9 0.32
12 19 0.68
ACGTcount: A:0.18, C:0.48, G:0.23, T:0.11
Consensus pattern (12 bp):
TGACCCGACCGT
Found at i:2673263 original size:30 final size:30
Alignment explanation
Indices: 2673227--2673303 Score: 79
Period size: 30 Copynumber: 2.6 Consensus size: 30
2673217 GCTGCTGGAA
2673227 ATCGGTTTAACCGGTTTTC-AACCGGTTCTG
1 ATCGGTTTAACCGGTTTTCGAACCGGTT-TG
*
2673257 ATCGGTTTCAATCGG--TTCGAACCGGTTTG
1 ATCGGTTT-AACCGGTTTTCGAACCGGTTTG
* *
2673286 ACCGGTCTGAACCGGTTT
1 ATCGGT-TTAACCGGTTT
2673304 GACCGGTCTG
Statistics
Matches: 38, Mismatches: 4, Indels: 9
0.75 0.08 0.18
Matches are distributed among these distances:
29 15 0.39
30 17 0.45
31 6 0.16
ACGTcount: A:0.17, C:0.23, G:0.26, T:0.34
Consensus pattern (30 bp):
ATCGGTTTAACCGGTTTTCGAACCGGTTTG
Found at i:2673282 original size:20 final size:20
Alignment explanation
Indices: 2673226--2673284 Score: 59
Period size: 20 Copynumber: 3.0 Consensus size: 20
2673216 GGCTGCTGGA
*
2673226 AATCGGTT-TAACCGGTTTTC
1 AATCGGTTCGAACCGG-TTTC
* *
2673246 AACCGGTTCTG-ATCGGTTTC
1 AATCGGTTC-GAACCGGTTTC
2673266 AATCGGTTCGAACCGGTTT
1 AATCGGTTCGAACCGGTTT
2673285 GACCGGTCTG
Statistics
Matches: 31, Mismatches: 5, Indels: 6
0.74 0.12 0.14
Matches are distributed among these distances:
19 1 0.03
20 26 0.84
21 4 0.13
ACGTcount: A:0.19, C:0.22, G:0.24, T:0.36
Consensus pattern (20 bp):
AATCGGTTCGAACCGGTTTC
Found at i:2673297 original size:19 final size:19
Alignment explanation
Indices: 2673275--2673314 Score: 80
Period size: 19 Copynumber: 2.1 Consensus size: 19
2673265 CAATCGGTTC
2673275 GAACCGGTTTGACCGGTCT
1 GAACCGGTTTGACCGGTCT
2673294 GAACCGGTTTGACCGGTCT
1 GAACCGGTTTGACCGGTCT
2673313 GA
1 GA
2673315 CCCGACCCGA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.17, C:0.25, G:0.33, T:0.25
Consensus pattern (19 bp):
GAACCGGTTTGACCGGTCT
Found at i:2673315 original size:9 final size:9
Alignment explanation
Indices: 2673277--2673316 Score: 53
Period size: 9 Copynumber: 4.3 Consensus size: 9
2673267 ATCGGTTCGA
*
2673277 ACCGGTTTG
1 ACCGGTCTG
2673286 ACCGGTCTG
1 ACCGGTCTG
*
2673295 AACCGGTTTG
1 -ACCGGTCTG
2673305 ACCGGTCTG
1 ACCGGTCTG
2673314 ACC
1 ACC
2673317 CGACCCGACC
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
9 19 0.70
10 8 0.30
ACGTcount: A:0.15, C:0.30, G:0.30, T:0.25
Consensus pattern (9 bp):
ACCGGTCTG
Found at i:2673339 original size:22 final size:22
Alignment explanation
Indices: 2673313--2673355 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
2673303 TGACCGGTCT
2673313 GACCCGACCCGACCGTTGACCC
1 GACCCGACCCGACCGTTGACCC
2673335 GACCCGACCCGACCGTTGACC
1 GACCCGACCCGACCGTTGACC
2673356 GTTGACCATT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.19, C:0.49, G:0.23, T:0.09
Consensus pattern (22 bp):
GACCCGACCCGACCGTTGACCC
Found at i:2675987 original size:2 final size:2
Alignment explanation
Indices: 2675976--2676008 Score: 50
Period size: 2 Copynumber: 17.0 Consensus size: 2
2675966 TTTAGTATTA
*
2675976 AT AT -T AT AT AT AT AT AT AT AT AT AT AT AC AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
2676009 TTCTTTTTAT
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
1 1 0.04
2 27 0.96
ACGTcount: A:0.48, C:0.03, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:2676049 original size:18 final size:18
Alignment explanation
Indices: 2676026--2676104 Score: 54
Period size: 19 Copynumber: 4.2 Consensus size: 18
2676016 TATTTCTTTC
2676026 TTTTTACTATT-TTACTAT
1 TTTTTACTATTATTA-TAT
*
2676044 TTTTTATTATTATTATAT
1 TTTTTACTATTATTATAT
* *
2676062 TTTATT-TTCATTATTTTAT
1 TTT-TTACT-ATTATTATAT
**
2676081 TTCTCCACTATTATTAGTAT
1 TT-TTTACTATTATTA-TAT
2676101 TTTT
1 TTTT
2676105 CCTAATATTT
Statistics
Matches: 48, Mismatches: 7, Indels: 11
0.73 0.11 0.17
Matches are distributed among these distances:
18 18 0.38
19 23 0.48
20 7 0.15
ACGTcount: A:0.23, C:0.09, G:0.01, T:0.67
Consensus pattern (18 bp):
TTTTTACTATTATTATAT
Found at i:2680295 original size:23 final size:23
Alignment explanation
Indices: 2680248--2680296 Score: 80
Period size: 23 Copynumber: 2.1 Consensus size: 23
2680238 AATAACATAT
**
2680248 TAGGTAGCGCTTATATAATGTAA
1 TAGGTAGCGCTTATATAATAAAA
2680271 TAGGTAGCGCTTATATAATAAAA
1 TAGGTAGCGCTTATATAATAAAA
2680294 TAG
1 TAG
2680297 ACATTTAGAG
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.39, C:0.08, G:0.20, T:0.33
Consensus pattern (23 bp):
TAGGTAGCGCTTATATAATAAAA
Found at i:2680358 original size:87 final size:87
Alignment explanation
Indices: 2680212--2680460 Score: 423
Period size: 87 Copynumber: 2.9 Consensus size: 87
2680202 ATGTTATATT
2680212 ATTTAATC-AGAAATATTATCAAGTACAATAACATATTAGGTAGCGCTTATATAATGTAATAGGT
1 ATTTAA-CGAGAAATATTATCAAGTACAATAACATATTAGGTAGCGCTTATATAATGTAATAGGT
2680276 AGCGCTTATATAATAAAATAGAC
65 AGCGCTTATATAATAAAATAGAC
**
2680299 ATTTAGA-GAGAAATATTATCAAGTACAATAACATATTAGGTAGCATTTATATAATGTAATAGGT
1 ATTTA-ACGAGAAATATTATCAAGTACAATAACATATTAGGTAGCGCTTATATAATGTAATAGGT
*
2680363 AGCGTTTATATAATAAAATAGAC
65 AGCGCTTATATAATAAAATAGAC
2680386 ATTTAACTG-GAAATATTATCAAGTACAATAACATATTAGGTAGCGCTTATATAATGTAATAGGT
1 ATTTAAC-GAGAAATATTATCAAGTACAATAACATATTAGGTAGCGCTTATATAATGTAATAGGT
2680450 AGCGCTTATAT
65 AGCGCTTATAT
2680461 TGACATATTT
Statistics
Matches: 152, Mismatches: 6, Indels: 8
0.92 0.04 0.05
Matches are distributed among these distances:
86 1 0.01
87 149 0.98
88 2 0.01
ACGTcount: A:0.43, C:0.09, G:0.15, T:0.33
Consensus pattern (87 bp):
ATTTAACGAGAAATATTATCAAGTACAATAACATATTAGGTAGCGCTTATATAATGTAATAGGTA
GCGCTTATATAATAAAATAGAC
Found at i:2680382 original size:23 final size:23
Alignment explanation
Indices: 2680335--2680383 Score: 71
Period size: 23 Copynumber: 2.1 Consensus size: 23
2680325 AATAACATAT
**
2680335 TAGGTAGCATTTATATAATGTAA
1 TAGGTAGCATTTATATAATAAAA
*
2680358 TAGGTAGCGTTTATATAATAAAA
1 TAGGTAGCATTTATATAATAAAA
2680381 TAG
1 TAG
2680384 ACATTTAACT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.41, C:0.04, G:0.18, T:0.37
Consensus pattern (23 bp):
TAGGTAGCATTTATATAATAAAA
Found at i:2680972 original size:200 final size:195
Alignment explanation
Indices: 2680478--2680982 Score: 561
Period size: 199 Copynumber: 2.5 Consensus size: 195
2680468 TTTTCTAACT
* * * * *
2680478 AAACCGGTATATTTATACCGGTAATATTACAAATTTACCTATTACATTATAATTATCGGTTTCGA
1 AAACCGGTATATTTATACCGGTTACATT-TAAATTTACCTATTACATTATAATTATTGGTTTTG-
* * * *
2680543 TATTTTTTGGATCGATACAATTT--TAAATGTATCGACACTTTATGCATGCACCTCGTTAGGCTT
64 -ATGTTTTGGATCGATAC-TTTTAATAAATGTATCGAAACTTTATGCATGCACCTCGTTAGACTT
* * * * * *
2680606 CATTCTGGAAAAAAGTATCGACACAAACTTAAAAAGTGTCGATACAATATTTAGACCTATTTTCT
127 CATTATAGAAAAAAGTATCGACACAAACTTAAAAAGTGTCAAAACAATATCTAGACCTATTTCCT
2680671 CATA
192 CATA
* * * * * * *
2680675 AAATCGGTATATTTCTATCGGGTACATTTAAATTTACCTATCACATTGTAATT-TTCGTTTTCGA
1 AAACCGGTATATTTATACCGGTTACATTTAAATTTACCTATTACATTATAATTATTGGTTTT-GA
* *
2680739 TGTTTGTGGGATCGATACTTTTAATAAATGTATCGAAACTTTATGCGTGCACCTCGTTTGACATT
65 TGTTT-T-GGATCGATACTTTTAATAAATGTATCGAAACTTTATGCATGCACCTCGTTAGAC-TT
* ** **
2680804 CATTATAGACAAAAAGTATCGACACAAATTTAAATGGTGTCAAAACTTTATGCT-GACCTATTTC
127 CATTATAGA-AAAAAGTATCGACACAAACTTAAAAAGTGTCAAAACAATAT-CTAGACCTATTTC
*
2680868 CTTATA
190 CTCATA
*
2680874 AAACCGGTATATTTATACCAGTTACATTGTAAATTTACCTATTACATTATAATTATTGGTTTTGA
1 AAACCGGTATATTTATACCGGTTACATT-TAAATTTACCTATTACATTATAATTATTGGTTTTGA
*
2680939 TGTTATTGATATCGATACTTTTAATAAATGTATC-AACACTTTAT
65 TGTT-TTG-GATCGATACTTTTAATAAATGTATCGAA-ACTTTAT
2680983 ATTCTGGACA
Statistics
Matches: 256, Mismatches: 39, Indels: 23
0.81 0.12 0.07
Matches are distributed among these distances:
194 5 0.02
195 9 0.04
196 33 0.13
197 56 0.22
198 9 0.04
199 74 0.29
200 62 0.24
201 8 0.03
ACGTcount: A:0.33, C:0.15, G:0.13, T:0.39
Consensus pattern (195 bp):
AAACCGGTATATTTATACCGGTTACATTTAAATTTACCTATTACATTATAATTATTGGTTTTGAT
GTTTTGGATCGATACTTTTAATAAATGTATCGAAACTTTATGCATGCACCTCGTTAGACTTCATT
ATAGAAAAAAGTATCGACACAAACTTAAAAAGTGTCAAAACAATATCTAGACCTATTTCCTCATA
Found at i:2684555 original size:23 final size:23
Alignment explanation
Indices: 2684529--2684589 Score: 77
Period size: 23 Copynumber: 2.7 Consensus size: 23
2684519 CTCATATTAA
*
2684529 TGCACCGAAGTGCCACATAGAAT
1 TGCACCGTAGTGCCACATAGAAT
* * *
2684552 TGCACCGTAGTGTCGCGTAGAAT
1 TGCACCGTAGTGCCACATAGAAT
*
2684575 TTCACCGTAGTGCCA
1 TGCACCGTAGTGCCA
2684590 TATAATAATG
Statistics
Matches: 31, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
23 31 1.00
ACGTcount: A:0.26, C:0.26, G:0.25, T:0.23
Consensus pattern (23 bp):
TGCACCGTAGTGCCACATAGAAT
Found at i:2684773 original size:103 final size:103
Alignment explanation
Indices: 2684605--2684822 Score: 382
Period size: 103 Copynumber: 2.1 Consensus size: 103
2684595 TAATGTCCAT
* * *
2684605 AAGGACCATATATCATTCCTCAAGAATCATATACATATACTAGGGATCAAGTATGTGTCTTACCA
1 AAGGACCACATATCATTCCTCAAGAATAATATACATATACTAGGGATCAAGTATGTGTCTCACCA
*
2684670 GACTTCACACATGTTCCAAAGAATATATATATGTCCCG
66 GACTTCACACATGTTCCAAAGAATACATATATGTCCCG
*
2684708 AAGGACCACATATCATTCCTTAAGAATAATATACATATACTAGGGATCAAGTATGTGTCTCACCA
1 AAGGACCACATATCATTCCTCAAGAATAATATACATATACTAGGGATCAAGTATGTGTCTCACCA
*
2684773 GACTTCACACATGTTCCAAAGAATACATATATGTCTCG
66 GACTTCACACATGTTCCAAAGAATACATATATGTCCCG
2684811 AAGGACCACATA
1 AAGGACCACATA
2684823 GACCCTCGAC
Statistics
Matches: 109, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
103 109 1.00
ACGTcount: A:0.37, C:0.22, G:0.14, T:0.28
Consensus pattern (103 bp):
AAGGACCACATATCATTCCTCAAGAATAATATACATATACTAGGGATCAAGTATGTGTCTCACCA
GACTTCACACATGTTCCAAAGAATACATATATGTCCCG
