Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold228
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: 4123243
ACGTcount: A:0.34, C:0.16, G:0.16, T:0.33
File 17 of 27
Found at i:2487222 original size:51 final size:51
Alignment explanation
Indices: 2487166--2487284 Score: 166
Period size: 51 Copynumber: 2.3 Consensus size: 51
2487156 TATTTTCGAG
* * * *
2487166 GGGATACTTCAACCCCGATTCTATTTCTAAAATACCAATTTTTCACAATCA
1 GGGATACTCCAACCCCGATTCTATTTCCAAAACACCAATTTCTCACAATCA
* * * *
2487217 GGGATACTCCAACTCCGATTTTATTTCCAAAACACCGATTTCTCACAATCG
1 GGGATACTCCAACCCCGATTCTATTTCCAAAACACCAATTTCTCACAATCA
2487268 GGGATACTCCAACCCCG
1 GGGATACTCCAACCCCG
2487285 CTATTTTCAC
Statistics
Matches: 59, Mismatches: 9, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
51 59 1.00
ACGTcount: A:0.30, C:0.29, G:0.12, T:0.29
Consensus pattern (51 bp):
GGGATACTCCAACCCCGATTCTATTTCCAAAACACCAATTTCTCACAATCA
Found at i:2487300 original size:79 final size:79
Alignment explanation
Indices: 2487217--2487363 Score: 208
Period size: 79 Copynumber: 1.9 Consensus size: 79
2487207 TTCACAATCA
*
2487217 GGGATACTCCAACTCC-GATTTTATTTCCAAAACACCGA-TTTCTCACAATCGGGGATACTCCAA
1 GGGATACTCCAAC-CCTGATTTTATTTCCAAAACACCGATTTTCT-ACAATCAGGGATACTCCAA
2487280 CCCCGCTATTTTCACG
64 CCCCGCTATTTTCACG
* * * * *
2487296 GGGATACTCCAACCCTGATTTTATTTTCAAAATACCGATTTTCTATAATCAGGGATCCTCCAGCC
1 GGGATACTCCAACCCTGATTTTATTTCCAAAACACCGATTTTCTACAATCAGGGATACTCCAACC
2487361 CCG
66 CCG
2487364 TTGTTATCAC
Statistics
Matches: 60, Mismatches: 6, Indels: 4
0.86 0.09 0.06
Matches are distributed among these distances:
78 2 0.03
79 53 0.88
80 5 0.08
ACGTcount: A:0.27, C:0.30, G:0.14, T:0.29
Consensus pattern (79 bp):
GGGATACTCCAACCCTGATTTTATTTCCAAAACACCGATTTTCTACAATCAGGGATACTCCAACC
CCGCTATTTTCACG
Found at i:2487377 original size:130 final size:130
Alignment explanation
Indices: 2487137--2487378 Score: 312
Period size: 130 Copynumber: 1.9 Consensus size: 130
2487127 TTATTTCATG
* * *
2487137 GGGGATACTCCAATCCCGTTATTTTCGAGGGGATACTTCAACCCCGATTCTATTTCTAAAATACC
1 GGGGATACTCCAACCCCGCTATTTTCGAGGGGATACTCCAACCCCGATTCTATTTCTAAAATACC
* **
2487202 AATTTTTCACAATCAGGGATACTCCAACTCCGATTTTATTTCCAAAACACCGATTTCTCACAATC
66 AATTTTTCACAATCAGGGATACTCCAACCCCGATTTTATCACCAAAACACCGATTTCTCACAATC
* *
2487267 GGGGATACTCCAACCCCGCTATTTTC-ACGGGGATACTCCAACCCTGATTTTATTT-TCAAAATA
1 GGGGATACTCCAACCCCGCTATTTTCGA-GGGGATACTCCAACCCCGATTCTATTTCT-AAAATA
* * * *
2487330 CCGA-TTTTCTATAATCAGGGATCCTCCAGCCCCG-TTGTTATCACCAAAA
64 CCAATTTTTC-ACAATCAGGGATACTCCAACCCCGATT-TTATCACCAAAA
2487379 TATTAAATTT
Statistics
Matches: 96, Mismatches: 12, Indels: 8
0.83 0.10 0.07
Matches are distributed among these distances:
129 9 0.09
130 87 0.91
ACGTcount: A:0.28, C:0.28, G:0.14, T:0.31
Consensus pattern (130 bp):
GGGGATACTCCAACCCCGCTATTTTCGAGGGGATACTCCAACCCCGATTCTATTTCTAAAATACC
AATTTTTCACAATCAGGGATACTCCAACCCCGATTTTATCACCAAAACACCGATTTCTCACAATC
Found at i:2498043 original size:17 final size:16
Alignment explanation
Indices: 2498023--2498075 Score: 56
Period size: 17 Copynumber: 3.2 Consensus size: 16
2498013 GAAATATTAT
2498023 ATATTTATATAATTTTA
1 ATATTTATATAA-TTTA
2498040 ATATGTTA-ATAATTT-
1 ATAT-TTATATAATTTA
*
2498055 ATATTATATAAAATTTA
1 ATATT-TATATAATTTA
2498072 ATAT
1 ATAT
2498076 ATTCGTTTAT
Statistics
Matches: 31, Mismatches: 1, Indels: 8
0.77 0.03 0.20
Matches are distributed among these distances:
14 1 0.03
15 6 0.19
16 9 0.29
17 12 0.39
18 3 0.10
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.53
Consensus pattern (16 bp):
ATATTTATATAATTTA
Found at i:2498377 original size:18 final size:19
Alignment explanation
Indices: 2498344--2498380 Score: 58
Period size: 18 Copynumber: 2.0 Consensus size: 19
2498334 ATTTAATTGG
2498344 AAAAATATATTATTAATAT
1 AAAAATATATTATTAATAT
*
2498363 AAAAATAT-TTTTTAATAT
1 AAAAATATATTATTAATAT
2498381 TTTTTAAATA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 9 0.53
19 8 0.47
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (19 bp):
AAAAATATATTATTAATAT
Found at i:2501842 original size:25 final size:24
Alignment explanation
Indices: 2501806--2501857 Score: 77
Period size: 25 Copynumber: 2.1 Consensus size: 24
2501796 CTTTGGATAG
*
2501806 TATTATATTACATACGTATAATAT
1 TATTATATTACATACATATAATAT
*
2501830 TATTGATATTACATACATATACTAT
1 TATT-ATATTACATACATATAATAT
2501855 TAT
1 TAT
2501858 AGAATTATGT
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
24 4 0.16
25 21 0.84
ACGTcount: A:0.40, C:0.10, G:0.04, T:0.46
Consensus pattern (24 bp):
TATTATATTACATACATATAATAT
Found at i:2502899 original size:21 final size:21
Alignment explanation
Indices: 2502875--2502945 Score: 54
Period size: 21 Copynumber: 3.2 Consensus size: 21
2502865 AATATTCAAT
2502875 TCTATATTATTCATTATCATC
1 TCTATATTATTCATTATCATC
* * * *
2502896 TCTATTCAATAATAAATATCCAAT-
1 TCTA-T-ATTATTCATTAT-C-ATC
*
2502920 TCTATATTATTCATTGTCATC
1 TCTATATTATTCATTATCATC
2502941 TCTAT
1 TCTAT
2502946 TTGCCGGAAA
Statistics
Matches: 36, Mismatches: 9, Indels: 10
0.65 0.16 0.18
Matches are distributed among these distances:
20 2 0.06
21 10 0.28
22 8 0.22
23 9 0.25
24 5 0.14
25 2 0.06
ACGTcount: A:0.32, C:0.18, G:0.01, T:0.48
Consensus pattern (21 bp):
TCTATATTATTCATTATCATC
Found at i:2506100 original size:15 final size:16
Alignment explanation
Indices: 2506066--2506128 Score: 69
Period size: 15 Copynumber: 4.1 Consensus size: 16
2506056 TTTGATTTAT
*
2506066 TTTTAATTTAATTAAAA
1 TTTTAA-TTAATTTAAA
*
2506083 TTTTAA-TAATTTATA
1 TTTTAATTAATTTAAA
2506098 -TTTAATTAATTTAAA
1 TTTTAATTAATTTAAA
*
2506113 TTTTAA-AAATTTAAA
1 TTTTAATTAATTTAAA
2506128 T
1 T
2506129 ATAAAAGGAT
Statistics
Matches: 40, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
14 5 0.12
15 24 0.60
16 5 0.12
17 6 0.15
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (16 bp):
TTTTAATTAATTTAAA
Found at i:2506114 original size:30 final size:31
Alignment explanation
Indices: 2506060--2506125 Score: 98
Period size: 30 Copynumber: 2.2 Consensus size: 31
2506050 GGTTTATTTG
* *
2506060 ATTTATTTTTAATTTAATTAAAATTTTAATA
1 ATTTATATTTAATTTAATTAAAATTTTAAAA
*
2506091 ATTTATATTTAA-TTAATTTAAATTTTAAAA
1 ATTTATATTTAATTTAATTAAAATTTTAAAA
2506121 ATTTA
1 ATTTA
2506126 AATATAAAAG
Statistics
Matches: 32, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
30 21 0.66
31 11 0.34
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (31 bp):
ATTTATATTTAATTTAATTAAAATTTTAAAA
Found at i:2506211 original size:23 final size:23
Alignment explanation
Indices: 2506185--2506238 Score: 58