Found at i:2686394 original size:21 final size:21
Alignment explanation
Indices: 2686369--2686414 Score: 56
Period size: 21 Copynumber: 2.2 Consensus size: 21
2686359 TTATGGTTCG
* *
2686369 CTTGAGGGGGTATCGGTTCCC
1 CTTGAAGGGGTACCGGTTCCC
* *
2686390 CTTGAATGGGTACCGTTTCCC
1 CTTGAAGGGGTACCGGTTCCC
2686411 CTTG
1 CTTG
2686415 CCCAGAAATC
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.11, C:0.26, G:0.30, T:0.33
Consensus pattern (21 bp):
CTTGAAGGGGTACCGGTTCCC
Found at i:2687257 original size:16 final size:16
Alignment explanation
Indices: 2687236--2687269 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
2687226 AACTCCTCAC
2687236 AACTGCAAGCATTTTA
1 AACTGCAAGCATTTTA
*
2687252 AACTGCATGCATTTTA
1 AACTGCAAGCATTTTA
2687268 AA
1 AA
2687270 TGGTAAATGC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.38, C:0.18, G:0.12, T:0.32
Consensus pattern (16 bp):
AACTGCAAGCATTTTA
Found at i:2687637 original size:200 final size:199
Alignment explanation
Indices: 2687292--2687662 Score: 555
Period size: 200 Copynumber: 1.9 Consensus size: 199
2687282 AACCGGTTAT
* * * * *
2687292 TTCTGGACAAACAGTATTGACACAAATTCTATAAGTGTCGATACATTATGTAGACCTATTCTCTC
1 TTCTGGACAAAAAGTATCGACACAAATTCTAAAAGTGTCGATACATTATGTAGACATATTCTCAC
* *** *
2687357 ATAAAACCGATATAGTTATACCGGTTACATTGTAAATTTACCTATTACATTATAATTATGGGTTT
66 ATAAAACCGATATAGTTATACCAGTTACATCACAAAATTACCTATTACATTATAATTATGGGTTT
*
2687422 CGATGTTTCTGGGATCGATACTTTTTATAAATATATAGACACTTTATACATTCACCATTTTGGGC
131 CGATGTTTCTGGGATCAATA-TTTTTATAAATATATAGACACTTTATACATTCACCATTTTGGGC
2687487 ATTCA
195 ATTCA
*
2687492 TTCTGGATAAAAAGTATCGACACAAA-TCTAAAAAGTGTCGATACATTATGTAGACATATTCTCA
1 TTCTGGACAAAAAGTATCGACACAAATTCT-AAAAGTGTCGATACATTATGTAGACATATTCTCA
* * *
2687556 CATAAAACCGGTATATTTATACCAGTTATATCACAAAATTACCTATTACATTATAATTATGGGTT
65 CATAAAACCGATATAGTTATACCAGTTACATCACAAAATTACCTATTACATTATAATTATGGGTT
* * *
2687621 TCGATGTTTTTGGGATCAATATTTTTATAAATGTATCGACAC
130 TCGATGTTTCTGGGATCAATATTTTTATAAATATATAGACAC
2687663 ATCTGATTAC
Statistics
Matches: 152, Mismatches: 18, Indels: 3
0.88 0.10 0.02
Matches are distributed among these distances:
199 22 0.14
200 130 0.86
ACGTcount: A:0.34, C:0.16, G:0.13, T:0.37
Consensus pattern (199 bp):
TTCTGGACAAAAAGTATCGACACAAATTCTAAAAGTGTCGATACATTATGTAGACATATTCTCAC
ATAAAACCGATATAGTTATACCAGTTACATCACAAAATTACCTATTACATTATAATTATGGGTTT
CGATGTTTCTGGGATCAATATTTTTATAAATATATAGACACTTTATACATTCACCATTTTGGGCA
TTCA
Found at i:2688039 original size:19 final size:19
Alignment explanation
Indices: 2688015--2688063 Score: 89
Period size: 19 Copynumber: 2.6 Consensus size: 19
2688005 TTACATTCAC
2688015 ATACAAAATTATAAATCGT
1 ATACAAAATTATAAATCGT
*
2688034 ATACAAAATTATAAATCTT
1 ATACAAAATTATAAATCGT
2688053 ATACAAAATTA
1 ATACAAAATTA
2688064 ACCCTACATT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
19 29 1.00
ACGTcount: A:0.55, C:0.10, G:0.02, T:0.33
Consensus pattern (19 bp):
ATACAAAATTATAAATCGT
Found at i:2689903 original size:21 final size:21
Alignment explanation
Indices: 2689878--2689921 Score: 70
Period size: 21 Copynumber: 2.1 Consensus size: 21
2689868 CCCCTTATGC
* *
2689878 CTCTCAAGTGTCTCTTTGACT
1 CTCTCAAGTATCTCTTCGACT
2689899 CTCTCAAGTATCTCTTCGACT
1 CTCTCAAGTATCTCTTCGACT
2689920 CT
1 CT
2689922 TGATTGTCTT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.16, C:0.32, G:0.11, T:0.41
Consensus pattern (21 bp):
CTCTCAAGTATCTCTTCGACT
Found at i:2692638 original size:182 final size:182
Alignment explanation
Indices: 2692325--2692871 Score: 830
Period size: 182 Copynumber: 3.0 Consensus size: 182
2692315 TACGCGTATT
* * * ** *
2692325 TATTAAAGTATCGACACTTTCAATATATCCGGTAGCGT-TTTACC-GATTTTTTGATTTCGAGAC
1 TATTAAAGTATCGACACTTTCAATATATCCGGTCGC-TCTATACCAG-TTTTATCCTTTAGAGAC
* * *
2692388 CGGTTTTGTCATATTTTTACATGTTATATCGTTATGGATCGATACATTTTTATAAAGTATCAACA
64 CGGTTTTGTCATATTTTTACATGTTATATCGTTGTAGATCGATACATTGTTATAAAGTATCAACA
* * * *
2692453 CTTTATAGGAGCTAAAATTGATTCTCTTTTAAATTTACAAAGTGTTGATACTTA
129 CTTTATAGGCGCTAAAAATGTTTCTCTTTTAAATTTACAAAGTGTCGATACTTA
* *
2692507 TATTAAAGTATCGACACTTTCAATATATCCGGTCGCTCTATACCAGTTTTGTCCTTTAGAGACCA
1 TATTAAAGTATCGACACTTTCAATATATCCGGTCGCTCTATACCAGTTTTATCCTTTAGAGACCG
* * *
2692572 GTTTTGTCATATTTTTACCTGTTATATCGTTGTAGATCGATACATTGTTATAAAATATCCACACT
66 GTTTTGTCATATTTTTACATGTTATATCGTTGTAGATCGATACATTGTTATAAAGTATCAACACT
* *
2692637 TTATAGGCGCTAAAACTGTTTCTCTTTTAAATTCACAAAGTGTCGATACTTA
131 TTATAGGCGCTAAAAATGTTTCTCTTTTAAATTTACAAAGTGTCGATACTTA
*
2692689 TATTAAAGTATTGACACTTTCAATATATCCGGTCGCTCTATACCAGTTTTATCCTTTAGAGACCG
1 TATTAAAGTATCGACACTTTCAATATATCCGGTCGCTCTATACCAGTTTTATCCTTTAGAGACCG
* * *
2692754 GTTTTGTCATAGTTTTACATGTTTTATCGTTGTTGATCGATACATTGTTATAAAGTATCAACACT
66 GTTTTGTCATATTTTTACATGTTATATCGTTGTAGATCGATACATTGTTATAAAGTATCAACACT
*
2692819 TTATAAGCGCTAAAAATGTTTCTCTTTTAAA-TTACAAAGTGTCGATACTTA
131 TTATAGGCGCTAAAAATGTTTCTCTTTTAAATTTACAAAGTGTCGATACTTA
2692870 TA
1 TA
2692872 GGGGTGTTCA
Statistics
Matches: 333, Mismatches: 30, Indels: 5
0.90 0.08 0.01
Matches are distributed among these distances:
181 22 0.07
182 310 0.93
183 1 0.00
ACGTcount: A:0.29, C:0.16, G:0.14, T:0.41
Consensus pattern (182 bp):
TATTAAAGTATCGACACTTTCAATATATCCGGTCGCTCTATACCAGTTTTATCCTTTAGAGACCG
GTTTTGTCATATTTTTACATGTTATATCGTTGTAGATCGATACATTGTTATAAAGTATCAACACT
TTATAGGCGCTAAAAATGTTTCTCTTTTAAATTTACAAAGTGTCGATACTTA
Found at i:2693110 original size:17 final size:17
Alignment explanation
Indices: 2693083--2693121 Score: 71
Period size: 17 Copynumber: 2.4 Consensus size: 17
2693073 AATTTACAAT
2693083 TAATT-TAAATAATATC
1 TAATTATAAATAATATC
2693099 TAATTATAAATAATATC
1 TAATTATAAATAATATC
2693116 TAATTA
1 TAATTA
2693122 ATTTGATTCA
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
16 5 0.23
17 17 0.77
ACGTcount: A:0.51, C:0.05, G:0.00, T:0.44
Consensus pattern (17 bp):
TAATTATAAATAATATC
Found at i:2697303 original size:22 final size:21
Alignment explanation
Indices: 2697262--2697303 Score: 50
Period size: 22 Copynumber: 2.0 Consensus size: 21
2697252 TTGATAAAAA
*
2697262 AATAAATTTATAATTTTATTC
1 AATAAATTTATAATTCTATTC
2697283 AATATAATTTATACA-TCTATT
1 AATA-AATTTATA-ATTCTATT
2697304 ATATATTTAT
Statistics
Matches: 18, Mismatches: 1, Indels: 3
0.82 0.05 0.14
Matches are distributed among these distances:
21 4 0.22
22 13 0.72
23 1 0.06
ACGTcount: A:0.43, C:0.07, G:0.00, T:0.50
Consensus pattern (21 bp):
AATAAATTTATAATTCTATTC
Found at i:2699006 original size:21 final size:21
Alignment explanation
Indices: 2698982--2699036 Score: 101
Period size: 21 Copynumber: 2.6 Consensus size: 21
2698972 GAGATAAGAG
2698982 ATATGTGATATGAATGTATGA
1 ATATGTGATATGAATGTATGA
2699003 ATATGTGATATGAATGTATGA
1 ATATGTGATATGAATGTATGA
*
2699024 ATATGTGAAATGA
1 ATATGTGATATGA
2699037 TATAAGTGTT
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 33 1.00
ACGTcount: A:0.40, C:0.00, G:0.24, T:0.36
Consensus pattern (21 bp):
ATATGTGATATGAATGTATGA
Found at i:2699200 original size:32 final size:32
Alignment explanation
Indices: 2699107--2699227 Score: 156
Period size: 32 Copynumber: 3.8 Consensus size: 32
2699097 GAGTTGAGGG
* * * *
2699107 TTACCTATATCCTTTGGGACATATGGATAGGA
1 TTACCTATGTCCTTCGGGACATATGGACAAGA
*
2699139 TTACCTATGTCTTTCGGGACATATGGACAAGA
1 TTACCTATGTCCTTCGGGACATATGGACAAGA
2699171 TTACCTATGTCCTTCGGGACATATGGACAAG-
1 TTACCTATGTCCTTCGGGACATATGGACAAGA
* * *
2699202 -TACCTATGTTCTTCAGAACATATGGA
1 TTACCTATGTCCTTCGGGACATATGGA
2699228 TAGGTCATTC
Statistics
Matches: 80, Mismatches: 9, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
30 23 0.29
32 57 0.71
ACGTcount: A:0.28, C:0.19, G:0.21, T:0.32
Consensus pattern (32 bp):
TTACCTATGTCCTTCGGGACATATGGACAAGA
Found at i:2699252 original size:22 final size:22
Alignment explanation
Indices: 2699227--2699268 Score: 75
Period size: 22 Copynumber: 1.9 Consensus size: 22
2699217 GAACATATGG
2699227 ATAGGTCATTCGGGACACATGC
1 ATAGGTCATTCGGGACACATGC
*
2699249 ATAGGTCCTTCGGGACACAT
1 ATAGGTCATTCGGGACACAT
2699269 TTCACATGCC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.26, C:0.24, G:0.26, T:0.24
Consensus pattern (22 bp):
ATAGGTCATTCGGGACACATGC
Found at i:2699883 original size:76 final size:75
Alignment explanation
Indices: 2699756--2699971 Score: 303
Period size: 76 Copynumber: 2.9 Consensus size: 75
2699746 ATTCTAAATA
* *
2699756 TTATAATTTATCTTTGTTTTTAGGTATTTTAGTTTAAATAGGTTTTAGTATTTTAATTAAGTTTT
1 TTATATTTTATCTTTG-TTTTAGGTATTTTAGTTTAAATAGGTTTTAGTATTTTAATTAAGATTT
*
2699821 AGGATATTATTT
65 AGAATATTA-TT
*
2699833 TTATATTTTATCTTTGTTTTAGGTATTTTAGTTTAAATAGGTTTTAGTATTTTAATTAGGATTTA
1 TTATATTTTATCTTTGTTTTAGGTATTTTAGTTTAAATAGGTTTTAGTATTTTAATTAAGATTTA
2699898 GAATATTATT
66 GAATATTATT
* * * *
2699908 TTAAATATTAT-TATT-TTTTAGGTATTTTAGTTTAAATA-GTTTTAAGTGTTTTAATTAGGATT
1 TTATATTTTATCT-TTGTTTTAGGTATTTTAGTTTAAATAGGTTTT-AGTATTTTAATTAAGATT
2699970 TA
64 TA
2699972 AGATGTTTTA
Statistics
Matches: 130, Mismatches: 7, Indels: 7
0.90 0.05 0.05
Matches are distributed among these distances:
73 5 0.04
74 43 0.33
75 13 0.10
76 54 0.42
77 15 0.12
ACGTcount: A:0.29, C:0.01, G:0.13, T:0.57
Consensus pattern (75 bp):
TTATATTTTATCTTTGTTTTAGGTATTTTAGTTTAAATAGGTTTTAGTATTTTAATTAAGATTTA
GAATATTATT
Found at i:2700557 original size:4 final size:4
Alignment explanation
Indices: 2700548--2700586 Score: 60
Period size: 4 Copynumber: 9.5 Consensus size: 4
2700538 CTTTATCCCA
*
2700548 ATTT ATTT ATTTT ATTT ATTT ATTT ATTT ATTT TTTT AT
1 ATTT ATTT A-TTT ATTT ATTT ATTT ATTT ATTT ATTT AT
2700587 CTCATTATAA
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
4 28 0.88
5 4 0.12
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (4 bp):
ATTT
Found at i:2700574 original size:21 final size:20
Alignment explanation
Indices: 2700548--2700586 Score: 69
Period size: 21 Copynumber: 1.9 Consensus size: 20
2700538 CTTTATCCCA
2700548 ATTTATTTATTTTATTTATTT
1 ATTTATTTATTTT-TTTATTT
2700569 ATTTATTTATTTTTTTAT
1 ATTTATTTATTTTTTTAT
2700587 CTCATTATAA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 5 0.28
21 13 0.72
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (20 bp):
ATTTATTTATTTTTTTATTT
Found at i:2706283 original size:22 final size:24
Alignment explanation
Indices: 2706255--2706300 Score: 78
Period size: 22 Copynumber: 2.0 Consensus size: 24
2706245 GAGGCAACCC
2706255 ATTTCATTCTA-TT-TTTTATTTT
1 ATTTCATTCTATTTATTTTATTTT
2706277 ATTTCATTCTATTTATTTTATTTT
1 ATTTCATTCTATTTATTTTATTTT
2706301 TCTCTGAACA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
22 11 0.50
23 2 0.09
24 9 0.41
ACGTcount: A:0.20, C:0.09, G:0.00, T:0.72
Consensus pattern (24 bp):
ATTTCATTCTATTTATTTTATTTT
Found at i:2706293 original size:19 final size:20
Alignment explanation
Indices: 2706255--2706299 Score: 65
Period size: 19 Copynumber: 2.2 Consensus size: 20
2706245 GAGGCAACCC
2706255 ATTTCATTCTATTTTTTATTTT
1 ATTTCATTCTA--TTTTATTTT
2706277 ATTTCATTCTA-TTTATTTT
1 ATTTCATTCTATTTTATTTT
2706296 ATTT
1 ATTT
2706300 TTCTCTGAAC
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
19 12 0.52
22 11 0.48
ACGTcount: A:0.20, C:0.09, G:0.00, T:0.71
Consensus pattern (20 bp):
ATTTCATTCTATTTTATTTT
Found at i:2708218 original size:44 final size:43
Alignment explanation
Indices: 2708169--2708294 Score: 123
Period size: 44 Copynumber: 3.1 Consensus size: 43
2708159 CTAAATATTA
2708169 TATTTTATCTTTGTTTTAGGTATTTTAGTTTAAATAGGTTTTAG
1 TATTTTATCTTTGTTTTAGGTATTTTAGTTTAAATA-GTTTTAG
**
2708213 TATTTTAAT-TAAGTTTTAGG-A---TA--TT--AT--TTTTA-
1 TATTTT-ATCTTTGTTTTAGGTATTTTAGTTTAAATAGTTTTAG
2708245 TATTTTATCTTTGTTTTAGGTATTTTAGTTTAAATATGTTTTAG
1 TATTTTATCTTTGTTTTAGGTATTTTAGTTTAAATA-GTTTTAG
2708289 TATTTT
1 TATTTT
2708295 GATTAGGATT
Statistics
Matches: 64, Mismatches: 4, Indels: 28
0.67 0.04 0.29
Matches are distributed among these distances:
31 2 0.03
32 15 0.23
33 6 0.09
36 4 0.06
38 4 0.06
40 4 0.06
43 6 0.09
44 21 0.33
45 2 0.03
ACGTcount: A:0.25, C:0.02, G:0.13, T:0.61
Consensus pattern (43 bp):
TATTTTATCTTTGTTTTAGGTATTTTAGTTTAAATAGTTTTAG
Found at i:2708254 original size:76 final size:74
Alignment explanation
Indices: 2708166--2708378 Score: 288
Period size: 76 Copynumber: 2.9 Consensus size: 74
2708156 ATTCTAAATA
*
2708166 TTATATTTTATCTTTGTTTTAGGTATTTTAGTTTAAATAGGTTTTAGTATTTTAATTAAGTTTTA
1 TTATATTTTATCTTTGTTTTAGGTATTTTAGTTTAAATA-GTTTTAGTATTTTAATTAAGATTTA
*
2708231 GGATATTATTT
65 GAATATTA-TT
* *
2708242 TTATATTTTATCTTTGTTTTAGGTATTTTAGTTTAAATATGTTTTAGTATTTTGATTAGGATTTA
1 TTATATTTTATCTTTGTTTTAGGTATTTTAGTTTAAATA-GTTTTAGTATTTTAATTAAGATTTA
2708307 GAATATTATT
65 GAATATTATT
* * * * *
2708317 TTAAATATTAT-TAT-TTTTAGGTATTTTTGTTTAAATAGTTTTAAT-TGTTTAATTAAGATTTA
1 TTATATTTTATCTTTGTTTTAGGTATTTTAGTTTAAATAGTTTTAGTAT-TTTAATTAAGATTTA
2708379 AGATGTTTTA
Statistics
Matches: 124, Mismatches: 12, Indels: 6
0.87 0.08 0.04
Matches are distributed among these distances:
71 1 0.01
72 20 0.16
73 22 0.18
74 2 0.02
75 11 0.09
76 68 0.55
ACGTcount: A:0.28, C:0.01, G:0.12, T:0.59
Consensus pattern (74 bp):
TTATATTTTATCTTTGTTTTAGGTATTTTAGTTTAAATAGTTTTAGTATTTTAATTAAGATTTAG
AATATTATT
Found at i:2713144 original size:32 final size:30
Alignment explanation
Indices: 2713103--2713192 Score: 108
Period size: 30 Copynumber: 2.9 Consensus size: 30
2713093 CGAGGGTTAT
*
2713103 CTATGTCCTTCGGGACATATGGACATGATTAC
1 CTATGTCCTTCGGGACATATGGACA-G-GTAC
*
2713135 CTATGTCCTTCGGGATATATGGACAGGTAC
1 CTATGTCCTTCGGGACATATGGACAGGTAC
* ** *
2713165 CTATGTTCTTCGAAACATATGGATAGGT
1 CTATGTCCTTCGGGACATATGGACAGGT
2713193 CCTTCGGGAC
Statistics
Matches: 51, Mismatches: 7, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
30 26 0.51
31 1 0.02
32 24 0.47
ACGTcount: A:0.26, C:0.19, G:0.23, T:0.32
Consensus pattern (30 bp):
CTATGTCCTTCGGGACATATGGACAGGTAC
Found at i:2713168 original size:30 final size:32
Alignment explanation
Indices: 2713103--2713187 Score: 111
Period size: 32 Copynumber: 2.7 Consensus size: 32
2713093 CGAGGGTTAT
*
2713103 CTATGTCCTTCGGGACATATGGACATGATTAC
1 CTATGTCCTTCGGGACATATGGACATGAGTAC
*
2713135 CTATGTCCTTCGGGATATATGGACA-G-GTAC
1 CTATGTCCTTCGGGACATATGGACATGAGTAC
* **
2713165 CTATGTTCTTCGAAACATATGGA
1 CTATGTCCTTCGGGACATATGGA
2713188 TAGGTCCTTC
Statistics
Matches: 47, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
30 22 0.47
31 1 0.02
32 24 0.51
ACGTcount: A:0.26, C:0.20, G:0.22, T:0.32
Consensus pattern (32 bp):
CTATGTCCTTCGGGACATATGGACATGAGTAC
Found at i:2713212 original size:22 final size:22
Alignment explanation
Indices: 2713187--2713228 Score: 75
Period size: 22 Copynumber: 1.9 Consensus size: 22
2713177 AAACATATGG
*
2713187 ATAGGTCCTTCGGGACACATGC
1 ATAGGTCATTCGGGACACATGC
2713209 ATAGGTCATTCGGGACACAT
1 ATAGGTCATTCGGGACACAT
2713229 TTCACATGCC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.26, C:0.24, G:0.26, T:0.24
Consensus pattern (22 bp):
ATAGGTCATTCGGGACACATGC
Found at i:2717599 original size:31 final size:31
Alignment explanation
Indices: 2717564--2717628 Score: 96
Period size: 31 Copynumber: 2.1 Consensus size: 31
2717554 AGATTATATT
*
2717564 AATTTTAGATAAAATATAAATTTAA-CTCTTA
1 AATTTTAAATAAAATATAAATTTAACCTC-TA
*
2717595 AATTTTAAATAAAATATTAATTTAACCTCTA
1 AATTTTAAATAAAATATAAATTTAACCTCTA
2717626 AAT
1 AAT
2717629 ATGATTAGTG
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
31 28 0.90
32 3 0.10
ACGTcount: A:0.49, C:0.08, G:0.02, T:0.42
Consensus pattern (31 bp):
AATTTTAAATAAAATATAAATTTAACCTCTA
Found at i:2722546 original size:22 final size:21
Alignment explanation
Indices: 2722508--2722549 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 21
2722498 TGATCAAATG
2722508 ATATTATTTTAGTATTTTTAT
1 ATATTATTTTAGTATTTTTAT
2722529 ATATATATTTT-GTGATTTTTA
1 ATAT-TATTTTAGT-ATTTTTA
2722550 AGTAGAATCC
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):
ATATTATTTTAGTATTTTTAT
Found at i:2723785 original size:14 final size:14
Alignment explanation
Indices: 2723768--2723815 Score: 50
Period size: 14 Copynumber: 3.7 Consensus size: 14
2723758 TAAAATATGA
2723768 TATGAACAATACCG
1 TATGAACAATACCG
*
2723782 TATGAACAGT---G
1 TATGAACAATACCG
*
2723793 -ATGAATAATACCG
1 TATGAACAATACCG
2723806 TATGAACAAT
1 TATGAACAAT
2723816 GATGAACAGT
Statistics
Matches: 26, Mismatches: 4, Indels: 8
0.68 0.11 0.21
Matches are distributed among these distances:
10 7 0.27
11 1 0.04
13 1 0.04
14 17 0.65
ACGTcount: A:0.44, C:0.15, G:0.17, T:0.25
Consensus pattern (14 bp):
TATGAACAATACCG
Found at i:2723796 original size:24 final size:24
Alignment explanation
Indices: 2723769--2723828 Score: 93
Period size: 24 Copynumber: 2.5 Consensus size: 24
2723759 AAAATATGAT
*
2723769 ATGAACAATACCGTATGAACAGTG
1 ATGAACAATACCGTATGAACAATG
*
2723793 ATGAATAATACCGTATGAACAATG
1 ATGAACAATACCGTATGAACAATG
*
2723817 ATGAACAGTACC
1 ATGAACAATACC
2723829 CTGCTACAAT
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 32 1.00
ACGTcount: A:0.43, C:0.17, G:0.18, T:0.22
Consensus pattern (24 bp):
ATGAACAATACCGTATGAACAATG
Found at i:2724637 original size:24 final size:24
Alignment explanation
Indices: 2724610--2724659 Score: 91
Period size: 24 Copynumber: 2.1 Consensus size: 24
2724600 AGCTCATATA
*
2724610 AATTTGCACCGTAGTGCCACGTAG
1 AATTTGCACCGAAGTGCCACGTAG
2724634 AATTTGCACCGAAGTGCCACGTAG
1 AATTTGCACCGAAGTGCCACGTAG
2724658 AA
1 AA
2724660 ATGCATTGTA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.30, C:0.24, G:0.24, T:0.22
Consensus pattern (24 bp):
AATTTGCACCGAAGTGCCACGTAG
Found at i:2724672 original size:23 final size:24
Alignment explanation
Indices: 2724614--2724675 Score: 81
Period size: 24 Copynumber: 2.6 Consensus size: 24
2724604 CATATAAATT
*
2724614 TGCACCGTAGTGCCACGTAGAATT
1 TGCACCGTAGTGCCACGTAGAATA
*
2724638 TGCACCGAAGTGCCACGTAGAA-A
1 TGCACCGTAGTGCCACGTAGAATA
**
2724661 TGCATTGTAGTGCCA
1 TGCACCGTAGTGCCA
2724676 TATAAGATTG
Statistics
Matches: 33, Mismatches: 5, Indels: 1
0.85 0.13 0.03
Matches are distributed among these distances:
23 12 0.36
24 21 0.64
ACGTcount: A:0.27, C:0.24, G:0.26, T:0.23
Consensus pattern (24 bp):
TGCACCGTAGTGCCACGTAGAATA
Found at i:2729918 original size:97 final size:94
Alignment explanation
Indices: 2729663--2729923 Score: 330
Period size: 94 Copynumber: 2.7 Consensus size: 94
2729653 ACATTATAAT
* *
2729663 ATTATATATATACAATAAAGCTTGAGTTGTCCCTCTAAAGCAATTGGTTAAACCCCCGGCTTTAT
1 ATTATA-ATATACAATAAAACTTGAGTTGTCCCTCTAGAGCAATTGGTTAAACCCCCGGCTTTAT
*
2729728 GGATAAGATTCAGCTAGCCTGATAAAGACG
65 GGATAAGATTCAACTAGCCTGATAAAGACG
*
2729758 ATTATAATATACAATAAAACTTGAGTTGTCCCTCTAGAGCAATTGGTTAAACACCCCGGCTTTAG
1 ATTATAATATACAATAAAACTTGAGTTGTCCCTCTAGAGCAATTGGTTAAAC-CCCCGGCTTTAT
* * **
2729823 GGATAATATTCAACTAGTCTGATAAAGGTG
65 GGATAAGATTCAACTAGCCTGATAAAGACG
* * *
2729853 -TTATAATAT-CTATACAATGTTA-TTGAGTTGTCCCTCTAGAGCAATTGGTTAAACTGCCCGAC
1 ATTATAATATACAATA-AA----ACTTGAGTTGTCCCTCTAGAGCAATTGGTTAAAC-CCCCGGC
2729915 TTTATGGAT
60 TTTATGGAT
2729924 TCAGCTAGCC
Statistics
Matches: 147, Mismatches: 13, Indels: 10
0.86 0.08 0.06
Matches are distributed among these distances:
93 4 0.03
94 55 0.37
95 42 0.29
97 45 0.31
98 1 0.01
ACGTcount: A:0.33, C:0.18, G:0.18, T:0.32
Consensus pattern (94 bp):