Period size: 23 Copynumber: 2.3 Consensus size: 23
2506175 AAATATTTTA
*
2506185 AACTTCAAATGA-CTTGAATAATT
1 AACTT-AAATGAGCTTAAATAATT
2506208 AACTTATAAT-AGCTTAAATAATT
1 AACTTA-AATGAGCTTAAATAATT
*
2506231 AATTTAAA
1 AACTTAAA
2506239 ATGATCTAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
22 4 0.15
23 23 0.85
ACGTcount: A:0.48, C:0.09, G:0.06, T:0.37
Consensus pattern (23 bp):
AACTTAAATGAGCTTAAATAATT
Found at i:2509088 original size:20 final size:20
Alignment explanation
Indices: 2509031--2509088 Score: 89
Period size: 20 Copynumber: 2.9 Consensus size: 20
2509021 ACTTCCAAGG
*
2509031 AAATGTATCGATACATTAAT
1 AAATGTATCGATACATTTAT
2509051 AAATGTATCGATACATTTAT
1 AAATGTATCGATACATTTAT
* *
2509071 CATTGTATCGATACATTT
1 AAATGTATCGATACATTT
2509089 GAGAATTTTA
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 35 1.00
ACGTcount: A:0.38, C:0.12, G:0.10, T:0.40
Consensus pattern (20 bp):
AAATGTATCGATACATTTAT
Found at i:2511583 original size:24 final size:25
Alignment explanation
Indices: 2511529--2511587 Score: 72
Period size: 22 Copynumber: 2.5 Consensus size: 25
2511519 TTACGAAATC
* *
2511529 TCTCC-CTTTTTATTTTCGAAATAA
1 TCTCCTCTTTTTAGTTTCAAAATAA
2511553 TCT--TCTTTTT-GTTTCAAAATAA
1 TCTCCTCTTTTTAGTTTCAAAATAA
2511575 TCTCCTCTTTTTA
1 TCTCCTCTTTTTA
2511588 TATAAACAAA
Statistics
Matches: 29, Mismatches: 2, Indels: 7
0.76 0.05 0.18
Matches are distributed among these distances:
22 13 0.45
23 6 0.21
24 10 0.34
ACGTcount: A:0.22, C:0.20, G:0.03, T:0.54
Consensus pattern (25 bp):
TCTCCTCTTTTTAGTTTCAAAATAA
Found at i:2512900 original size:13 final size:13
Alignment explanation
Indices: 2512882--2512907 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
2512872 CAATTTTTGG
2512882 TGTATCGATACAT
1 TGTATCGATACAT
2512895 TGTATCGATACAT
1 TGTATCGATACAT
2512908 ACTTGGTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:2512919 original size:32 final size:33
Alignment explanation
Indices: 2512862--2512925 Score: 103
Period size: 32 Copynumber: 2.0 Consensus size: 33
2512852 TACAAGCCAA
**
2512862 TGTATCGATACAATTTTTGGTGTATCGATACAT
1 TGTATCGATACAATACTTGGTGTATCGATACAT
2512895 TGTATCGATAC-ATACTTGGTGTATCGATACA
1 TGTATCGATACAATACTTGGTGTATCGATACA
2512926 AGTTTGGCTA
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
32 18 0.62
33 11 0.38
ACGTcount: A:0.28, C:0.14, G:0.19, T:0.39
Consensus pattern (33 bp):
TGTATCGATACAATACTTGGTGTATCGATACAT
Found at i:2512932 original size:19 final size:18
Alignment explanation
Indices: 2512862--2512932 Score: 62
Period size: 19 Copynumber: 4.0 Consensus size: 18
2512852 TACAAGCCAA
2512862 TGTATCGATACAATTTTTGG
1 TGTATCGATACAA--TTTGG
2512882 TGTATCGATAC-A--T--
1 TGTATCGATACAATTTGG
*
2512895 TGTATCGATACATACTTGG
1 TGTATCGATACA-ATTTGG
2512914 TGTATCGATACAAGTTTGG
1 TGTATCGATACAA-TTTGG
2512933 CTACTGCCAA
Statistics
Matches: 43, Mismatches: 1, Indels: 15
0.73 0.02 0.25
Matches are distributed among these distances:
13 11 0.26
15 2 0.05
17 1 0.02
18 1 0.02
19 17 0.40
20 11 0.26
ACGTcount: A:0.27, C:0.13, G:0.21, T:0.39
Consensus pattern (18 bp):
TGTATCGATACAATTTGG
Found at i:2515477 original size:13 final size:13
Alignment explanation
Indices: 2515459--2515484 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
2515449 ATAATCACCC
2515459 TGTATCGATACAA
1 TGTATCGATACAA
2515472 TGTATCGATACAA
1 TGTATCGATACAA
2515485 AGAAAAATGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:2519426 original size:21 final size:21
Alignment explanation
Indices: 2519397--2519441 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
2519387 AAGTTTTTAT
*
2519397 TTTTCTTAGCTAAC-TCATTA
1 TTTTCTTAGCCAACTTCATTA
*
2519417 TTTTCATTAGCCAACTTCTTTA
1 TTTTC-TTAGCCAACTTCATTA
2519439 TTT
1 TTT
2519442 CAACTTGCAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 5 0.24
21 8 0.38
22 8 0.38
ACGTcount: A:0.22, C:0.20, G:0.04, T:0.53
Consensus pattern (21 bp):
TTTTCTTAGCCAACTTCATTA
Found at i:2521683 original size:13 final size:13
Alignment explanation
Indices: 2521665--2521690 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
2521655 CAATTTTTGG
2521665 TGTATCGATACAT
1 TGTATCGATACAT
2521678 TGTATCGATACAT
1 TGTATCGATACAT
2521691 ACTTGGTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:2521702 original size:32 final size:33
Alignment explanation
Indices: 2521645--2521708 Score: 103
Period size: 32 Copynumber: 2.0 Consensus size: 33
2521635 TACAAGCCAA
**
2521645 TGTATCGATACAATTTTTGGTGTATCGATACAT
1 TGTATCGATACAATACTTGGTGTATCGATACAT
2521678 TGTATCGATAC-ATACTTGGTGTATCGATACA
1 TGTATCGATACAATACTTGGTGTATCGATACA
2521709 AGTTTGGCTA
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
32 18 0.62
33 11 0.38
ACGTcount: A:0.28, C:0.14, G:0.19, T:0.39
Consensus pattern (33 bp):
TGTATCGATACAATACTTGGTGTATCGATACAT
Found at i:2521715 original size:19 final size:18
Alignment explanation
Indices: 2521645--2521715 Score: 62
Period size: 19 Copynumber: 4.0 Consensus size: 18
2521635 TACAAGCCAA
2521645 TGTATCGATACAATTTTTGG
1 TGTATCGATACAA--TTTGG
2521665 TGTATCGATAC-A--T--
1 TGTATCGATACAATTTGG
*
2521678 TGTATCGATACATACTTGG
1 TGTATCGATACA-ATTTGG
2521697 TGTATCGATACAAGTTTGG
1 TGTATCGATACAA-TTTGG
2521716 CTACTGCCAA
Statistics
Matches: 43, Mismatches: 1, Indels: 15
0.73 0.02 0.25
Matches are distributed among these distances:
13 11 0.26
15 2 0.05
17 1 0.02
18 1 0.02
19 17 0.40
20 11 0.26
ACGTcount: A:0.27, C:0.13, G:0.21, T:0.39
Consensus pattern (18 bp):
TGTATCGATACAATTTGG
Found at i:2527329 original size:20 final size:20
Alignment explanation
Indices: 2527304--2527427 Score: 113
Period size: 20 Copynumber: 5.7 Consensus size: 20
2527294 TTTTAACTAG
2527304 ATGTATCGATACATTGAAAA
1 ATGTATCGATACATTGAAAA
2527324 ATGTATCGATACATCTGGAAAAAAGACAGA
1 ATGTATCGATACAT-T-G-----A-A-A-A
* *
2527354 ATGTATCAATACATTGAAGA
1 ATGTATCGATACATTGAAAA
* * *
2527374 ATGTATCGATACATTCATAC
1 ATGTATCGATACATTGAAAA
2527394 ATGTATCGATACATTGAAAA
1 ATGTATCGATACATTGAAAA
2527414 ATGTATCGATACAT
1 ATGTATCGATACAT
2527428 CTGGGTAAAA
Statistics
Matches: 84, Mismatches: 10, Indels: 20
0.74 0.09 0.18
Matches are distributed among these distances:
20 61 0.73
21 1 0.01
22 2 0.02
23 1 0.01
27 1 0.01
28 2 0.02
29 2 0.02
30 14 0.17
ACGTcount: A:0.43, C:0.13, G:0.15, T:0.29
Consensus pattern (20 bp):
ATGTATCGATACATTGAAAA
Found at i:2527474 original size:91 final size:90
Alignment explanation
Indices: 2527304--2527475 Score: 299
Period size: 91 Copynumber: 1.9 Consensus size: 90
2527294 TTTTAACTAG
2527304 ATGTATCGATACATTGAAAAATGTATCGATACATCTGGAAAAAAGACAGAATGTATCAATACATT