ATTATAATATACAATAAAACTTGAGTTGTCCCTCTAGAGCAATTGGTTAAACCCCCGGCTTTATG
GATAAGATTCAACTAGCCTGATAAAGACG
Found at i:2731271 original size:17 final size:17
Alignment explanation
Indices: 2731249--2731302 Score: 58
Period size: 15 Copynumber: 3.2 Consensus size: 17
2731239 CTTGAGACAG
2731249 TTTCTCTTAAAACAAATT
1 TTTCTCTTAAAACAAA-T
* *
2731267 TTCTCTCTTGAGAC--AT
1 TT-TCTCTTAAAACAAAT
2731283 TTTCTCTTAAAACAAAT
1 TTTCTCTTAAAACAAAT
2731300 TTT
1 TTT
2731303 GTCTCTCTCG
Statistics
Matches: 29, Mismatches: 4, Indels: 7
0.73 0.10 0.17
Matches are distributed among these distances:
15 9 0.31
16 3 0.10
17 6 0.21
18 2 0.07
19 9 0.31
ACGTcount: A:0.31, C:0.19, G:0.04, T:0.46
Consensus pattern (17 bp):
TTTCTCTTAAAACAAAT
Found at i:2731275 original size:19 final size:18
Alignment explanation
Indices: 2731249--2731308 Score: 63
Period size: 19 Copynumber: 3.4 Consensus size: 18
2731239 CTTGAGACAG
2731249 TTTCTCTTAAAACAAATT
1 TTTCTCTTAAAACAAATT
* *
2731267 TTCTCTCTTGAGAC--A-T
1 TT-TCTCTTAAAACAAATT
2731283 TTTCTCTTAAAACAAATT
1 TTTCTCTTAAAACAAATT
2731301 TTGTCTCT
1 TT-TCTCT
2731309 CTCGAGACAG
Statistics
Matches: 33, Mismatches: 4, Indels: 9
0.72 0.09 0.20
Matches are distributed among these distances:
15 9 0.27
16 3 0.09
17 2 0.06
18 5 0.15
19 14 0.42
ACGTcount: A:0.28, C:0.20, G:0.05, T:0.47
Consensus pattern (18 bp):
TTTCTCTTAAAACAAATT
Found at i:2731280 original size:34 final size:36
Alignment explanation
Indices: 2731184--2731334 Score: 227
Period size: 36 Copynumber: 4.2 Consensus size: 36
2731174 TAATTTACTC
2731184 AAAACAAAGTTTTGTCTCTCTTGAGACAGTTTCTCTT
1 AAAACAAA-TTTTGTCTCTCTTGAGACAGTTTCTCTT
2731221 AAAACAAATTTTGTAC-CTCTTGAGACAGTTTCTCTT
1 AAAACAAATTTTGT-CTCTCTTGAGACAGTTTCTCTT
*
2731257 AAAACAAA-TTT-TCTCTCTTGAGACATTTTCTCTT
1 AAAACAAATTTTGTCTCTCTTGAGACAGTTTCTCTT
* *
2731291 AAAACAAATTTTGTCTCTCTCGAGACAGTTTCCCTT
1 AAAACAAATTTTGTCTCTCTTGAGACAGTTTCTCTT
*
2731327 GAAACAAA
1 AAAACAAA
2731335 AACTTTAAAA
Statistics
Matches: 105, Mismatches: 5, Indels: 9
0.88 0.04 0.08
Matches are distributed among these distances:
33 1 0.01
34 28 0.27
35 6 0.06
36 61 0.58
37 9 0.09
ACGTcount: A:0.31, C:0.21, G:0.11, T:0.38
Consensus pattern (36 bp):
AAAACAAATTTTGTCTCTCTTGAGACAGTTTCTCTT
Found at i:2731287 original size:70 final size:72
Alignment explanation
Indices: 2731184--2731334 Score: 227
Period size: 70 Copynumber: 2.1 Consensus size: 72
2731174 TAATTTACTC
*
2731184 AAAACAAAGTTTTGTCTCTCTTGAGACAGTTTCTCTTAAAACAAATTTTGTAC-CTCTTGAGACA
1 AAAACAAAG-TTTGTCTCTCTTGAGACAGTTTCTCTTAAAACAAATTTTGT-CTCTCTCGAGACA
*
2731248 GTTTCTCTT
64 GTTTCCCTT
*
2731257 AAAACAAA-TTT-TCTCTCTTGAGACATTTTCTCTTAAAACAAATTTTGTCTCTCTCGAGACAGT
1 AAAACAAAGTTTGTCTCTCTTGAGACAGTTTCTCTTAAAACAAATTTTGTCTCTCTCGAGACAGT
2731320 TTCCCTT
66 TTCCCTT
*
2731327 GAAACAAA
1 AAAACAAA
2731335 AACTTTAAAA
Statistics
Matches: 73, Mismatches: 4, Indels: 5
0.89 0.05 0.06
Matches are distributed among these distances:
69 1 0.01
70 61 0.84
71 3 0.04
73 8 0.11
ACGTcount: A:0.31, C:0.21, G:0.11, T:0.38
Consensus pattern (72 bp):
AAAACAAAGTTTGTCTCTCTTGAGACAGTTTCTCTTAAAACAAATTTTGTCTCTCTCGAGACAGT
TTCCCTT
Found at i:2731434 original size:138 final size:138
Alignment explanation
Indices: 2731213--2731746 Score: 643
Period size: 138 Copynumber: 3.9 Consensus size: 138
2731203 CTTGAGACAG
* * * ** *
2731213 TTTCTCTTAAAACAAATTTTGTAC-CTCTTGAGACAGTTTCTCTTAAAAC-AA-ATTT-TCTCTC
1 TTTC-CTT-AAACAAATTTCGT-CTCCCTTGAGACAGTTTCTTTTGGAACTAAGTTTTGTCTCTC
* * * *
2731274 TTGAGACATTTTCTCTTAAAACAAATTTTGTCTCTCTCGAGACAGTTTCCCTTGAAACAAAAACT
63 TTGAGACAATTTCTCTTGAAACAAATTTTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAAATCT
*
2731339 TTAAAAT-TGT
128 TTAGAATATGT
* *
2731349 TTTCCTTGAAACAAATTTCGTCTCCCTTGAGATAGTTTCTTTTGGAACTAAGTTTTGGCTCTCTT
1 TTTCCTT-AAACAAATTTCGTCTCCCTTGAGACAGTTTCTTTTGGAACTAAGTTTTGTCTCTCTT
* * *
2731414 TAGACAATTTCTCTTGAAACAAATTTTGTCTCTCTTAAGACAGTTTACCTTGAAACAAAATCTTT
65 GAGACAATTTCTCTTGAAACAAATTTTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAAATCTTT
*
2731479 GAGTATAT-T
130 -AGAATATGT
* * * * *
2731488 TTACATTAAACGAATTTCGTCTCCATTGAGACAGTTTCTTTTGGAACTAAGTTTTGTCTCTCTTT
1 TTTCCTTAAACAAATTTCGTCTCCCTTGAGACAGTTTCTTTTGGAACTAAGTTTTGTCTCTCTTG
* * * * * *
2731553 CGACAGTCTCTTTTGAAACAAATTTTGTCTCTCTTGAGACAATTTCCCTTTAAACAAAATCTTT-
66 AGACAATTTCTCTTGAAACAAATTTTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAAATCTTTA
*
2731617 GAATCTGT
131 GAATATGT
* *
2731625 TTTCCTTTAAAAAAAATTT-GTCTCCCTTGAGACAGTTTCTTTTGGAACTAAGTTTTGTCACTCT
1 TTTCC-TT-AAACAAATTTCGTCTCCCTTGAGACAGTTTCTTTTGGAACTAAGTTTTGTCTCTCT
* * *
2731689 TGAGAAAATTTCTCTTGAAACAAGTTTTGTCTCTCTTGAGACAGTTTCTCTTGAAACA
64 TGAGACAATTTCTCTTGAAACAAATTTTGTCTCTCTTGAGACAGTTTCCCTTGAAACA
2731747 CCAACCTTTG
Statistics
Matches: 339, Mismatches: 50, Indels: 16
0.84 0.12 0.04
Matches are distributed among these distances:
134 1 0.00
135 35 0.10
136 10 0.03
137 7 0.02
138 268 0.79
139 17 0.05
140 1 0.00
ACGTcount: A:0.28, C:0.19, G:0.12, T:0.41
Consensus pattern (138 bp):
TTTCCTTAAACAAATTTCGTCTCCCTTGAGACAGTTTCTTTTGGAACTAAGTTTTGTCTCTCTTG
AGACAATTTCTCTTGAAACAAATTTTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAAATCTTTA
GAATATGT
Found at i:2731441 original size:36 final size:35
Alignment explanation
Indices: 2731349--2731472 Score: 122
Period size: 36 Copynumber: 3.4 Consensus size: 35
2731339 TTAAAATTGT
* * * *
2731349 TTTCCTTGAAACAAATTTCGTCTCCCTTGAGATAG
1 TTTCCTTGAAACAAATTTTGTCTCTCTTAAGACAG
* * * * * *
2731384 TTTCTTTTGGAACTAAGTTTTGGCTCTCTTTAGACAA
1 TTTC-CTTGAAAC-AAATTTTGTCTCTCTTAAGACAG
2731421 TTTCTCTTGAAACAAATTTTGTCTCTCTTAAGACAG
1 TTTC-CTTGAAACAAATTTTGTCTCTCTTAAGACAG
2731457 TTTACCTTGAAACAAA
1 TTT-CCTTGAAACAAA
2731473 ATCTTTGAGT
Statistics
Matches: 71, Mismatches: 15, Indels: 5
0.78 0.16 0.05
Matches are distributed among these distances:
35 4 0.06
36 39 0.55
37 28 0.39
ACGTcount: A:0.27, C:0.19, G:0.13, T:0.40
Consensus pattern (35 bp):
TTTCCTTGAAACAAATTTTGTCTCTCTTAAGACAG
Found at i:2731547 original size:37 final size:36
Alignment explanation
Indices: 2731495--2731746 Score: 166
Period size: 36 Copynumber: 7.1 Consensus size: 36
2731485 ATTTTACATT
* *
2731495 AAACGAATTTCGTCTC-CATTGAGACAGTTTCTTTTG
1 AAACAAATTTTGTCTCTC-TTGAGACAGTTTCTTTTG
* * ** *
2731531 GAACTAAGTTTTGTCTCTCTTTCGACAGTCTCTTTTG
1 AAAC-AAATTTTGTCTCTCTTGAGACAGTTTCTTTTG
* *
2731568 AAACAAATTTTGTCTCTCTTGAGACAATTTCCCTTT-
1 AAACAAATTTTGTCTCTCTTGAGACAGTTT-CTTTTG
* * *
2731604 AAACAAA------ATCT-TTGA-ATCTGTTTTCCTTT-
1 AAACAAATTTTGTCTCTCTTGAGA-CAG-TTTCTTTTG
* * *
2731633 AAAAAAAATTTGTCTCCCTTGAGACAGTTTCTTTTG
1 AAACAAATTTTGTCTCTCTTGAGACAGTTTCTTTTG
* * * * * *
2731669 GAACTAAGTTTTGTCACTCTTGAGAAAATTTCTCTTG
1 AAAC-AAATTTTGTCTCTCTTGAGACAGTTTCTTTTG
* *
2731706 AAACAAGTTTTGTCTCTCTTGAGACAGTTTCTCTTG
1 AAACAAATTTTGTCTCTCTTGAGACAGTTTCTTTTG
2731742 AAACA
1 AAACA
2731747 CCAACCTTTG
Statistics
Matches: 166, Mismatches: 35, Indels: 30
0.72 0.15 0.13
Matches are distributed among these distances:
28 1 0.01
29 16 0.10
30 6 0.04
35 9 0.05
36 73 0.44
37 60 0.36
38 1 0.01
ACGTcount: A:0.27, C:0.19, G:0.13, T:0.41
Consensus pattern (36 bp):
AAACAAATTTTGTCTCTCTTGAGACAGTTTCTTTTG
Found at i:2731586 original size:36 final size:37
Alignment explanation
Indices: 2731517--2731587 Score: 108
Period size: 37 Copynumber: 1.9 Consensus size: 37
2731507 TCTCCATTGA
* * *
2731517 GACAGTTTCTTTTGGAACTAAGTTTTGTCTCTCTTTC
1 GACAGTCTCTTTTGAAACTAAATTTTGTCTCTCTTTC
2731554 GACAGTCTCTTTTGAAAC-AAATTTTGTCTCTCTT
1 GACAGTCTCTTTTGAAACTAAATTTTGTCTCTCTT
2731588 GAGACAATTT
Statistics
Matches: 31, Mismatches: 3, Indels: 1
0.89 0.09 0.03
Matches are distributed among these distances:
36 15 0.48
37 16 0.52
ACGTcount: A:0.20, C:0.20, G:0.14, T:0.46
Consensus pattern (37 bp):
GACAGTCTCTTTTGAAACTAAATTTTGTCTCTCTTTC
Found at i:2731917 original size:79 final size:79
Alignment explanation
Indices: 2731783--2731932 Score: 194
Period size: 79 Copynumber: 1.9 Consensus size: 79
2731773 AACATAAAAG
* * * ** * * *
2731783 ACCTTCGGGTTCGAATACGCTTAGCTCCAAGGCATATCATTTATGGTATATCTCAAGACTAGAAG
1 ACCTTCGAGTTCGAATACGCTCAGCTCCAAGGCACATCATTTACAGCATAGCTCAAGACAAGAAG
2731848 GGCTATTTGCCAAA
66 GGCTATTTGCCAAA
* *
2731862 ACCTTCGAGTTCGACA-ACGCTCAGCTTCAAGGCACATCATTTACAGCATAGCTCAAGGCAAGAA
1 ACCTTCGAGTTCGA-ATACGCTCAGCTCCAAGGCACATCATTTACAGCATAGCTCAAGACAAGAA
2731926 GGGCTAT
65 GGGCTAT
2731933 CTGTCAATAA
Statistics
Matches: 60, Mismatches: 10, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
79 59 0.98
80 1 0.02
ACGTcount: A:0.30, C:0.24, G:0.21, T:0.25
Consensus pattern (79 bp):
ACCTTCGAGTTCGAATACGCTCAGCTCCAAGGCACATCATTTACAGCATAGCTCAAGACAAGAAG
GGCTATTTGCCAAA
Found at i:2732608 original size:27 final size:27
Alignment explanation
Indices: 2732550--2732614 Score: 69
Period size: 27 Copynumber: 2.4 Consensus size: 27
2732540 CCCTAACTAA
*
2732550 TATTATATTATATTATATAATACTATG
1 TATTATATTATATAATATAATACTATG
* * *
2732577 AATTATGTTATATAATATACATA-TATT
1 TATTATATTATATAATATA-ATACTATG
2732604 TATTATCATTA
1 TATTAT-ATTA
2732615 ATTTTATTTT
Statistics
Matches: 30, Mismatches: 6, Indels: 3
0.77 0.15 0.08
Matches are distributed among these distances:
27 24 0.80
28 6 0.20
ACGTcount: A:0.42, C:0.05, G:0.03, T:0.51
Consensus pattern (27 bp):
TATTATATTATATAATATAATACTATG
Found at i:2733286 original size:25 final size:22
Alignment explanation
Indices: 2733236--2733285 Score: 73
Period size: 23 Copynumber: 2.2 Consensus size: 22
2733226 AAGAATGGTG
*
2733236 AAAAAGCTTTCGATTTTTTAAA
1 AAAAAGATTTCGATTTTTTAAA