1 ATGTATCGATACATTGAAAAATGTATCGATACATCTGGAAAAAAGACAGAATGTATCAATACATT
*
2527369 GAAGAATGTATCGATACATTCATAC
66 GAAAAATGTATCGATACATTCATAC
* * *
2527394 ATGTATCGATACATTGAAAAATGTATCGATACATCTGGGTAAAAAGATAGAATGTATCGATACAT
1 ATGTATCGATACATTGAAAAATGTATCGATACATCT-GGAAAAAAGACAGAATGTATCAATACAT
2527459 TGAAAAATGTATCGATA
65 TGAAAAATGTATCGATA
2527476 TATCTGGGTA
Statistics
Matches: 77, Mismatches: 4, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
90 36 0.47
91 41 0.53
ACGTcount: A:0.43, C:0.12, G:0.17, T:0.28
Consensus pattern (90 bp):
ATGTATCGATACATTGAAAAATGTATCGATACATCTGGAAAAAAGACAGAATGTATCAATACATT
GAAAAATGTATCGATACATTCATAC
Found at i:2527521 original size:51 final size:51
Alignment explanation
Indices: 2527394--2527510 Score: 216
Period size: 51 Copynumber: 2.3 Consensus size: 51
2527384 ACATTCATAC
*
2527394 ATGTATCGATACATTGAAAAATGTATCGATACATCTGGGTAAAAAGATAGA
1 ATGTATCGATACATTGAAAAATGTATCGATACATCTGGGTAAAAAGATAAA
*
2527445 ATGTATCGATACATTGAAAAATGTATCGATATATCTGGGTAAAAAGATAAA
1 ATGTATCGATACATTGAAAAATGTATCGATACATCTGGGTAAAAAGATAAA
2527496 ATGTATCGATACATT
1 ATGTATCGATACATT
2527511 CATACATGTA
Statistics
Matches: 64, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
51 64 1.00
ACGTcount: A:0.43, C:0.09, G:0.18, T:0.30
Consensus pattern (51 bp):
ATGTATCGATACATTGAAAAATGTATCGATACATCTGGGTAAAAAGATAAA
Found at i:2531328 original size:21 final size:21
Alignment explanation
Indices: 2531295--2531335 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
2531285 ATGCAAGTTC
**
2531295 TTGTTTTTTTTAGCCAATTCG
1 TTGTTTTCATTAGCCAATTCG
*
2531316 TTGTTTTCATTAGCTAATTC
1 TTGTTTTCATTAGCCAATTC
2531336 TTTATTACCA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.17, C:0.15, G:0.12, T:0.56
Consensus pattern (21 bp):
TTGTTTTCATTAGCCAATTCG
Found at i:2531376 original size:21 final size:21
Alignment explanation
Indices: 2531352--2531398 Score: 67
Period size: 21 Copynumber: 2.2 Consensus size: 21
2531342 ACCATCTTGC
*
2531352 AATTCAATTATCTTCTTTTCT
1 AATTCAATTATCTTCTTCTCT
* *
2531373 AATTCACTTATTTTCTTCTCT
1 AATTCAATTATCTTCTTCTCT
2531394 AATTC
1 AATTC
2531399 TTATTTTTTC
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.23, C:0.21, G:0.00, T:0.55
Consensus pattern (21 bp):
AATTCAATTATCTTCTTCTCT
Found at i:2533631 original size:20 final size:21
Alignment explanation
Indices: 2533608--2533646 Score: 71
Period size: 20 Copynumber: 1.9 Consensus size: 21
2533598 TAAAGCAATA
2533608 TGTATCGATACTTT-TAGGTC
1 TGTATCGATACTTTCTAGGTC
2533628 TGTATCGATACTTTCTAGG
1 TGTATCGATACTTTCTAGG
2533647 GTTTTGACCT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 14 0.78
21 4 0.22
ACGTcount: A:0.21, C:0.15, G:0.21, T:0.44
Consensus pattern (21 bp):
TGTATCGATACTTTCTAGGTC
Found at i:2538354 original size:18 final size:18
Alignment explanation
Indices: 2538304--2538349 Score: 83
Period size: 18 Copynumber: 2.5 Consensus size: 18
2538294 AAATTTTGAA
2538304 TTTTTTTCTTGAAATTTC
1 TTTTTTTCTTGAAATTTC
2538322 TTTTTTTCTTGAAATTTC
1 TTTTTTTCTTGAAATTTC
2538340 TCTTTTTTCT
1 T-TTTTTTCT
2538350 AAAATACAGA
Statistics
Matches: 27, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
18 19 0.70
19 8 0.30
ACGTcount: A:0.13, C:0.13, G:0.04, T:0.70
Consensus pattern (18 bp):
TTTTTTTCTTGAAATTTC
Found at i:2538412 original size:184 final size:182
Alignment explanation
Indices: 2538175--2538680 Score: 604
Period size: 184 Copynumber: 2.8 Consensus size: 182
2538165 AAATTACAAG
* * *
2538175 GTTTTCTTCTTCGTAAATTTTTTCGAAAGAATTTTTCTTGGTTTTTGATTTTTAAAATTCATCAA
1 GTTTTCTACTTCGTAAATTTTTACGAGAG-ATTTTTCTTGGTTTTTGATTTTTAAAATTCATCAA
*
2538240 ATATTATTATTTATTTCATTTTAATTCAGTTTTAAAAAATTCATTCATTTCCATAAATTTTGAAT
65 ATATTATTATTTATTTCATATTAATTCAGTTTTAAAAAATTCATTCATTTCCATAAATTTT-AAT
*
2538305 TTTTTTCTTGAAATTTCTTTTTTTCTTGAAATTTCTCTTTTTTCTAAAATAC-AGA
129 TTTTTTCTTGAAATTTCTTTTTTTCTTGAAATTTCTCTTTTTTC-GAAATACGA-A
* * *
2538360 GTTTTCTA-TTCTGTAAATTTTTACGGGAGATTTTTCTTGGTTTTTAATTTTTAAAATTTATCAA
1 GTTTTCTACTTC-GTAAATTTTTACGAGAGATTTTTCTTGGTTTTTGATTTTTAAAATTCATCAA
** * * *
2538424 ATATTATTATTTAACTCATATTAAATCAGTTTTTAAAAATTTATTCATCTT-CAT-AA----AA-
65 ATATTATTATTTATTTCATATTAATTCAGTTTTAAAAAATTCATTCAT-TTCCATAAATTTTAAT
*
2538482 ----TT-TTG-AA----TTTTTTTCTTGAAATTTTTCTTTTTTCGAAATACGAA
129 TTTTTTCTTGAAATTTCTTTTTTTCTTGAAATTTCTCTTTTTTCGAAATACGAA
*
2538526 GTTTTCTACTTCGTAAATTTTT-TGAGAGAATTTTTCTTGGTTTTTGATTTTTAAAATTCATCAA
1 GTTTTCTACTTCGTAAATTTTTACGAGAG-ATTTTTCTTGGTTTTTGATTTTTAAAATTCATCAA
* * * * *
2538590 ATATTATTTTTTATTT-ATATTAATTTAGTTTTCAAAAGTTCATTCATTCCCATAAATTTTAAAT
65 ATATTATTATTTATTTCATATTAATTCAGTTTTAAAAAATTCATTCATTTCCATAAATTTT-AAT
2538654 TTTTTTCTTGAAATTTTCTTTTTTTCT
129 TTTTTTCTTGAAA-TTTCTTTTTTTCT
2538681 AAAATATGGA
Statistics
Matches: 270, Mismatches: 27, Indels: 50
0.78 0.08 0.14
Matches are distributed among these distances:
164 1 0.00
165 33 0.12
166 73 0.27
167 30 0.11
171 4 0.01
172 3 0.01
173 2 0.01
176 2 0.01
177 3 0.01
178 4 0.01
183 11 0.04
184 81 0.30
185 23 0.09
ACGTcount: A:0.28, C:0.10, G:0.07, T:0.55
Consensus pattern (182 bp):
GTTTTCTACTTCGTAAATTTTTACGAGAGATTTTTCTTGGTTTTTGATTTTTAAAATTCATCAAA
TATTATTATTTATTTCATATTAATTCAGTTTTAAAAAATTCATTCATTTCCATAAATTTTAATTT
TTTTCTTGAAATTTCTTTTTTTCTTGAAATTTCTCTTTTTTCGAAATACGAA
Found at i:2538515 original size:167 final size:162
Alignment explanation
Indices: 2538322--2538877 Score: 670
Period size: 166 Copynumber: 3.4 Consensus size: 162
2538312 TTGAAATTTC
*
2538322 TTTTTTTCTTGAAATTTCTCTTTTTTCTAAAATACAGAGTTTTCTATTCTGTAAATTTTTACGGG
1 TTTTTTTCTTGAAATTT-TCTTTTTTCTAAAATACAGAGTTTTCTACTC-GTAAATTTTT-CGGG
* * * * *
2538387 AGATTTTTCTTGGTTTTTAATTTTTAAAATTTATCAAATATTATTATTTAACTCATATTAAATCA
63 AGATTTTTCTTGGTTTTTGATTTTTAAAATTCATCAAATATTATTATTTAATTTATATTAATTCA
* *
2538452 GTTTTTAAAAATTTATTCATCTTCATAAAATTTTGAA
128 GTTTTCAAAAATTCATTCAT-TTCAT-AAATTTTGAA
* * *
2538489 TTTTTTTCTTGAAATTTTTCTTTTTTC-GAAATAC-GAAGTTTTCTACTTCGTAAATTTTTTGAG
1 TTTTTTTCTTGAAA-TTTTCTTTTTTCTAAAATACAG-AGTTTTCTAC-TCGTAAATTTTTCGGG
* *
2538552 AGAATTTTTCTTGGTTTTTGATTTTTAAAATTCATCAAATATTATT-TTTTATTTATATTAATTT
63 AG-ATTTTTCTTGGTTTTTGATTTTTAAAATTCATCAAATATTATTATTTAATTTATATTAATTC
* * *
2538616 AGTTTTCAAAAGTTCATTCATTCCCATAAATTTTAAA
127 AGTTTTCAAAAATTCATTCATT-TCATAAATTTTGAA
** * *
2538653 TTTTTTTCTTGAAATTTTCTTTTTTTCTAAAATATGGAATTTTCTACTCGGTAAATTGTTTTGGG
1 TTTTTTTCTTGAAATTTTC-TTTTTTCTAAAATACAGAGTTTTCTACTC-GTAAA-T-TTTTCGG
* * * *
2538718 GAGATTTTTCTTAGTTTTCGATTTTTAAAATTCATAAAATATTATTATTTATTTTATATTAATTC
62 GAGATTTTTCTTGGTTTTTGATTTTTAAAATTCATCAAATATTATTATTTAATTTATATTAATTC
* * *
2538783 AATTTTCAAAAATTCATTTATTTTCATGAATTTTG-A