*
2733258 AAAATGATTTCGATTTTTTTAAA
1 AAAAAGATTTCGA-TTTTTTAAA
2733281 AAAAA
1 AAAAA
2733286 AAGATTTTTG
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
22 11 0.46
23 13 0.54
ACGTcount: A:0.46, C:0.06, G:0.08, T:0.40
Consensus pattern (22 bp):
AAAAAGATTTCGATTTTTTAAA
Found at i:2733717 original size:25 final size:25
Alignment explanation
Indices: 2733687--2733782 Score: 97
Period size: 25 Copynumber: 3.8 Consensus size: 25
2733677 TCTTTTAGTG
2733687 TTTATTTTTATTATTTTTTTCTATT
1 TTTATTTTTATTATTTTTTTCTATT
* * * *
2733712 TTTATTTTTATTATATTATACTTTT
1 TTTATTTTTATTATTTTTTTCTATT
2733737 TTTATTTTT-TTATTTTTTTACTATAT
1 TTTATTTTTATTATTTTTTT-CTAT-T
* *
2733763 TGTT-TTTTCATTATTCTTTT
1 T-TTATTTTTATTATTTTTTT
2733783 GCCTTTATTA
Statistics
Matches: 57, Mismatches: 10, Indels: 6
0.78 0.14 0.08
Matches are distributed among these distances:
24 7 0.12
25 33 0.58
26 6 0.11
27 11 0.19
ACGTcount: A:0.18, C:0.05, G:0.01, T:0.76
Consensus pattern (25 bp):
TTTATTTTTATTATTTTTTTCTATT
Found at i:2733740 original size:19 final size:18
Alignment explanation
Indices: 2733716--2733763 Score: 55
Period size: 16 Copynumber: 2.7 Consensus size: 18
2733706 TCTATTTTTA
2733716 TTTTTATTATATTATACTT
1 TTTTTATTATATTATA-TT
*
2733735 TTTTTATT-T-TTTTATT
1 TTTTTATTATATTATATT
*
2733751 TTTTTACTATATT
1 TTTTTATTATATT
2733764 GTTTTTTCAT
Statistics
Matches: 25, Mismatches: 2, Indels: 5
0.78 0.06 0.16
Matches are distributed among these distances:
16 9 0.36
17 5 0.20
18 3 0.12
19 8 0.32
ACGTcount: A:0.21, C:0.04, G:0.00, T:0.75
Consensus pattern (18 bp):
TTTTTATTATATTATATT
Found at i:2733753 original size:6 final size:6
Alignment explanation
Indices: 2733687--2733745 Score: 50
Period size: 6 Copynumber: 9.5 Consensus size: 6
2733677 TCTTTTAGTG
* *
2733687 TTTATT TTTATT ATTT-TT TTCTATT TTTATT TTTATT ATATTATA CTT-TT
1 TTTATT TTTATT -TTTATT TT-TATT TTTATT TTTATT -T-TTATT TTTATT
2733737 TTTATT TTT
1 TTTATT TTT
2733746 TTATTTTTTT
Statistics
Matches: 43, Mismatches: 4, Indels: 12
0.73 0.07 0.20
Matches are distributed among these distances:
5 5 0.12
6 26 0.60
7 8 0.19
8 4 0.09
ACGTcount: A:0.19, C:0.03, G:0.00, T:0.78
Consensus pattern (6 bp):
TTTATT
Found at i:2733754 original size:8 final size:8
Alignment explanation
Indices: 2733687--2733756 Score: 70
Period size: 8 Copynumber: 8.5 Consensus size: 8
2733677 TCTTTTAGTG
2733687 TTTATTTT
1 TTTATTTT
2733695 TATTATTTT
1 T-TTATTTT
* *
2733704 TTTCTATT
1 TTTATTTT
2733712 TTTATTTT
1 TTTATTTT
*
2733720 TATTA-TAT
1 T-TTATTTT
*
2733728 TATACTTTT
1 TTTA-TTTT
2733737 TTTATTTT
1 TTTATTTT
2733745 TTTATTTT
1 TTTATTTT
2733753 TTTA
1 TTTA
2733757 CTATATTGTT
Statistics
Matches: 50, Mismatches: 8, Indels: 8
0.76 0.12 0.12
Matches are distributed among these distances:
7 2 0.04
8 32 0.64
9 16 0.32
ACGTcount: A:0.19, C:0.03, G:0.00, T:0.79
Consensus pattern (8 bp):
TTTATTTT
Found at i:2733852 original size:14 final size:14
Alignment explanation
Indices: 2733796--2733856 Score: 52
Period size: 14 Copynumber: 4.1 Consensus size: 14
2733786 TTTATTATCG
2733796 TTATTATTTATATATT
1 TTATTA-TTATATA-T
* *
2733812 TTATTACTGT-TAT
1 TTATTATTATATAT
*
2733825 TATATGTTTTATATAT
1 T-TAT-TATTATATAT
2733841 TTATTATTATATAT
1 TTATTATTATATAT
2733855 TT
1 TT
2733857 TGTTAAATCA
Statistics
Matches: 36, Mismatches: 6, Indels: 8
0.72 0.12 0.16
Matches are distributed among these distances:
13 2 0.06
14 16 0.44
15 8 0.22
16 10 0.28
ACGTcount: A:0.30, C:0.02, G:0.03, T:0.66
Consensus pattern (14 bp):
TTATTATTATATAT
Found at i:2733951 original size:2 final size:2
Alignment explanation
Indices: 2733944--2733972 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
2733934 TTTCATTTAT
2733944 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
2733973 TTTTGATGCT
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:2749468 original size:48 final size:49
Alignment explanation
Indices: 2749378--2749470 Score: 134
Period size: 48 Copynumber: 1.9 Consensus size: 49
2749368 AAAGACATTA
* * * *
2749378 ATAAAAAATTTTAATAAAAAAATATAAAAGACATCATTATTACATAATG
1 ATAAAAAATTTTAATAAAAAAATAAAAAAAACATAATCATTACATAATG
*
2749427 ATAAAAAGTTTTAAT-AAAAAATAAAAAAAACATAATCATTACAT
1 ATAAAAAATTTTAATAAAAAAATAAAAAAAACATAATCATTACAT
2749471 TAATCTTTTG
Statistics
Matches: 39, Mismatches: 5, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
48 25 0.64
49 14 0.36
ACGTcount: A:0.61, C:0.06, G:0.03, T:0.29
Consensus pattern (49 bp):
ATAAAAAATTTTAATAAAAAAATAAAAAAAACATAATCATTACATAATG
Found at i:2749535 original size:41 final size:41
Alignment explanation
Indices: 2749450--2749535 Score: 111
Period size: 40 Copynumber: 2.1 Consensus size: 41
2749440 ATAAAAAATA
** * *
2749450 AAAAAAACATAATCATTACATTAATCTTTTGATGTTTTAAT
1 AAAAAAACATAATCATTACACCAATATTTTGATGGTTTAAT
*
2749491 AAAAAAA-ATAATCATTACACCAATATTTTGATAGGTTTATT
1 AAAAAAACATAATCATTACACCAATATTTTGAT-GGTTTAAT
2749532 AAAA
1 AAAA
2749536 GAATCTATAT
Statistics
Matches: 39, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
40 22 0.56
41 17 0.44
ACGTcount: A:0.48, C:0.09, G:0.06, T:0.37
Consensus pattern (41 bp):
AAAAAAACATAATCATTACACCAATATTTTGATGGTTTAAT
Found at i:2752912 original size:17 final size:16
Alignment explanation
Indices: 2752863--2752917 Score: 51
Period size: 17 Copynumber: 3.4 Consensus size: 16
2752853 ACTTAGAAAA
*
2752863 TTTAAACAATA-TTAT
1 TTTAAATAATATTTAT
* *
2752878 TTTAAATTATTTTGTAT
1 TTTAAATAATATT-TAT
2752895 TTTAAATAAATATTTA-
1 TTTAAAT-AATATTTAT
2752911 TTTAAAT
1 TTTAAAT
2752918 TTAATTTAAT
Statistics
Matches: 32, Mismatches: 5, Indels: 5
0.76 0.12 0.12
Matches are distributed among these distances:
15 8 0.25
16 8 0.25
17 12 0.38
18 4 0.12
ACGTcount: A:0.42, C:0.02, G:0.02, T:0.55
Consensus pattern (16 bp):
TTTAAATAATATTTAT
Found at i:2761824 original size:20 final size:20
Alignment explanation
Indices: 2761801--2761852 Score: 95
Period size: 20 Copynumber: 2.6 Consensus size: 20
2761791 AACGCGATCC
2761801 CCAGAATCGCAAATCAGTTT
1 CCAGAATCGCAAATCAGTTT
2761821 CCAGAATCGCAAATCAGTTT
1 CCAGAATCGCAAATCAGTTT
*
2761841 CCAAAATCGCAA
1 CCAGAATCGCAA
2761853 CGCGATTCTT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.38, C:0.27, G:0.13, T:0.21
Consensus pattern (20 bp):
CCAGAATCGCAAATCAGTTT
Found at i:2761869 original size:21 final size:20
Alignment explanation
Indices: 2761843--2761940 Score: 65
Period size: 21 Copynumber: 4.8 Consensus size: 20
2761833 ATCAGTTTCC
2761843 AAAATCGCAACGCGATTCTTG
1 AAAATCGCAACGCGATT-TTG
* * **
2761864 AAAATCGCGATGCGATAGT-
1 AAAATCGCAACGCGATTTTG
**
2761883 ACAAATTCGCATTGCGATTTT-
1 A-AAA-TCGCAACGCGATTTTG
* *
2761904 ACATAATCGCAACGCGAATATG
1 A-A-AATCGCAACGCGATTTTG
2761926 AAAATCGCAACGCGA
1 AAAATCGCAACGCGA
2761941 ACACATAAAT
Statistics
Matches: 61, Mismatches: 12, Indels: 9
0.74 0.15 0.11
Matches are distributed among these distances:
19 1 0.02
20 17 0.28
21 40 0.66
22 3 0.05
ACGTcount: A:0.37, C:0.21, G:0.19, T:0.22
Consensus pattern (20 bp):
AAAATCGCAACGCGATTTTG
Found at i:2762002 original size:20 final size:20
Alignment explanation
Indices: 2761908--2762276 Score: 460
Period size: 20 Copynumber: 18.4 Consensus size: 20
2761898 GATTTTACAT
* ** *
2761908 AATCGCAACGCGAATATGAA
1 AATCGCAACGCGTATCCGTA
* *
2761928 AATCGCAACGCG-AACACATA
1 AATCGCAACGCGTATC-CGTA
2761948 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
*
2761968 AATCGCAACGTGTATCCGTA
1 AATCGCAACGCGTATCCGTA
**
2761988 AATCGCAACGCGTATGGGTA
1 AATCGCAACGCGTATCCGTA
*
2762008 AATCGCAATGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
*
2762028 TATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
2762048 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
* *
2762068 AACCGCAACGTGTATCCGTA
1 AATCGCAACGCGTATCCGTA
2762088 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
*
2762108 AATCGCAATGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
2762128 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
*
2762148 AATCGCAACG-ATAATCCGTA
1 AATCGCAACGCGT-ATCCGTA
2762168 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
*
2762188 AATCGCAACG-ATAATCCGTA
1 AATCGCAACGCGT-ATCCGTA
*
2762208 AATCGCAACG-ATAATCCGTA
1 AATCGCAACGCGT-ATCCGTA
*
2762228 AATCGCAACG-ATAATCCGTA
1 AATCGCAACGCGT-ATCCGTA
* * *
2762248 AATCGCAACGAGAATCTGTA
1 AATCGCAACGCGTATCCGTA
*
2762268 AATCACAAC
1 AATCGCAAC
2762277 ACTGAAATTT
Statistics
Matches: 313, Mismatches: 30, Indels: 12
0.88 0.08 0.03
Matches are distributed among these distances:
19 3 0.01
20 307 0.98
21 3 0.01
ACGTcount: A:0.35, C:0.27, G:0.19, T:0.20
Consensus pattern (20 bp):
AATCGCAACGCGTATCCGTA
Found at i:2763003 original size:24 final size:24
Alignment explanation
Indices: 2762959--2763005 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
2762949 AAATTTGGTC
*
2762959 TTGGTCAATATCCGGACTTTGATA
1 TTGGTCAATATCCAGACTTTGATA
*
2762983 TTGGTCAATA-CACAGATTTTGAT
1 TTGGTCAATATC-CAGACTTTGAT
2763006 GATGTTTCAG
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 1 0.05
24 19 0.95
ACGTcount: A:0.28, C:0.15, G:0.19, T:0.38
Consensus pattern (24 bp):
TTGGTCAATATCCAGACTTTGATA
Found at i:2763197 original size:12 final size:12
Alignment explanation
Indices: 2763180--2763204 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
2763170 ATATAATCCT
2763180 GAAGAAGAAAAA
1 GAAGAAGAAAAA
2763192 GAAGAAGAAAAA
1 GAAGAAGAAAAA
2763204 G
1 G
2763205 TCCCCGAAGA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.72, C:0.00, G:0.28, T:0.00
Consensus pattern (12 bp):
GAAGAAGAAAAA
Found at i:2765510 original size:19 final size:19
Alignment explanation
Indices: 2765488--2765794 Score: 367
Period size: 19 Copynumber: 17.4 Consensus size: 19
2765478 CGGAAAATAC
*
2765488 AATCGCAACGCGAAATGAA
1 AATCGCAATGCGAAATGAA
*
2765507 AATCCCAA--C---ATGAA
1 AATCGCAATGCGAAATGAA
2765521 AATCGCAATGCGGAAATGAA
1 AATCGCAATGC-GAAATGAA
*
2765541 AATCGCAA--CG--A-GAG
1 AATCGCAATGCGAAATGAA
2765555 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
*
2765574 AATCGCAA--CG--A-GAG
1 AATCGCAATGCGAAATGAA
*
2765588 AATCGCAATGCGAAATAAA
1 AATCGCAATGCGAAATGAA
2765607 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
2765626 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
*
2765645 AATCGCAA--CGACAT---
1 AATCGCAATGCGAAATGAA
*
2765659 AATCGCAATGCGAAATTAA
1 AATCGCAATGCGAAATGAA
2765678 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
2765697 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
2765716 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
2765735 AATCGCAA--CGAAA-G--
1 AATCGCAATGCGAAATGAA
2765749 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
2765768 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
2765787 AATCGCAA
1 AATCGCAA
2765795 CGAGATAATC
Statistics
Matches: 251, Mismatches: 11, Indels: 52
0.80 0.04 0.17
Matches are distributed among these distances:
14 48 0.19
15 2 0.01
16 16 0.06
17 15 0.06
18 3 0.01
19 154 0.61
20 13 0.05
ACGTcount: A:0.47, C:0.18, G:0.20, T:0.14
Consensus pattern (19 bp):
AATCGCAATGCGAAATGAA
Found at i:2765560 original size:14 final size:14
Alignment explanation
Indices: 2765541--2765595 Score: 56
Period size: 14 Copynumber: 3.6 Consensus size: 14
2765531 CGGAAATGAA
2765541 AATCGCAACGAGAG
1 AATCGCAACGAGAG
*
2765555 AATCGCAATGCGAAATGAA
1 AATCGCAA--CG--A-GAG
2765574 AATCGCAACGAGAG
1 AATCGCAACGAGAG
2765588 AATCGCAA
1 AATCGCAA
2765596 TGCGAAATAA
Statistics
Matches: 34, Mismatches: 2, Indels: 10
0.74 0.04 0.22
Matches are distributed among these distances:
14 18 0.53
15 1 0.03
16 2 0.06
17 2 0.06
18 1 0.03
19 10 0.29
ACGTcount: A:0.45, C:0.20, G:0.24, T:0.11
Consensus pattern (14 bp):
AATCGCAACGAGAG
Found at i:2765693 original size:90 final size:90
Alignment explanation
Indices: 2765488--2765816 Score: 383
Period size: 90 Copynumber: 3.8 Consensus size: 90
2765478 CGGAAAATAC
* *
2765488 AATCGCAACGCGAAATGAAAATCCCAA--C---ATGAAAATCGCAATGCGGAAATGAAAATCGCA
1 AATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAATGC-GAAATGAAAATCGCA
*
2765548 A--CG--A-GAGAATCGCAATGCGAAATG
65 ATGCGAAATGAAAATCGCAA--CGAAA-G
* *
2765572 AAAATCGCAA--CG--A-GAGAATCGCAATGCGAAATAAAAATCGCAATGCGAAATGAAAATCGC
1 --AATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGC
* *
2765632 AATGCGAAATGAAAATCGCAACGACAT
64 AATGCGAAATGAAAATCGCAACGAAAG
*
2765659 AATCGCAATGCGAAATTAAAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAA
1 AATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAA
2765724 TGCGAAATGAAAATCGCAACGAAAG
66 TGCGAAATGAAAATCGCAACGAAAG
*
2765749 AATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAA--CG--A-GATAATCGCAA
1 AATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAA
2765809 TGCGAAAT
66 TGCGAAAT
2765817 TATAAACGCA
Statistics
Matches: 215, Mismatches: 13, Indels: 31
0.83 0.05 0.12
Matches are distributed among these distances:
81 9 0.04
82 1 0.00
83 1 0.00
84 2 0.01
85 42 0.20
86 24 0.11
87 4 0.02
88 6 0.03
89 2 0.01
90 124 0.58
ACGTcount: A:0.47, C:0.18, G:0.20, T:0.15
Consensus pattern (90 bp):
AATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAA
TGCGAAATGAAAATCGCAACGAAAG
Found at i:2765832 original size:52 final size:52
Alignment explanation
Indices: 2765555--2765816 Score: 338
Period size: 52 Copynumber: 4.9 Consensus size: 52
2765545 GCAACGAGAG
* *
2765555 AATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAAATAAA
1 AATCGCAATGCGAAATGAAAATCGCAACGAGAAAATCGCAATGCGAAATGAA
*
2765607 AATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAA--CGACAT---
1 AATCGCAATGCGAAATGAAAATCGCAA--CG--A-GAAAATCGCAATGCGAAATGAA
*
2765659 AATCGCAATGCGAAATTAAAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAAAATCGCAA--CG--A-GAAAATCGCAATGCGAAATGAA
2765716 AATCGCAATGCGAAATGAAAATCGCAACGA-AAGAATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAAAATCGCAACGAGAA-AATCGCAATGCGAAATGAA
*
2765768 AATCGCAATGCGAAATGAAAATCGCAACGAGATAATCGCAATGCGAAAT
1 AATCGCAATGCGAAATGAAAATCGCAACGAGAAAATCGCAATGCGAAAT
2765817 TATAAACGCA
Statistics
Matches: 192, Mismatches: 6, Indels: 24
0.86 0.03 0.11
Matches are distributed among these distances:
51 2 0.01
52 137 0.71
53 2 0.01
54 7 0.04
55 7 0.04
56 1 0.01
57 36 0.19
ACGTcount: A:0.47, C:0.18, G:0.20, T:0.15
Consensus pattern (52 bp):
AATCGCAATGCGAAATGAAAATCGCAACGAGAAAATCGCAATGCGAAATGAA
Found at i:2765832 original size:71 final size:71
Alignment explanation
Indices: 2765488--2765832 Score: 435
Period size: 71 Copynumber: 4.9 Consensus size: 71
2765478 CGGAAAATAC
* * *
2765488 AATCGCAACGCGAAATGAAAATCCCAAC-ATGAAAATCGCAATGCGGAAATGAAAATCGCAA--C
1 AATCGCAATGCGAAATGAAAATCGCAACGA-GAAAATCGCAATGC-GAAATTAAAATCGCAATGC
*
2765550 G--A-GAG
64 GAAATGAA
* *
2765555 AATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAAATAAAAATCGCAATGCGA
1 AATCGCAATGCGAAATGAAAATCGCAACGAGAAAATCGCAATGCGAAATTAAAATCGCAATGCGA
2765620 AATGAA
66 AATGAA
* *
2765626 AATCGCAATGCGAAATGAAAATCGCAACGACATAATCGCAATGCGAAATTAAAATCGCAATGCGA
1 AATCGCAATGCGAAATGAAAATCGCAACGAGAAAATCGCAATGCGAAATTAAAATCGCAATGCGA
2765691 AATGAA
66 AATGAA
*
2765697 AATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAA--CG-AA--AGAATCGCAA
1 AATCGCAATGCGAAATGAAAATCGCAA--CG--A-GAAAATCGCAATGCGAAATTAAAATCGCAA
2765757 TGCGAAATGAA
61 TGCGAAATGAA
* *
2765768 AATCGCAATGCGAAATGAAAATCGCAACGAGATAATCGCAATGCGAAATTATAAA-CGCATTGCG
1 AATCGCAATGCGAAATGAAAATCGCAACGAGAAAATCGCAATGCGAAATTA-AAATCGCAATGCG
2765832 A
65 A
2765833 TTTTCATTTC
Statistics
Matches: 247, Mismatches: 14, Indels: 30
0.85 0.05 0.10
Matches are distributed among these distances:
66 25 0.10
67 40 0.16
68 5 0.02
69 4 0.02
70 1 0.00
71 154 0.62
72 2 0.01
73 4 0.02
74 2 0.01
75 1 0.00
76 9 0.04
ACGTcount: A:0.46, C:0.18, G:0.20, T:0.15
Consensus pattern (71 bp):
AATCGCAATGCGAAATGAAAATCGCAACGAGAAAATCGCAATGCGAAATTAAAATCGCAATGCGA
AATGAA
Found at i:2765913 original size:19 final size:19
Alignment explanation
Indices: 2765823--2765905 Score: 113
Period size: 19 Copynumber: 4.6 Consensus size: 19
2765813 AAATTATAAA
2765823 CGCATTGCGATTTTCATTT
1 CGCATTGCGATTTTCATTT
*
2765842 CCGCATTGCGA--TTC-TCT
1 -CGCATTGCGATTTTCATTT
2765859 CG--TTGCGATTTTCATTT
1 CGCATTGCGATTTTCATTT
2765876 CGCATTGCGATTTTCATTT
1 CGCATTGCGATTTTCATTT
2765895 CGCATTGCGAT
1 CGCATTGCGAT
2765906 AGTCATTTTT
Statistics
Matches: 56, Mismatches: 2, Indels: 11
0.81 0.03 0.16
Matches are distributed among these distances:
14 6 0.11
16 5 0.09
17 6 0.11
18 3 0.05
19 26 0.46
20 10 0.18
ACGTcount: A:0.14, C:0.24, G:0.18, T:0.43
Consensus pattern (19 bp):
CGCATTGCGATTTTCATTT
Found at i:2766031 original size:14 final size:14
Alignment explanation
Indices: 2766012--2766048 Score: 65
Period size: 14 Copynumber: 2.6 Consensus size: 14
2766002 CATCAATTAC
2766012 ACAAATCAACTTTT
1 ACAAATCAACTTTT
*
2766026 ACAAATCATCTTTT
1 ACAAATCAACTTTT
2766040 ACAAATCAA
1 ACAAATCAA
2766049 TTAAACAATC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.46, C:0.22, G:0.00, T:0.32
Consensus pattern (14 bp):
ACAAATCAACTTTT
Found at i:2768013 original size:19 final size:19
Alignment explanation
Indices: 2767973--2768107 Score: 110
Period size: 19 Copynumber: 7.6 Consensus size: 19
2767963 TAGTTTACTT
* *
2767973 TCGCAACACGAAACTTAAAA
1 TCGCAACGCGAAAC-CAAAA
2767993 TCGCAACGCGAAACCAAAA
1 TCGCAACGCGAAACCAAAA
**
2768012 TCGCAACGCGAAATGAAAA
1 TCGCAACGCGAAACCAAAA
*
2768031 TCGCAA--CG--A-CAGAA
1 TCGCAACGCGAAACCAAAA
2768045 TCGCAACGCGAAACCAAAA
1 TCGCAACGCGAAACCAAAA
*
2768064 TCGCAA--CG-AA--AGAA
1 TCGCAACGCGAAACCAAAA
**
2768078 TCGCAACGCGAAATGAAAA
1 TCGCAACGCGAAACCAAAA
*
2768097 TCGCAATGCGA
1 TCGCAACGCGA
2768108 TTTTGGTTTC
Statistics
Matches: 95, Mismatches: 10, Indels: 21
0.75 0.08 0.17
Matches are distributed among these distances:
14 18 0.19
15 1 0.01
16 6 0.06
17 6 0.06
18 1 0.01
19 50 0.53
20 13 0.14
ACGTcount: A:0.46, C:0.26, G:0.19, T:0.10
Consensus pattern (19 bp):
TCGCAACGCGAAACCAAAA
Found at i:2768048 original size:14 final size:14
Alignment explanation
Indices: 2768029--2768085 Score: 51
Period size: 14 Copynumber: 3.7 Consensus size: 14
2768019 GCGAAATGAA
2768029 AATCGCAACGACAG
1 AATCGCAACGACAG
*
2768043 AATCGCAACGCGAAACCAA
1 AATCGCAA--CG--A-CAG
*
2768062 AATCGCAACGAAAG
1 AATCGCAACGACAG
2768076 AATCGCAACG
1 AATCGCAACG
2768086 CGAAATGAAA
Statistics
Matches: 35, Mismatches: 3, Indels: 10
0.73 0.06 0.21
Matches are distributed among these distances:
14 19 0.54
15 1 0.03
16 2 0.06
17 2 0.06
18 1 0.03
19 10 0.29
ACGTcount: A:0.46, C:0.28, G:0.19, T:0.07
Consensus pattern (14 bp):
AATCGCAACGACAG
Found at i:2768052 original size:33 final size:33
Alignment explanation
Indices: 2768010--2768102 Score: 159
Period size: 33 Copynumber: 2.8 Consensus size: 33
2768000 GCGAAACCAA
*
2768010 AATCGCAACGCGAAATGAAAATCGCAACGACAG
1 AATCGCAACGCGAAATGAAAATCGCAACGAAAG
**
2768043 AATCGCAACGCGAAACCAAAATCGCAACGAAAG
1 AATCGCAACGCGAAATGAAAATCGCAACGAAAG
2768076 AATCGCAACGCGAAATGAAAATCGCAA
1 AATCGCAACGCGAAATGAAAATCGCAA
2768103 TGCGATTTTG
Statistics
Matches: 55, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
33 55 1.00
ACGTcount: A:0.47, C:0.25, G:0.19, T:0.09