127 AGTTTTCAAAAATTCATTCA-TTTCATAAATTTTGAA
* * *
2538819 TTTTTTTCTTGAAATTTCCTTTTTTCTGAAATACAGAGTATTCTACTCCGTAAATTTTT
1 TTTTTTTCTTGAAATTTTCTTTTTTCTAAAATACAGAGTTTTCTACT-CGTAAATTTTT
2538878 TCTGAGGGGT
Statistics
Matches: 336, Mismatches: 39, Indels: 32
0.83 0.10 0.08
Matches are distributed among these distances:
163 9 0.03
164 34 0.10
165 86 0.26
166 128 0.38
167 74 0.22
168 5 0.01
ACGTcount: A:0.29, C:0.10, G:0.08, T:0.53
Consensus pattern (162 bp):
TTTTTTTCTTGAAATTTTCTTTTTTCTAAAATACAGAGTTTTCTACTCGTAAATTTTTCGGGAGA
TTTTTCTTGGTTTTTGATTTTTAAAATTCATCAAATATTATTATTTAATTTATATTAATTCAGTT
TTCAAAAATTCATTCATTTCATAAATTTTGAA
Found at i:2539484 original size:21 final size:21
Alignment explanation
Indices: 2539460--2539503 Score: 52
Period size: 21 Copynumber: 2.1 Consensus size: 21
2539450 AAAGCTCAGC
2539460 AAAAAAAAAAAAAAAAGAGAA
1 AAAAAAAAAAAAAAAAGAGAA
* * * *
2539481 AAAAACAAGAAAAATAGTGAA
1 AAAAAAAAAAAAAAAAGAGAA
2539502 AA
1 AA
2539504 TAGTTGGATT
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.82, C:0.02, G:0.11, T:0.05
Consensus pattern (21 bp):
AAAAAAAAAAAAAAAAGAGAA
Found at i:2540896 original size:156 final size:155
Alignment explanation
Indices: 2540645--2540971 Score: 424
Period size: 156 Copynumber: 2.1 Consensus size: 155
2540635 CGGACACATC
* * * *
2540645 TACGTCGAAGGTATCCCCCAAGGGCATTTTAGTAATTTTTTAAAACCGAGTCCTAGGTTGTCACC
1 TACGTCGAAGGTATCCCACAAGGGCATTTTAGTAATTTTCTAAAACCGAGTCCTACGTTATCACC
* *
2540710 GGGTTTGCTTTTATGCTGAAGATAGATATTTAGGATAGGTTCACC-CTTTTTATTATCCTCTTTA
66 GGGTTTACTTTTATGCTGAAGATAGATATTTAGGATAGGTTCACCTC-ATTTATTATCCTCTTTA
*
2540774 AGTCCTTTAGGGGTACCAGGTACTTT
130 AATCCTTTAGGGGTACCAGGTACTTT
* * * * * *
2540800 TACGTCGAAGGTATCCCATAGGGGTATTTTAAGTAATTTTCTAGAATCGAGTCTTACGTTATCA-
1 TACGTCGAAGGTATCCCACAAGGGCATTTT-AGTAATTTTCTAAAACCGAGTCCTACGTTATCAC
* * * *
2540864 CTGGTTCTACTTTTATGCTGAAGGTAGATATTTAGGATAGGTTCACCTCATTTATTATCTTTTTT
65 CGGGTT-TACTTTTATGCTGAAGATAGATATTTAGGATAGGTTCACCTCATTTATTATCCTCTTT
**
2540929 AAATCCTTTAGGGGTACTGGGTACTTT
129 AAATCCTTTAGGGGTACCAGGTACTTT
* *
2540956 TACATCAAAGGTATCC
1 TACGTCGAAGGTATCC
2540972 TTTAGGAGCA
Statistics
Matches: 148, Mismatches: 21, Indels: 5
0.85 0.12 0.03
Matches are distributed among these distances:
155 31 0.21
156 116 0.78
157 1 0.01
ACGTcount: A:0.24, C:0.17, G:0.20, T:0.39
Consensus pattern (155 bp):
TACGTCGAAGGTATCCCACAAGGGCATTTTAGTAATTTTCTAAAACCGAGTCCTACGTTATCACC
GGGTTTACTTTTATGCTGAAGATAGATATTTAGGATAGGTTCACCTCATTTATTATCCTCTTTAA
ATCCTTTAGGGGTACCAGGTACTTT
Found at i:2545172 original size:8 final size:8
Alignment explanation
Indices: 2545161--2545222 Score: 54
Period size: 8 Copynumber: 7.8 Consensus size: 8
2545151 ATATGATATA
2545161 ATATAAAT
1 ATATAAAT
2545169 ATATAAAT
1 ATATAAAT
*
2545177 ATATATAT
1 ATATAAAT
*
2545185 AATATGAAT
1 -ATATAAAT
*
2545194 -TATTAAT
1 ATATAAAT
*
2545201 ATATCAAT
1 ATATAAAT
* *
2545209 ATTTATAT
1 ATATAAAT
2545217 ATATAA
1 ATATAA
2545223 TACCTTAAAT
Statistics
Matches: 42, Mismatches: 10, Indels: 4
0.75 0.18 0.07
Matches are distributed among these distances:
7 6 0.14
8 30 0.71
9 6 0.14
ACGTcount: A:0.53, C:0.02, G:0.02, T:0.44
Consensus pattern (8 bp):
ATATAAAT
Found at i:2545172 original size:18 final size:18
Alignment explanation
Indices: 2545133--2545186 Score: 51
Period size: 17 Copynumber: 3.0 Consensus size: 18
2545123 ATTCAAATAT
2545133 AATATAAA-A-AATATTAA
1 AATATAAATATAATA-TAA
*
2545150 AATAT-GATATAATATAA
1 AATATAAATATAATATAA
2545167 ATATATAAATATATATATAA
1 A-ATATAAATATA-ATATAA
2545187 TATGAATTAT
Statistics
Matches: 30, Mismatches: 2, Indels: 7
0.77 0.05 0.18
Matches are distributed among these distances:
16 1 0.03
17 10 0.33
18 8 0.27
19 5 0.17
20 6 0.20
ACGTcount: A:0.63, C:0.00, G:0.02, T:0.35
Consensus pattern (18 bp):
AATATAAATATAATATAA
Found at i:2545177 original size:32 final size:32
Alignment explanation
Indices: 2545128--2545224 Score: 87
Period size: 32 Copynumber: 3.0 Consensus size: 32
2545118 ATATGATTCA
*
2545128 AATATAATATAAAAAATATTA-A-AATATGATAT
1 AATATAATAT-ATAAATATTATATAATATGA-AT
2545160 AATATAAATATATAAATATATATATAATATGAAT
1 AATAT-AATATATAAATAT-TATATAATATGAAT
* *
2545194 TAT-TAATATATCAATATT-TATATATAT-AAT
1 AATATAATATATAAATATTATATA-ATATGAAT
2545224 A
1 A
2545225 CCTTAAATAT
Statistics
Matches: 56, Mismatches: 4, Indels: 12
0.78 0.06 0.17
Matches are distributed among these distances:
30 7 0.12
31 5 0.09
32 24 0.43
33 8 0.14
34 5 0.09
35 7 0.12
ACGTcount: A:0.57, C:0.01, G:0.02, T:0.40
Consensus pattern (32 bp):
AATATAATATATAAATATTATATAATATGAAT
Found at i:2545184 original size:12 final size:12
Alignment explanation
Indices: 2545127--2545186 Score: 56
Period size: 12 Copynumber: 5.2 Consensus size: 12
2545117 TATATGATTC
2545127 AAATATA-ATAT
1 AAATATATATAT
*
2545138 AAA-AAATAT-T
1 AAATATATATAT
2545148 AAA-ATATGATAT
1 AAATATAT-ATAT
*
2545160 AATATAAATATAT
1 AA-ATATATATAT
2545173 AAATATATATAT
1 AAATATATATAT
2545185 AA
1 AA
2545187 TATGAATTAT
Statistics
Matches: 40, Mismatches: 4, Indels: 9
0.75 0.08 0.17
Matches are distributed among these distances:
10 9 0.22
11 7 0.17
12 14 0.35
13 7 0.17
14 3 0.08
ACGTcount: A:0.63, C:0.00, G:0.02, T:0.35
Consensus pattern (12 bp):
AAATATATATAT
Found at i:2545486 original size:20 final size:21
Alignment explanation
Indices: 2545451--2545498 Score: 62
Period size: 20 Copynumber: 2.3 Consensus size: 21
2545441 ATCATACAAC
2545451 AAAATAATATAAATATAACAT
1 AAAATAATATAAATATAACAT
* *
2545472 AAAATATTA-AAATATAATAT
1 AAAATAATATAAATATAACAT
*
2545492 AATATAA
1 AAAATAA
2545499 AAAATAATAT
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
20 15 0.65
21 8 0.35
ACGTcount: A:0.67, C:0.02, G:0.00, T:0.31
Consensus pattern (21 bp):
AAAATAATATAAATATAACAT
Found at i:2545494 original size:36 final size:35
Alignment explanation
Indices: 2545454--2545536 Score: 94
Period size: 37 Copynumber: 2.3 Consensus size: 35
2545444 ATACAACAAA
2545454 ATAATATAAATATAACATAAAATATTAAAATATAAT
1 ATAATATAAATATAACATAAAATATTAAAAT-TAAT
* * * * *
2545490 ATAATATAAAAAATAATATATATTATTAAAATTTAT
1 ATAATAT-AAATATAACATAAAATATTAAAATTAAT
*
2545526 ATAAAATAAAT
1 ATAATATAAAT
2545537 TATTATTTAT
Statistics
Matches: 39, Mismatches: 7, Indels: 3
0.80 0.14 0.06
Matches are distributed among these distances:
35 3 0.08
36 16 0.41
37 20 0.51
ACGTcount: A:0.63, C:0.01, G:0.00, T:0.36
Consensus pattern (35 bp):
ATAATATAAATATAACATAAAATATTAAAATTAAT
Found at i:2545520 original size:19 final size:18
Alignment explanation
Indices: 2545474--2545521 Score: 62
Period size: 17 Copynumber: 2.6 Consensus size: 18
2545464 TATAACATAA
2545474 AATATTAAAATATAATAT
1 AATATTAAAATATAATAT
*
2545492 AATA-TAAAAAATAATAT
1 AATATTAAAATATAATAT
2545509 ATATTATTAAAAT
1 A-A-TATTAAAAT
2545522 TTATATAAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
17 13 0.52
18 5 0.20
19 2 0.08
20 5 0.20
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (18 bp):
AATATTAAAATATAATAT
Found at i:2545527 original size:19 final size:19
Alignment explanation
Indices: 2545474--2545533 Score: 59
Period size: 19 Copynumber: 3.2 Consensus size: 19
2545464 TATAACATAA
*
2545474 AATATTAAAATATA-ATAT
1 AATATTAAAATTTATATAT
* * *
2545492 AATATAAAAAATAATATAT
1 AATATTAAAATTTATATAT
* *
2545511 ATTATTAAAATTTATATAA
1 AATATTAAAATTTATATAT
2545530 AATA
1 AATA
2545534 AATTATTATT
Statistics
Matches: 31, Mismatches: 10, Indels: 1
0.74 0.24 0.02
Matches are distributed among these distances:
18 10 0.32
19 21 0.68
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (19 bp):
AATATTAAAATTTATATAT
Found at i:2545529 original size:31 final size:31
Alignment explanation
Indices: 2545493--2545561 Score: 88
Period size: 31 Copynumber: 2.2 Consensus size: 31
2545483 ATATAATATA
2545493 ATATAAAAAATAA-TA-TATATTATTAAAATTT
1 ATATAAAAAA-AATTATTAT-TTATTAAAATTT
*
2545524 ATATAAAATAAATTATTATTTATTAAAATTT
1 ATATAAAAAAAATTATTATTTATTAAAATTT
*
2545555 ATTTAAA
1 ATATAAA
2545562 TATATAGTAT
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
30 2 0.06
31 29 0.85
32 3 0.09
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (31 bp):
ATATAAAAAAAATTATTATTTATTAAAATTT
Found at i:2545531 original size:29 final size:30
Alignment explanation
Indices: 2545494--2545577 Score: 88
Period size: 29 Copynumber: 2.9 Consensus size: 30
2545484 TATAATATAA
*
2545494 TATAAAAAATAATATA-TATTATTAAAATT
1 TATATAAAATAATATAGTATTATTAAAATT
*
2545523 TATATAAAATAA-ATTATTATTTATTAAAATT
1 TATATAAAATAATA-TAGTA-TTATTAAAATT
*
2545554 TAT-TTAAAT-ATATAGTATT-TTAAA
1 TATATAAAATAATATAGTATTATTAAA
2545578 TATAATCAAA
Statistics
Matches: 48, Mismatches: 3, Indels: 10
0.79 0.05 0.16
Matches are distributed among these distances:
27 5 0.10
28 3 0.06
29 18 0.38
30 8 0.17
31 14 0.29
ACGTcount: A:0.52, C:0.00, G:0.01, T:0.46
Consensus pattern (30 bp):
TATATAAAATAATATAGTATTATTAAAATT
Found at i:2545956 original size:2 final size:2
Alignment explanation
Indices: 2545949--2545977 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
2545939 GTTTATCTAC
2545949 AT AT AT AT AT AT AT AT AT AT AT AT -T AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
2545978 TTCTTGCTCT
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 25 0.96
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
AT
Found at i:2546574 original size:32 final size:32
Alignment explanation
Indices: 2546538--2546607 Score: 104
Period size: 32 Copynumber: 2.2 Consensus size: 32
2546528 TGAATTTTAA
*
2546538 AGGTTATAATTTTATTTCTTAAATTGTTTCGG
1 AGGTTATAATTTTATATCTTAAATTGTTTCGG
* * *
2546570 AGGTTATATTTTTATATCTTAAGTTGTTTTGG
1 AGGTTATAATTTTATATCTTAAATTGTTTCGG
2546602 AGGTTA
1 AGGTTA
2546608 CAATATAAAA
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
32 34 1.00
ACGTcount: A:0.24, C:0.04, G:0.19, T:0.53
Consensus pattern (32 bp):
AGGTTATAATTTTATATCTTAAATTGTTTCGG
Found at i:2547922 original size:58 final size:57
Alignment explanation
Indices: 2547857--2548369 Score: 264
Period size: 58 Copynumber: 8.8 Consensus size: 57
2547847 ATTTCATGCA
* * *
2547857 TTCATGATTTAGGAACCATTTCATAATTTCATGCATTTTAGGGTTATTTAAGTTATTT
1 TTCATGATTTAGGAACCATTT-ATAATTTCATGCATTTTAGGATCATTTAAGTCATTT
* * * *
2547915 TTCATGATTTAAGG-ACTA-TTATGCAATTTCAT--TTTTTTGGATCATTTAAG-CCTTT
1 TTCATGATTT-AGGAACCATTTAT--AATTTCATGCATTTTAGGATCATTTAAGTCATTT
* * * * *** *
2547970 TTCCCCTGATTTAGGAACCATTT-TGCAAATCTCATGCATTATAGGGTTGGTTAATTCATTT
1 TT--CATGATTTAGGAACCATTTAT---AATTTCATGCATTTTAGGATCATTTAAGTCATTT
* * * * * * *
2548031 TGCATCAATTA-GAGACCATTTTGTAATTACATGCATTTTTA-G-TCCTTTTGAGTCATTT
1 TTCATGATTTAGGA-ACCA-TTTATAATTTCATGCA-TTTTAGGAT-CATTTAAGTCATTT
* * * * * *
2548089 TTCATGATTTAGGAACTAGTATGTAATTTTATGCATTTTAGGATCAGTTAAGTTA-TT
1 TTCATGATTTAGGAACCA-TTTATAATTTCATGCATTTTAGGATCATTTAAGTCATTT
* * * * *
2548146 TTCTATGATTTA-AAGACAATATTGTAAATCTCATGCATTTTAAGATCATTTAAGTCATTT
1 TTC-ATGATTTAGGA-ACCAT-TTAT-AATTTCATGCATTTTAGGATCATTTAAGTCATTT
* ** * * *
2548206 TT-ATGATTTAAGAACCATTTGCAATTTTATGCAATTTATTG-TCATTTAAGTCATTT
1 TTCATGATTTAGGAACCATTTATAATTTCATGCATTTTA-GGATCATTTAAGTCATTT
* * * ** *
2548262 TCCATGCTTTAGGGATTA-TTATGCAATTTCATGCATTTTAAGATCATTTAAGTCATTT
1 TTCATGATTTAGGAACCATTTAT--AATTTCATGCATTTTAGGATCATTTAAGTCATTT
* * * *
2548320 TTCACGATTTAGGGATCATTT-TGCAAATTTCATGCATTTTAGGGTCATTT
1 TTCATGATTTAGGAACCATTTAT---AATTTCATGCATTTTAGGATCATTT
2548370 TGAACTTTTT
Statistics
Matches: 344, Mismatches: 79, Indels: 63
0.71 0.16 0.13
Matches are distributed among these distances:
55 5 0.01
56 50 0.15
57 41 0.12
58 153 0.44
59 72 0.21
60 17 0.05
61 6 0.02
ACGTcount: A:0.28, C:0.13, G:0.14, T:0.45
Consensus pattern (57 bp):
TTCATGATTTAGGAACCATTTATAATTTCATGCATTTTAGGATCATTTAAGTCATTT
Found at i:2548139 original size:116 final size:115
Alignment explanation
Indices: 2548034--2548330 Score: 248
Period size: 115 Copynumber: 2.6 Consensus size: 115
2548024 TTCATTTTGC
* * * * * *
2548034 ATCAATTAGAGACCATTTTGT-AAT-TACATGCATTTTTAG-TCCTTTTGAGTCATTTTTCATGA
1 ATCAATTAAAGACAATATTGTAAATCT-CATGCATTTTAAGAT-CATTTAAGTCATTTTT-ATGA
* * * *
2548096 TTTAGGAACTAGTATGTAATTTTATGCATTTTAGGATCAGTTAAGTTATTTTCT
63 TTTAAGAACCA-TATGCAATTTTATGCAATTTAGGATCAGTTAAGTTATTTTCT
* *
2548150 ATGATTTAAAGACAATATTGTAAATCTCATGCATTTTAAGATCATTTAAGTCATTTTTATGATTT
1 ATCAATTAAAGACAATATTGTAAATCTCATGCATTTTAAGATCATTTAAGTCATTTTTATGATTT
* * * * *
2548215 AAGAACCATTTGCAATTTTATGCAATTTATTG-TCATTTAAGTCATTTTCC
66 AAGAACCATATGCAATTTTATGCAATTTA-GGATCAGTTAAGTTATTTTCT
* ** * * * * *
2548265 ATGC--TT-TAGGGATTATTATGCAATTTCATGCATTTTAAGATCATTTAAGTCATTTTTCACGA
1 AT-CAATTAAAGACAATATTGT-AAATCTCATGCATTTTAAGATCATTTAAGTCATTTTT-ATGA
2548327 TTTA
63 TTTA
2548331 GGGATCATTT
Statistics
Matches: 148, Mismatches: 26, Indels: 15
0.78 0.14 0.08
Matches are distributed among these distances:
113 8 0.05
114 37 0.25
115 42 0.28
116 30 0.20
117 29 0.20
118 2 0.01
ACGTcount: A:0.30, C:0.12, G:0.13, T:0.45
Consensus pattern (115 bp):
ATCAATTAAAGACAATATTGTAAATCTCATGCATTTTAAGATCATTTAAGTCATTTTTATGATTT
AAGAACCATATGCAATTTTATGCAATTTAGGATCAGTTAAGTTATTTTCT
Found at i:2548355 original size:173 final size:173
Alignment explanation
Indices: 2547859--2548369 Score: 464