Consensus pattern (33 bp):
AATCGCAACGCGAAATGAAAATCGCAACGAAAG
Found at i:2768099 original size:52 final size:54
Alignment explanation
Indices: 2767973--2768107 Score: 149
Period size: 52 Copynumber: 2.5 Consensus size: 54
2767963 TAGTTTACTT
*
2767973 TCGCAACACGAAACTTAAAATCGCAACGCGAAACCAAAATCGCAACGCGAAATGAAAA
1 TCGCAAC-CGAAA-TGAAAATCGCAACGCGAAACCAAAATCGCAAC-CGAAATG-AAA
*
2768031 TCGCAA-CGACA-G--AATCGCAACGCGAAACCAAAATCGCAA-CGAAA-G-AA
1 TCGCAACCGAAATGAAAATCGCAACGCGAAACCAAAATCGCAACCGAAATGAAA
*
2768078 TCGCAACGCGAAATGAAAATCGCAATGCGA
1 TCGCAAC-CGAAATGAAAATCGCAACGCGA
2768108 TTTTGGTTTC
Statistics
Matches: 68, Mismatches: 4, Indels: 16
0.77 0.05 0.18
Matches are distributed among these distances:
47 8 0.12
49 5 0.07
50 6 0.09
52 39 0.57
56 4 0.06
58 6 0.09
ACGTcount: A:0.46, C:0.26, G:0.19, T:0.10
Consensus pattern (54 bp):
TCGCAACCGAAATGAAAATCGCAACGCGAAACCAAAATCGCAACCGAAATGAAA
Found at i:2768125 original size:19 final size:19
Alignment explanation
Indices: 2768103--2768231 Score: 125
Period size: 19 Copynumber: 7.3 Consensus size: 19
2768093 AAAATCGCAA
2768103 TGCGATTTTGGTTTCGCGT
1 TGCGATTTTGGTTTCGCGT
*
2768122 TGCGATCTT-G--T--CGT
1 TGCGATTTTGGTTTCGCGT
2768136 TGCGATTTTGGTTTCGCGT
1 TGCGATTTTGGTTTCGCGT
*
2768155 TGCGATTCT-G--T--CGT
1 TGCGATTTTGGTTTCGCGT
**
2768169 TGCGATTTTCATTTCGCGT
1 TGCGATTTTGGTTTCGCGT
2768188 TGCGATTTTGGTTTCGCGT
1 TGCGATTTTGGTTTCGCGT
* *
2768207 TGCGATTTTAAGTTTCGTGT
1 TGCGATTTT-GGTTTCGCGT
2768227 TGCGA
1 TGCGA
2768232 AAGTAAACTA
Statistics
Matches: 90, Mismatches: 9, Indels: 21
0.75 0.08 0.17
Matches are distributed among these distances:
14 22 0.24
15 1 0.01
16 2 0.02
17 2 0.02
18 2 0.02
19 48 0.53
20 13 0.14
ACGTcount: A:0.09, C:0.17, G:0.29, T:0.46
Consensus pattern (19 bp):
TGCGATTTTGGTTTCGCGT
Found at i:2768145 original size:33 final size:33
Alignment explanation
Indices: 2768103--2768194 Score: 150
Period size: 33 Copynumber: 2.8 Consensus size: 33
2768093 AAAATCGCAA
2768103 TGCGATTTTGGTTTCGCGTTGCGA-TCTTGTCGT
1 TGCGATTTTGGTTTCGCGTTGCGATTC-TGTCGT
2768136 TGCGATTTTGGTTTCGCGTTGCGATTCTGTCGT
1 TGCGATTTTGGTTTCGCGTTGCGATTCTGTCGT
**
2768169 TGCGATTTTCATTTCGCGTTGCGATT
1 TGCGATTTTGGTTTCGCGTTGCGATT
2768195 TTGGTTTCGC
Statistics
Matches: 56, Mismatches: 2, Indels: 2
0.93 0.03 0.03
Matches are distributed among these distances:
33 54 0.96
34 2 0.04
ACGTcount: A:0.08, C:0.18, G:0.28, T:0.46
Consensus pattern (33 bp):
TGCGATTTTGGTTTCGCGTTGCGATTCTGTCGT
Found at i:2768577 original size:93 final size:93
Alignment explanation
Indices: 2768275--2769022 Score: 1452
Period size: 93 Copynumber: 8.1 Consensus size: 93
2768265 TTGAATGGAT
2768275 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
1 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
2768340 AGTTTAGCAGAATTGGCAGCAACCGAAC
66 AGTTTAGCAGAATTGGCAGCAACCGAAC
2768368 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACA--G-TAAAGAATACAC
1 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
2768430 AGTTTAGCAGAATTGGCAGCAACCGAAC
66 AGTTTAGCAGAATTGGCAGCAACCGAAC
2768458 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
1 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
2768523 AGTTTAGCAGAATTGGCAGCAACCGAAC
66 AGTTTAGCAGAATTGGCAGCAACCGAAC
2768551 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATA-TATTTCACAGTGTTAAAGAATACAC
1 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
2768615 AGTTTAGCAGAATTGGCAGCAACCGAAC
66 AGTTTAGCAGAATTGGCAGCAACCGAAC
2768643 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
1 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
2768708 AGTTTAGCAGAATTGGCAGCAACCGAAC
66 AGTTTAGCAGAATTGGCAGCAACCGAAC
2768736 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
1 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
2768801 AGTTTAGCAGAATTGGCAGCAACCGAAC
66 AGTTTAGCAGAATTGGCAGCAACCGAAC
2768829 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATA-TATTTCACAGTGTTAAAGAATACAC
1 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
2768893 AGTTTAGCAGAATTGGCAGCAACCGAAC
66 AGTTTAGCAGAATTGGCAGCAACCGAAC
2768921 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
1 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
*
2768986 AGTTTAGCAGAATTGGCAGCAACCGAAT
66 AGTTTAGCAGAATTGGCAGCAACCGAAC
2769014 AAATTTACT
1 AAATTTACT
2769023 AAGCAATCTA
Statistics
Matches: 649, Mismatches: 1, Indels: 10
0.98 0.00 0.02
Matches are distributed among these distances:
90 89 0.14
91 1 0.00
92 185 0.29
93 374 0.58
ACGTcount: A:0.47, C:0.19, G:0.13, T:0.22
Consensus pattern (93 bp):
AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
AGTTTAGCAGAATTGGCAGCAACCGAAC
Found at i:2768730 original size:185 final size:186
Alignment explanation
Indices: 2768275--2769022 Score: 1452
Period size: 185 Copynumber: 4.0 Consensus size: 186
2768265 TTGAATGGAT
2768275 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
1 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
2768340 AGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAA
66 AGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAA
2768405 TACTATTTCACA--G-TAAAGAATACACAGTTTAGCAGAATTGGCAGCAACCGAAC
131 TACTATTTCACAGTGTTAAAGAATACACAGTTTAGCAGAATTGGCAGCAACCGAAC
2768458 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
1 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
2768523 AGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAA
66 AGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAA
2768588 TA-TATTTCACAGTGTTAAAGAATACACAGTTTAGCAGAATTGGCAGCAACCGAAC
131 TACTATTTCACAGTGTTAAAGAATACACAGTTTAGCAGAATTGGCAGCAACCGAAC
2768643 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
1 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
2768708 AGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAA
66 AGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAA
2768773 TACTATTTCACAGTGTTAAAGAATACACAGTTTAGCAGAATTGGCAGCAACCGAAC
131 TACTATTTCACAGTGTTAAAGAATACACAGTTTAGCAGAATTGGCAGCAACCGAAC
2768829 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATA-TATTTCACAGTGTTAAAGAATACAC
1 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
2768893 AGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAA
66 AGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAA
*
2768958 TACTATTTCACAGTGTTAAAGAATACACAGTTTAGCAGAATTGGCAGCAACCGAAT
131 TACTATTTCACAGTGTTAAAGAATACACAGTTTAGCAGAATTGGCAGCAACCGAAC
2769014 AAATTTACT
1 AAATTTACT
2769023 AAGCAATCTA
Statistics
Matches: 560, Mismatches: 1, Indels: 6
0.99 0.00 0.01
Matches are distributed among these distances:
182 9 0.02
183 132 0.24
184 1 0.00
185 326 0.58
186 92 0.16
ACGTcount: A:0.47, C:0.19, G:0.13, T:0.22
Consensus pattern (186 bp):
AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
AGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAA
TACTATTTCACAGTGTTAAAGAATACACAGTTTAGCAGAATTGGCAGCAACCGAAC
Found at i:2768799 original size:278 final size:278
Alignment explanation
Indices: 2768275--2769022 Score: 1457
Period size: 278 Copynumber: 2.7 Consensus size: 278
2768265 TTGAATGGAT
2768275 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
1 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATA-TATTTCACAGTGTTAAAGAATACAC
2768340 AGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAA
65 AGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAA
2768405 TACTATTTCACA--G-TAAAGAATACACAGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACT
130 TACTATTTCACAGTGTTAAAGAATACACAGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACT
2768467 TTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTTTAGCA
195 TTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTTTAGCA
2768532 GAATTGGCAGCAACCGAAC
260 GAATTGGCAGCAACCGAAC
2768551 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATATATTTCACAGTGTTAAAGAATACACA
1 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATATATTTCACAGTGTTAAAGAATACACA
2768616 GTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAAT
66 GTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAAT
2768681 ACTATTTCACAGTGTTAAAGAATACACAGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTT
131 ACTATTTCACAGTGTTAAAGAATACACAGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTT
2768746 TCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTTTAGCAG
196 TCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTTTAGCAG
2768811 AATTGGCAGCAACCGAAC
261 AATTGGCAGCAACCGAAC
2768829 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATATATTTCACAGTGTTAAAGAATACACA
1 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATATATTTCACAGTGTTAAAGAATACACA
2768894 GTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAAT
66 GTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAAT
*
2768959 ACTATTTCACAGTGTTAAAGAATACACAGTTTAGCAGAATTGGCAGCAACCGAATAAATTTACT
131 ACTATTTCACAGTGTTAAAGAATACACAGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACT
2769023 AAGCAATCTA
Statistics
Matches: 468, Mismatches: 1, Indels: 4
0.99 0.00 0.01
Matches are distributed among these distances:
275 102 0.22
276 39 0.08
277 1 0.00
278 326 0.70
ACGTcount: A:0.47, C:0.19, G:0.13, T:0.22
Consensus pattern (278 bp):
AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATATATTTCACAGTGTTAAAGAATACACA
GTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAAT
ACTATTTCACAGTGTTAAAGAATACACAGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTT
TCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTTTAGCAG
AATTGGCAGCAACCGAAC
Found at i:2770746 original size:14 final size:14