Period size: 173 Copynumber: 2.9 Consensus size: 173
2547849 TTCATGCATT
* * ** * *
2547859 CATGATTTAGGAACCATTT-CATAATTTCATGCATTTTAGGGTTATTTAAGTTATTTTTCATGAT
1 CATGATTTAAGAACCATTTGC--AATTTCATGCAATTTATTGTCATTTAAGTCATTTTTCATGAT
* * * * *
2547923 TTAAGGACTATTATGCAATTTCAT--TTTTTTGGATCATTTAAG-CCTTTTTCCCCTGATTTAGG
64 TTAGGGACTATTATGCAATTTCATGCATTTTAGGATCATTTAAGTCATTTTT-CAC-GATTTAGG
* * *** *
2547985 AACCATTTTGCAAATCTCATGCATTATAGGGTTGGTTAATTCATTTTG
127 GA-CATTTTGCAAATCTCATGCATTTTAGGGTCATTTAAGTCATTTTG
* * * * * *
2548033 CATCAATT-AGAGACCATTTTGTAATTACATGC-ATTT-TTAGTCCTTTTGAGTCATTTTTCATG
1 CATGATTTAAGA-ACCA-TTTGCAATTTCATGCAATTTATT-GT-CATTTAAGTCATTTTTCATG
* * * * * * * *
2548095 ATTTAGGAACTAGTATGTAATTTTATGCATTTTAGGATCAGTTAAGTTA-TTTTCTATGATTTAA
62 ATTTAGGGACTATTATGCAATTTCATGCATTTTAGGATCATTTAAGTCATTTTTC-ACGATTTAG
* * * * *
2548159 AGACAATATTGTAAATCTCATGCATTTTAAGATCATTTAAGTCATTTT-
126 GGAC-ATTTTGCAAATCTCATGCATTTTAGGGTCATTTAAGTCATTTTG
* * * *
2548207 TATGATTTAAGAACCATTTGCAATTTTATGCAATTTATTGTCATTTAAGTCATTTTCCATGCTTT
1 CATGATTTAAGAACCATTTGCAATTTCATGCAATTTATTGTCATTTAAGTCATTTTTCATGATTT
* *
2548272 AGGGATTATTATGCAATTTCATGCATTTTAAGATCATTTAAGTCATTTTTCACGATTTAGGGATC
66 AGGGACTATTATGCAATTTCATGCATTTTAGGATCATTTAAGTCATTTTTCACGATTTAGGGA-C
*
2548337 ATTTTGCAAATTTCATGCATTTTAGGGTCATTT
130 ATTTTGCAAATCTCATGCATTTTAGGGTCATTT
2548370 TGAACTTTTT
Statistics
Matches: 260, Mismatches: 62, Indels: 31
0.74 0.18 0.09
Matches are distributed among these distances:
173 113 0.43
174 78 0.30
175 50 0.19
176 19 0.07
ACGTcount: A:0.28, C:0.13, G:0.14, T:0.45
Consensus pattern (173 bp):
CATGATTTAAGAACCATTTGCAATTTCATGCAATTTATTGTCATTTAAGTCATTTTTCATGATTT
AGGGACTATTATGCAATTTCATGCATTTTAGGATCATTTAAGTCATTTTTCACGATTTAGGGACA
TTTTGCAAATCTCATGCATTTTAGGGTCATTTAAGTCATTTTG
Found at i:2548361 original size:30 final size:30
Alignment explanation
Indices: 2548269--2548427 Score: 91
Period size: 29 Copynumber: 5.4 Consensus size: 30
2548259 TTTTCCATGC
* *
2548269 TTTAGGGATTATTATGC-AATTTCATGCAT
1 TTTAGGGATCATTTTGCAAATTTCATGCAT
* * ** *
2548298 TTTA-AGATCATTTAAGTCATTTTTCACG-A-
1 TTTAGGGATCATTT-TG-CAAATTTCATGCAT
2548327 TTTAGGGATCATTTTGCAAATTTCATGCAT
1 TTTAGGGATCATTTTGCAAATTTCATGCAT
* * *
2548357 TTTAGGG-TCATTTTG-AACTTT-TTCCAT
1 TTTAGGGATCATTTTGCAAATTTCATGCAT
* * * *
2548384 GTTATAGGGCTTATTATGCAATTTTCATGCAT
1 -TT-TAGGGATCATTTTGCAAATTTCATGCAT
*
2548416 TTTATGG-TCATT
1 TTTAGGGATCATT
2548428 ATAAGAATTT
Statistics
Matches: 97, Mismatches: 22, Indels: 22
0.69 0.16 0.16
Matches are distributed among these distances:
27 4 0.04
28 21 0.22
29 28 0.29
30 27 0.28
31 13 0.13
32 4 0.04
ACGTcount: A:0.25, C:0.13, G:0.16, T:0.47
Consensus pattern (30 bp):
TTTAGGGATCATTTTGCAAATTTCATGCAT
Found at i:2548392 original size:59 final size:60
Alignment explanation
Indices: 2548171--2548438 Score: 211
Period size: 59 Copynumber: 4.6 Consensus size: 60
2548161 ACAATATTGT
* * * * **
2548171 AAATCTCATGCATTTTAAGATCA-TTTAAGTCATTTTT--ATGATTTAAGAACCATT-TGC
1 AAATTTCATGCATTTTAAGGTCATTTTAAG-CATTTTTCCATGATTTAGGGATTATTATGC
* * ** *
2548228 -AATTTTATGCAATTTATTGTCA-TTTAAGTCA-TTTTCCATGCTTTAGGGATTATTATGC
1 AAATTTCATGCATTTTAAGGTCATTTTAAG-CATTTTTCCATGATTTAGGGATTATTATGC
* * * *
2548286 -AATTTCATGCATTTTAAGATCA-TTTAAGTCATTTTT-CACGATTTAGGGATCATTTTGC
1 AAATTTCATGCATTTTAAGGTCATTTTAAG-CATTTTTCCATGATTTAGGGATTATTATGC
* *
2548344 AAATTTCATGCATTTTAGGGTCATTTTGAA-C-TTTTTCCATG-TTATAGGGCTTATTATGC
1 AAATTTCATGCATTTTAAGGTCATTTT-AAGCATTTTTCCATGATT-TAGGGATTATTATGC
* * * *
2548403 AATTTTCATGCATTTTATGGTCATTATAAGAATTTT
1 AAATTTCATGCATTTTAAGGTCATTTTAAGCATTTT
2548439 ATCATTTTAG
Statistics
Matches: 170, Mismatches: 30, Indels: 19
0.78 0.14 0.09
Matches are distributed among these distances:
55 4 0.02
56 25 0.15
57 12 0.07
58 56 0.33
59 64 0.38
60 7 0.04
61 2 0.01
ACGTcount: A:0.28, C:0.13, G:0.13, T:0.46
Consensus pattern (60 bp):
AAATTTCATGCATTTTAAGGTCATTTTAAGCATTTTTCCATGATTTAGGGATTATTATGC
Found at i:2549212 original size:155 final size:153
Alignment explanation
Indices: 2549024--2549310 Score: 323
Period size: 155 Copynumber: 1.9 Consensus size: 153
2549014 GTTGTTTCGA
* * * * *
2549024 AATAGTATCTTAAAATTGAATCTTGGGTCATGTGAGAA-CTTTCATGT-TAAGACTTGTCCATTA
1 AATACTATCTTAAAACTGAATCTAGGGTCATGTGAGAACCTTT-ATGTCTAAG-CATATCCATTA
* * * ** *
2549087 GGGGGTATATT-GGTAGA-AATACCTTAAAATTGAGTCCTTAGGGGCATGTGGGAACTTTTATGT
64 -GCGGTAT-TTCCGTA-ATAATACCTTAAAACTGAGTCCTTA-GGGCATGTAAGAACTTTCATGT
2549150 AAAAACATCTCCATTAGGTGTATTTAAGT
125 AAAAACATCTCCATTAGGTGTATTTAAGT
* * *
2549179 AATACTATCTTAAAACT-AAGTCTAGGGTTATGTGGGAACCTTTGTGTCTAAGCATATCCATTAG
1 AATACTATCTTAAAACTGAA-TCTAGGGTCATGTGAGAACCTTTATGTCTAAGCATATCCATTAG
* * *
2549243 CGGTATTTCCTTAATAATACCTTAAAACTGAGTCTTTAGGTCATGTAAGAACTTTCATGTAAAAA
65 CGGTATTTCCGTAATAATACCTTAAAACTGAGTCCTTAGGGCATGTAAGAACTTTCATGTAAAAA
2549308 CAT
130 CAT
2549311 ATTCATTAAT
Statistics
Matches: 110, Mismatches: 17, Indels: 12
0.79 0.12 0.09
Matches are distributed among these distances:
153 29 0.26
154 31 0.28
155 42 0.38
156 8 0.07
ACGTcount: A:0.32, C:0.14, G:0.19, T:0.35
Consensus pattern (153 bp):
AATACTATCTTAAAACTGAATCTAGGGTCATGTGAGAACCTTTATGTCTAAGCATATCCATTAGC
GGTATTTCCGTAATAATACCTTAAAACTGAGTCCTTAGGGCATGTAAGAACTTTCATGTAAAAAC
ATCTCCATTAGGTGTATTTAAGT
Found at i:2549239 original size:76 final size:76
Alignment explanation
Indices: 2549104--2549318 Score: 175
Period size: 76 Copynumber: 2.8 Consensus size: 76
2549094 TATTGGTAGA
* * ** * *
2549104 AATACCTTAAAATTGAGTCCTTAGGGGCATGTGGGAACTTTTATGTAAAAACATCTCCATTAG-G
1 AATACCTTAAAACTAAGT-C-TAGGGTTATGTGGGAACCTTTATGTAAAAACATATCCATTAGCG
2549168 TGTATTTAAGTAAT
64 -GTATTTAAGTAAT
* * * ** *
2549182 ACTATCTTAAAACTAAGTCTAGGGTTATGTGGGAACCTTTGTGTCTAAGCATATCCATTAGCGGT
1 AATACCTTAAAACTAAGTCTAGGGTTATGTGGGAACCTTTATGTAAAAACATATCCATTAGCGGT
***
2549247 ATTTCCTTAAT
66 ATTTAAGTAAT
* * ** *
2549258 AATACCTTAAAACTGAGTCTTTA-GGTCATGTAAGAA-CTTTCATGTAAAAACATATTCATTA
1 AATACCTTAAAACTAAGTC--TAGGGTTATGTGGGAACCTTT-ATGTAAAAACATATCCATTA
2549319 ATGTCATTTA
Statistics
Matches: 107, Mismatches: 26, Indels: 9
0.75 0.18 0.06
Matches are distributed among these distances:
76 64 0.60
77 27 0.25
78 16 0.15
ACGTcount: A:0.33, C:0.15, G:0.17, T:0.35
Consensus pattern (76 bp):
AATACCTTAAAACTAAGTCTAGGGTTATGTGGGAACCTTTATGTAAAAACATATCCATTAGCGGT
ATTTAAGTAAT
Found at i:2549405 original size:78 final size:77
Alignment explanation
Indices: 2549254--2549424 Score: 204
Period size: 78 Copynumber: 2.2 Consensus size: 77
2549244 GGTATTTCCT
* *
2549254 TAATAATACCTTAAAACTGAGTCTTTAGGTCATGTAAGAACTTTCATGTAAAAACATATTCATTA
1 TAATAATACCTTAAAAATGAGTCTTTAGGTCATGTAAGAACTTTCATGTAAAAACATACTCATTA
* * *
2549319 ATGTCATTTAGG
66 AGGCCATTTAAG
* **
2549331 TAA-AAGTACTTTAAAAATGAGTCTTTAAGGTCATGTGAA-AACTTTCATGTCGAAACATGACT-
1 TAATAA-TACCTTAAAAATGAGTCTTT-AGGTCATGT-AAGAACTTTCATGTAAAAACAT-ACTC
*
2549393 ATTAGGGCCATTTAAG
62 ATTAAGGCCATTTAAG
2549409 TAATAATACCTTAAAA
1 TAATAATACCTTAAAA
2549425 TCGTGTCTAG
Statistics
Matches: 79, Mismatches: 10, Indels: 9
0.81 0.10 0.09
Matches are distributed among these distances:
76 2 0.03
77 21 0.27
78 50 0.63
79 6 0.08
ACGTcount: A:0.39, C:0.13, G:0.14, T:0.34
Consensus pattern (77 bp):
TAATAATACCTTAAAAATGAGTCTTTAGGTCATGTAAGAACTTTCATGTAAAAACATACTCATTA
AGGCCATTTAAG
Found at i:2559616 original size:22 final size:22
Alignment explanation
Indices: 2559591--2559632 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
2559581 CTATTTTACA
2559591 CTTTTAAATATTTTATATATTC
1 CTTTTAAATATTTTATATATTC
* * *
2559613 CTTTTATATTTTTTTTATAT
1 CTTTTAAATATTTTATATAT
2559633 ATATTAAAAT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.26, C:0.07, G:0.00, T:0.67
Consensus pattern (22 bp):
CTTTTAAATATTTTATATATTC
Found at i:2560593 original size:16 final size:16
Alignment explanation
Indices: 2560572--2560602 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
2560562 AATCCAAATC
2560572 CGAAAGAATTTGAACT
1 CGAAAGAATTTGAACT
2560588 CGAAAGAATTTGAAC
1 CGAAAGAATTTGAAC
2560603 CCAAGACTGA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.45, C:0.13, G:0.19, T:0.23
Consensus pattern (16 bp):
CGAAAGAATTTGAACT
Found at i:2561796 original size:18 final size:18
Alignment explanation
Indices: 2561773--2561808 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
2561763 AAATTATTTG
*
2561773 AAAAATTAATTTTGTATA
1 AAAAATTAATTTTATATA
2561791 AAAAATTAATTTTATATA
1 AAAAATTAATTTTATATA
2561809 TAAATATAGA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.53, C:0.00, G:0.03, T:0.44
Consensus pattern (18 bp):
AAAAATTAATTTTATATA
Found at i:2562069 original size:16 final size:16
Alignment explanation
Indices: 2562029--2562078 Score: 73
Period size: 16 Copynumber: 3.1 Consensus size: 16
2562019 CTTAAATTCG
** *
2562029 AAAAAATTCAAACTCG
1 AAAAAATTTGAACTCA
2562045 AAAAAATTTGAACTCA
1 AAAAAATTTGAACTCA
2562061 AAAAAATTTGAACTCA
1 AAAAAATTTGAACTCA
2562077 AA
1 AA
2562079 TAAGTCCGAA
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 31 1.00
ACGTcount: A:0.58, C:0.14, G:0.06, T:0.22
Consensus pattern (16 bp):
AAAAAATTTGAACTCA
Found at i:2567548 original size:2 final size:2
Alignment explanation
Indices: 2567541--2567601 Score: 95
Period size: 2 Copynumber: 30.0 Consensus size: 2
2567531 TTCTTTTGAC
* *
2567541 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT TT GAC AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT -AT AT AT
2567584 AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT
2567602 CTTCGTATTT
Statistics
Matches: 54, Mismatches: 4, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
2 54 1.00
ACGTcount: A:0.48, C:0.02, G:0.02, T:0.49
Consensus pattern (2 bp):
AT
Found at i:2568860 original size:29 final size:30
Alignment explanation
Indices: 2568827--2568883 Score: 91
Period size: 29 Copynumber: 1.9 Consensus size: 30
2568817 AAAAAAATTT
2568827 ATTTTATTA-TTTAAAATT-AATTTATATTA
1 ATTTT-TTATTTTAAAATTAAATTTATATTA
2568856 ATTTTTTATTTTAAAATTAAATTTATAT
1 ATTTTTTATTTTAAAATTAAATTTATAT
2568884 AAAAATAATT
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
28 3 0.12
29 14 0.54
30 9 0.35
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (30 bp):
ATTTTTTATTTTAAAATTAAATTTATATTA
Found at i:2572885 original size:16 final size:16
Alignment explanation
Indices: 2572840--2572896 Score: 60
Period size: 16 Copynumber: 3.3 Consensus size: 16
2572830 ATTAATTTTA
2572840 ATTTTAAATTTTTTAGATC
1 ATTTTAAA--TTTT-GATC
* *
2572859 AATTCTAAATTTTGATT
1 -ATTTTAAATTTTGATC
2572876 ATTTTAAATTTTGATC
1 ATTTTAAATTTTGATC
2572892 ATTTT
1 ATTTT
2572897 GAACTTGAAC
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
16 19 0.58
17 3 0.09
18 4 0.12
20 7 0.21
ACGTcount: A:0.32, C:0.05, G:0.05, T:0.58
Consensus pattern (16 bp):
ATTTTAAATTTTGATC
Found at i:2573754 original size:3 final size:3
Alignment explanation
Indices: 2573748--2573780 Score: 66
Period size: 3 Copynumber: 11.0 Consensus size: 3
2573738 AATAGTATAA
2573748 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
2573781 GAAAAAAATG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:2575245 original size:2 final size:2
Alignment explanation
Indices: 2575202--2575227 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
2575192 CTGTTTTCAA
2575202 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
2575228 GGTTGGTGAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:2576606 original size:33 final size:32
Alignment explanation
Indices: 2576536--2576611 Score: 89
Period size: 32 Copynumber: 2.3 Consensus size: 32
2576526 TAAATTATTA
* *
2576536 TATATTTATATAAATTTTGATACGTTAATAATC
1 TATA-TTATATAAATTTTAATACATTAATAATC
* * *
2576569 TATATTATATAAATTTTAATACATTCATATTTT
1 TATATTATATAAATTTTAATACATTAATA-ATC
2576602 TATATTATAT
1 TATATTATAT
2576612 TCATATTATT
Statistics
Matches: 37, Mismatches: 5, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
32 22 0.59
33 15 0.41
ACGTcount: A:0.39, C:0.05, G:0.03, T:0.53
Consensus pattern (32 bp):
TATATTATATAAATTTTAATACATTAATAATC
Found at i:2576632 original size:28 final size:28
Alignment explanation
Indices: 2576601--2576676 Score: 77
Period size: 28 Copynumber: 2.7 Consensus size: 28
2576591 ATTCATATTT
2576601 TTATATTATATTCATATTATTTTTAATA
1 TTATATTATATTCATATTATTTTTAATA
* * *
2576629 TTATATTTTATT-TTAATTATTTTTTATA
1 TTATATTATATTCAT-ATTATTTTTAATA
2576657 TTACT-TTCATA-TCATATTAT
1 TTA-TATT-ATATTCATATTAT
2576677 GTGATCTTTA
Statistics
Matches: 39, Mismatches: 5, Indels: 8
0.75 0.10 0.15
Matches are distributed among these distances:
27 1 0.03
28 34 0.87
29 4 0.10
ACGTcount: A:0.32, C:0.05, G:0.00, T:0.63
Consensus pattern (28 bp):
TTATATTATATTCATATTATTTTTAATA
Found at i:2576986 original size:22 final size:22
Alignment explanation
Indices: 2576959--2577000 Score: 68
Period size: 22 Copynumber: 1.9 Consensus size: 22
2576949 TAATGTTATT
2576959 TTTATAAATATAAA-TAAATTTA
1 TTTATAAAT-TAAATTAAATTTA
2576981 TTTATAAATTAAATTAAATT
1 TTTATAAATTAAATTAAATT
2577001 ACGATTCAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
21 4 0.21
22 15 0.79
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (22 bp):
TTTATAAATTAAATTAAATTTA
Found at i:2577314 original size:13 final size:13