Alignment explanation
Indices: 2770727--2770816 Score: 81
Period size: 14 Copynumber: 5.7 Consensus size: 14
2770717 TTGAAATGAA
2770727 AATCGCAACGAGAG
1 AATCGCAACGAGAG
2770741 AATCGCAACGCGAGATG
1 AATCGCAA--CGAGA-G
2770758 ACAATCGCAACGAGAG
1 --AATCGCAACGAGAG
*
2770774 AATCGCAACGCGAAATGAA
1 AATCGCAA--CG--A-GAG
2770793 AATCGCAACGAGAG
1 AATCGCAACGAGAG
2770807 AATCGCAACG
1 AATCGCAACG
2770817 CGAAATGAAA
Statistics
Matches: 64, Mismatches: 2, Indels: 20
0.74 0.02 0.23
Matches are distributed among these distances:
14 28 0.44
15 1 0.02
16 8 0.12
17 8 0.12
18 1 0.02
19 18 0.28
ACGTcount: A:0.42, C:0.23, G:0.26, T:0.09
Consensus pattern (14 bp):
AATCGCAACGAGAG
Found at i:2770764 original size:33 final size:33
Alignment explanation
Indices: 2770719--2770833 Score: 212
Period size: 33 Copynumber: 3.5 Consensus size: 33
2770709 TCTTTTGGTT
2770719 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
* *
2770752 GAGATGACAATCGCAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
2770785 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
2770818 GAAATGAAAATCGCAA
1 GAAATGAAAATCGCAA
2770834 TGCGATTTTG
Statistics
Matches: 78, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 78 1.00
ACGTcount: A:0.45, C:0.21, G:0.24, T:0.10
Consensus pattern (33 bp):
GAAATGAAAATCGCAACGAGAGAATCGCAACGC
Found at i:2770765 original size:19 final size:18
Alignment explanation
Indices: 2770726--2770838 Score: 88
Period size: 19 Copynumber: 6.8 Consensus size: 18
2770716 GTTGAAATGA
2770726 AAATCGCAA--CGAGA-G
1 AAATCGCAACGCGAGATG
2770741 -AATCGCAACGCGAGATG
1 AAATCGCAACGCGAGATG
2770758 ACAATCGCAA--CGAGA-G
1 A-AATCGCAACGCGAGATG
*
2770774 -AATCGCAACGCGAAATG
1 AAATCGCAACGCGAGATG
2770791 AAAATCGCAA--CGAGA-G
1 -AAATCGCAACGCGAGATG
*
2770807 -AATCGCAACGCGAAATG
1 AAATCGCAACGCGAGATG
*
2770824 AAAATCGCAATGCGA
1 -AAATCGCAACGCGA
2770839 TTTTGGTTTC
Statistics
Matches: 79, Mismatches: 4, Indels: 26
0.72 0.04 0.24
Matches are distributed among these distances:
14 24 0.30
16 15 0.19
17 12 0.15
19 28 0.35
ACGTcount: A:0.43, C:0.22, G:0.25, T:0.10
Consensus pattern (18 bp):
AAATCGCAACGCGAGATG
Found at i:2770869 original size:14 final size:14
Alignment explanation
Indices: 2770850--2770904 Score: 56
Period size: 14 Copynumber: 3.6 Consensus size: 14
2770840 TTTGGTTTCG
2770850 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
*
2770864 CGTTGCGATTTTCATTTCG
1 CGTTGCGA--TTC---TCT
2770883 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
2770897 CGTTGCGA
1 CGTTGCGA
2770905 CAGTCATTCT
Statistics
Matches: 34, Mismatches: 2, Indels: 10
0.74 0.04 0.22
Matches are distributed among these distances:
14 18 0.53
16 3 0.09
17 3 0.09
19 10 0.29
ACGTcount: A:0.09, C:0.25, G:0.24, T:0.42
Consensus pattern (14 bp):
CGTTGCGATTCTCT
Found at i:2770882 original size:33 final size:33
Alignment explanation
Indices: 2770834--2770904 Score: 124
Period size: 33 Copynumber: 2.2 Consensus size: 33
2770824 AAAATCGCAA
**
2770834 TGCGATTTTGGTTTCGCGTTGCGATTCTCTCGT
1 TGCGATTTTCATTTCGCGTTGCGATTCTCTCGT
2770867 TGCGATTTTCATTTCGCGTTGCGATTCTCTCGT
1 TGCGATTTTCATTTCGCGTTGCGATTCTCTCGT
2770900 TGCGA
1 TGCGA
2770905 CAGTCATTCT
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 36 1.00
ACGTcount: A:0.08, C:0.23, G:0.25, T:0.44
Consensus pattern (33 bp):
TGCGATTTTCATTTCGCGTTGCGATTCTCTCGT
Found at i:2770912 original size:33 final size:33
Alignment explanation
Indices: 2770845--2770926 Score: 119
Period size: 33 Copynumber: 2.5 Consensus size: 33
2770835 GCGATTTTGG
***
2770845 TTTCGCGTTGCGATTCTCTCGTTGCGATTTTCA
1 TTTCGCGTTGCGATTCTCTCGTTGCGACAGTCA
2770878 TTTCGCGTTGCGATTCTCTCGTTGCGACAGTCA
1 TTTCGCGTTGCGATTCTCTCGTTGCGACAGTCA
*
2770911 TTCTCTCGTTGCGATT
1 TT-TCGCGTTGCGATT
2770927 TTCATTTATC
Statistics
Matches: 44, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
33 32 0.73
34 12 0.27
ACGTcount: A:0.10, C:0.26, G:0.22, T:0.43
Consensus pattern (33 bp):
TTTCGCGTTGCGATTCTCTCGTTGCGACAGTCA
Found at i:2770931 original size:20 final size:20
Alignment explanation
Indices: 2770857--2770945 Score: 75
Period size: 20 Copynumber: 4.8 Consensus size: 20
2770847 TCGCGTTGCG
2770857 ATTCTCTCGTTGCGATTTTC
1 ATTCTCTCGTTGCGATTTTC
*
2770877 ATT-TCGCGTTGCG------
1 ATTCTCTCGTTGCGATTTTC
***
2770890 ATTCTCTCGTTGCGACAGTC
1 ATTCTCTCGTTGCGATTTTC
2770910 ATTCTCTCGTTGCGATTTTC
1 ATTCTCTCGTTGCGATTTTC
*
2770930 ATTTATCTCGTTGCGA
1 A-TTCTCTCGTTGCGA
2770946 CTCTTCTGCA
Statistics
Matches: 55, Mismatches: 6, Indels: 15
0.72 0.08 0.20
Matches are distributed among these distances:
13 3 0.05
14 9 0.16
19 9 0.16
20 21 0.38
21 13 0.24
ACGTcount: A:0.12, C:0.25, G:0.19, T:0.44
Consensus pattern (20 bp):
ATTCTCTCGTTGCGATTTTC
Found at i:2771071 original size:33 final size:33
Alignment explanation
Indices: 2771025--2771095 Score: 106
Period size: 33 Copynumber: 2.2 Consensus size: 33
2771015 AATACTAACT
* *
2771025 TGAAAATCGCAACGAGAGAATAGCAACGCGAAA
1 TGAAAATCACAACGACAGAATAGCAACGCGAAA
* *
2771058 TGAAAATCACAACGACAGAATCGTAACGCGAAA
1 TGAAAATCACAACGACAGAATAGCAACGCGAAA
2771091 TGAAA
1 TGAAA
2771096 TCTAAGTGAA
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
33 34 1.00
ACGTcount: A:0.49, C:0.18, G:0.21, T:0.11
Consensus pattern (33 bp):
TGAAAATCACAACGACAGAATAGCAACGCGAAA
Found at i:2771329 original size:22 final size:22
Alignment explanation
Indices: 2771277--2771331 Score: 74
Period size: 22 Copynumber: 2.5 Consensus size: 22
2771267 TGGTTGTGAG
**
2771277 GGATTTCGCCGGAGATGGGGAC
1 GGATTTCTTCGGAGATGGGGAC
**
2771299 GGAAATCTTCGGAGATGGGGAC
1 GGATTTCTTCGGAGATGGGGAC
2771321 GGATTTCTTCG
1 GGATTTCTTCG
2771332 CCGTAGAGAG
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.20, C:0.16, G:0.40, T:0.24
Consensus pattern (22 bp):
GGATTTCTTCGGAGATGGGGAC
Found at i:2771502 original size:20 final size:20
Alignment explanation
Indices: 2771477--2771650 Score: 217
Period size: 20 Copynumber: 8.7 Consensus size: 20
2771467 CTTTAAATAT
2771477 CGCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
* *
2771497 CGCGTTGCGATTTTATGTATTA
1 CGCGTTGCGA-TTTACGGA-TA
*
2771519 -TCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
*
2771538 CGCGTTGCGATATACGGATA
1 CGCGTTGCGATTTACGGATA
* **
2771558 CGCATTGCGATTTACCCATA
1 CGCGTTGCGATTTACGGATA
2771578 CGCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
*
2771598 CACGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
* *
2771618 CGCGTTGCGATTTATGTG-TT
1 CGCGTTGCGATTTACG-GATA
2771638 CGCGTTGCGATTT
1 CGCGTTGCGATTT
2771651 TTCATATTCG
Statistics
Matches: 132, Mismatches: 18, Indels: 8
0.84 0.11 0.05
Matches are distributed among these distances:
19 2 0.02
20 113 0.86
21 15 0.11
22 2 0.02
ACGTcount: A:0.20, C:0.20, G:0.26, T:0.34
Consensus pattern (20 bp):
CGCGTTGCGATTTACGGATA
Found at i:2771642 original size:60 final size:60
Alignment explanation
Indices: 2771479--2771650 Score: 245
Period size: 60 Copynumber: 2.9 Consensus size: 60
2771469 TTAAATATCG
** *
2771479 CGTTGCGATTTACGGATACGCGTTGCGATTTTATGTATTATCGTTGCGATTTACGGATACG
1 CGTTGCGATTTACGGATACGCGTTGCGA-TTTATGTATTCGCGTTGCGATTTACGGATACA
* * *** *
2771540 CGTTGCGATATACGGATACGCATTGCGATTTACCCATACGCGTTGCGATTTACGGATACA
1 CGTTGCGATTTACGGATACGCGTTGCGATTTATGTATTCGCGTTGCGATTTACGGATACA
*
2771600 CGTTGCGATTTACGGATACGCGTTGCGATTTATGTGTTCGCGTTGCGATTT
1 CGTTGCGATTTACGGATACGCGTTGCGATTTATGTATTCGCGTTGCGATTT
2771651 TTCATATTCG
Statistics
Matches: 95, Mismatches: 16, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
60 69 0.73
61 26 0.27
ACGTcount: A:0.20, C:0.19, G:0.26, T:0.35
Consensus pattern (60 bp):
CGTTGCGATTTACGGATACGCGTTGCGATTTATGTATTCGCGTTGCGATTTACGGATACA
Found at i:2771662 original size:21 final size:20
Alignment explanation
Indices: 2771476--2771670 Score: 75
Period size: 20 Copynumber: 9.7 Consensus size: 20
2771466 GCTTTAAATA
***
2771476 TCGCGTTGCGATTTACGGAT
1 TCGCGTTGCGATTTATATAT
* *
2771496 ACGCGTTGCGATTTTATGTAT
1 TCGCGTTGCGA-TTTATATAT
** ***
2771517 TATCGTTGCGATTTACGGAT
1 TCGCGTTGCGATTTATATAT
* * ***
2771537 ACGCGTTGCGATATACGGAT
1 TCGCGTTGCGATTTATATAT
* * ***
2771557 ACGCATTGCGATTTACCCAT
1 TCGCGTTGCGATTTATATAT
* ***
2771577 ACGCGTTGCGATTTACGGAT
1 TCGCGTTGCGATTTATATAT
* * ***
2771597 ACACGTTGCGATTTACGGAT
1 TCGCGTTGCGATTTATATAT
* * *
2771617 ACGCGTTGCGATTTATGTGT
1 TCGCGTTGCGATTTATATAT
*
2771637 TCGCGTTGCGATTTTTCATAT
1 TCGCGTTGCGATTTAT-ATAT
2771658 TCGCGTTGCGATT
1 TCGCGTTGCGATT
2771671 ATGGAAAATC
Statistics
Matches: 145, Mismatches: 28, Indels: 3
0.82 0.16 0.02
Matches are distributed among these distances:
20 115 0.79
21 30 0.21
ACGTcount: A:0.19, C:0.19, G:0.26, T:0.36
Consensus pattern (20 bp):
TCGCGTTGCGATTTATATAT
Found at i:2771751 original size:20 final size:20
Alignment explanation
Indices: 2771726--2771777 Score: 95
Period size: 20 Copynumber: 2.6 Consensus size: 20
2771716 AAGAATCGCG
*
2771726 TTGCGATTTTGGAAACTGAT
1 TTGCGATTCTGGAAACTGAT
2771746 TTGCGATTCTGGAAACTGAT
1 TTGCGATTCTGGAAACTGAT
2771766 TTGCGATTCTGG
1 TTGCGATTCTGG
2771778 GGATCGCGTT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.21, C:0.13, G:0.27, T:0.38
Consensus pattern (20 bp):
TTGCGATTCTGGAAACTGAT
Found at i:2773238 original size:2 final size:2
Alignment explanation
Indices: 2773231--2773259 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
2773221 GACTATTTAA
2773231 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
2773260 ATTTATAATT
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:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Done.