Alignment explanation
Indices: 2577296--2577335 Score: 53
Period size: 13 Copynumber: 3.1 Consensus size: 13
2577286 ATAAAGAAAT
*
2577296 TTAAAATTTAATA
1 TTAAAATTTAAAA
*
2577309 TTAAAAGTTAAAA
1 TTAAAATTTAAAA
*
2577322 TTAAAATTAAAAA
1 TTAAAATTTAAAA
2577335 T
1 T
2577336 CATCAAAACA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
13 23 1.00
ACGTcount: A:0.60, C:0.00, G:0.03, T:0.38
Consensus pattern (13 bp):
TTAAAATTTAAAA
Found at i:2578080 original size:20 final size:21
Alignment explanation
Indices: 2578055--2578098 Score: 63
Period size: 22 Copynumber: 2.1 Consensus size: 21
2578045 TTATTAATAA
*
2578055 ATATTA-TAGTTATATAAATT
1 ATATTACTAATTATATAAATT
2578075 ATATTAGCTAATTATATAAATT
1 ATATTA-CTAATTATATAAATT
2578097 AT
1 AT
2578099 TATGATTAGT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 6 0.29
22 15 0.71
ACGTcount: A:0.45, C:0.02, G:0.05, T:0.48
Consensus pattern (21 bp):
ATATTACTAATTATATAAATT
Found at i:2578384 original size:19 final size:19
Alignment explanation
Indices: 2578341--2578384 Score: 54
Period size: 19 Copynumber: 2.3 Consensus size: 19
2578331 ACATATTTTT
*
2578341 ATTATATTTACACATATAC
1 ATTATATTTACACAAATAC
*
2578360 ACTATATATTACACAAAT-C
1 ATTATAT-TTACACAAATAC
2578379 ATTATA
1 ATTATA
2578385 GTCTAAATAA
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
19 12 0.57
20 9 0.43
ACGTcount: A:0.45, C:0.16, G:0.00, T:0.39
Consensus pattern (19 bp):
ATTATATTTACACAAATAC
Found at i:2578520 original size:19 final size:19
Alignment explanation
Indices: 2578461--2578525 Score: 69
Period size: 19 Copynumber: 3.4 Consensus size: 19
2578451 TAATGTTTAT
* *
2578461 ATATAATAGA-TTACATAA
1 ATATTATAGATTTATATAA
* *
2578479 ATATTATTGGATTATATACAA
1 ATATTA-TAGATT-TATATAA
2578500 ATATTATAGATTTATATAA
1 ATATTATAGATTTATATAA
2578519 ATATTAT
1 ATATTAT
2578526 TGAAATTGTA
Statistics
Matches: 38, Mismatches: 6, Indels: 5
0.78 0.12 0.10
Matches are distributed among these distances:
18 5 0.13
19 16 0.42
20 6 0.16
21 11 0.29
ACGTcount: A:0.48, C:0.03, G:0.06, T:0.43
Consensus pattern (19 bp):
ATATTATAGATTTATATAA
Found at i:2578904 original size:30 final size:29
Alignment explanation
Indices: 2578826--2578909 Score: 80
Period size: 30 Copynumber: 2.9 Consensus size: 29
2578816 CATTAGAGTT
* * *
2578826 TAGGTAATGTTTGTATGTAATATATTTTA
1 TAGGTAATGTTTTTATGTAAAAAATTTTA
* ** *
2578855 TGGGTAATGTAATTGTGTAAAGAAATTTTGA
1 TAGGTAATGTTTTTATGTAAA-AAATTTT-A
2578886 -AGGTAATGTTTTTATGTAAAAAAT
1 TAGGTAATGTTTTTATGTAAAAAAT
2578910 AATATATAAA
Statistics
Matches: 42, Mismatches: 11, Indels: 4
0.74 0.19 0.07
Matches are distributed among these distances:
29 19 0.45
30 22 0.52
31 1 0.02
ACGTcount: A:0.36, C:0.00, G:0.20, T:0.44
Consensus pattern (29 bp):
TAGGTAATGTTTTTATGTAAAAAATTTTA
Found at i:2578954 original size:19 final size:19
Alignment explanation
Indices: 2578930--2578970 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
2578920 CGCTGTTGGA
*
2578930 TTACATACAA-ATTATAGAT
1 TTACATAAAATATTATAG-T
2578949 TTACATAAAATATTATAGT
1 TTACATAAAATATTATAGT
2578968 TTA
1 TTA
2578971 AGTATATTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
19 13 0.65
20 7 0.35
ACGTcount: A:0.46, C:0.07, G:0.05, T:0.41
Consensus pattern (19 bp):
TTACATAAAATATTATAGT
Found at i:2579433 original size:32 final size:32
Alignment explanation
Indices: 2579364--2579453 Score: 94
Period size: 32 Copynumber: 2.9 Consensus size: 32
2579354 GGTTCGAGCC
* * * *
2579364 ATTTCGGGTTTGGGTCATTTTGGATTTGGGTT
1 ATTTCAGGTTCGGGTCATTTCGGATTTAGGTT
*
2579396 ATTTCAGGTTCGGGTCATTTCGGGTTTAGGTT
1 ATTTCAGGTTCGGGTCATTTCGGATTTAGGTT
* * *
2579428 GTTTCA-GTTCGGGCCA-ATCGGATTTA
1 ATTTCAGGTTCGGGTCATTTCGGATTTA
2579454 ACACTCAGGT
Statistics
Matches: 49, Mismatches: 9, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
30 8 0.16
31 9 0.18
32 32 0.65
ACGTcount: A:0.13, C:0.12, G:0.31, T:0.43
Consensus pattern (32 bp):
ATTTCAGGTTCGGGTCATTTCGGATTTAGGTT
Found at i:2580464 original size:16 final size:16
Alignment explanation
Indices: 2580443--2580557 Score: 86
Period size: 16 Copynumber: 7.2 Consensus size: 16
2580433 TACTTATTCA
2580443 GGTCATTTCGGGTTCG
1 GGTCATTTCGGGTTCG
*
2580459 GGTCATTTCAGGTTCG
1 GGTCATTTCGGGTTCG
** *
2580475 GGTCATTTTAGGTTCA
1 GGTCATTTCGGGTTCG
* * * **
2580491 TGTCATTTTGGATTTA
1 GGTCATTTCGGGTTCG
* *
2580507 GGTCATTTTGGATTCG
1 GGTCATTTCGGGTTCG
*
2580523 AGTCATTTCGGGTTCG
1 GGTCATTTCGGGTTCG
** * *
2580539 AATCAGTTCGGATTCG
1 GGTCATTTCGGGTTCG
2580555 GGT
1 GGT
2580558 TGTTGACTTT
Statistics
Matches: 81, Mismatches: 18, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
16 81 1.00
ACGTcount: A:0.15, C:0.15, G:0.30, T:0.41
Consensus pattern (16 bp):
GGTCATTTCGGGTTCG
Found at i:2583581 original size:40 final size:40
Alignment explanation
Indices: 2583535--2583666 Score: 106
Period size: 40 Copynumber: 3.2 Consensus size: 40
2583525 AAAAATAAAC
2583535 AAAATTTTAGAAATGAAAAAAAAAAGATCACAATAATGGG
1 AAAATTTTAGAAATGAAAAAAAAAAGATCACAATAATGGG
* *** * * * **
2583575 AAAATTTTGATTGAAAATCTAAAAGTCCAAAGTTAAAAATAA--AC
1 AAAATTTT-A--G-AAAT-GAAAA-AAAAAAGATCACAATAATGGG
*
2583619 AAAATTTTAGAAATGAAAAAAATAAGATCACAATAATGGG
1 AAAATTTTAGAAATGAAAAAAAAAAGATCACAATAATGGG
2583659 AAAATTTT
1 AAAATTTT
2583667 GATTGAAAAT
Statistics
Matches: 65, Mismatches: 19, Indels: 16
0.65 0.19 0.16
Matches are distributed among these distances:
38 10 0.15
39 4 0.06
40 20 0.31
41 2 0.03
43 2 0.03
44 12 0.18
45 4 0.06
46 11 0.17
ACGTcount: A:0.57, C:0.06, G:0.12, T:0.25
Consensus pattern (40 bp):
AAAATTTTAGAAATGAAAAAAAAAAGATCACAATAATGGG
Found at i:2583590 original size:38 final size:38
Alignment explanation
Indices: 2583548--2583675 Score: 89
Period size: 38 Copynumber: 3.2 Consensus size: 38
2583538 ATTTTAGAAA
2583548 TGAAAAAAAAAAGATCACAATAATGGGAAAATTTTGAT
1 TGAAAAAAAAAAGATCACAATAATGGGAAAATTTTGAT
** *** *
2583586 TGAAAATCTAAAAG-TC-CAAAGTTAAAAATAAACAAAATTTTAGAAA
1 TGAAAA-AAAAAAGATCAC-AA--T---AAT-GGGAAAATTTT-G-AT
*
2583632 TGAAAAAAATAAGATCACAATAATGGGAAAATTTTGAT
1 TGAAAAAAAAAAGATCACAATAATGGGAAAATTTTGAT
2583670 TGAAAA
1 TGAAAA
2583676 TCCCAAATTC
Statistics
Matches: 65, Mismatches: 13, Indels: 24
0.64 0.13 0.24
Matches are distributed among these distances:
37 1 0.02
38 17 0.26
39 6 0.09
40 9 0.14
41 3 0.05
43 3 0.05
44 9 0.14
45 5 0.08
46 11 0.17
47 1 0.02
ACGTcount: A:0.56, C:0.06, G:0.13, T:0.24
Consensus pattern (38 bp):
TGAAAAAAAAAAGATCACAATAATGGGAAAATTTTGAT
Found at i:2583598 original size:84 final size:84
Alignment explanation
Indices: 2583510--2583677 Score: 318
Period size: 84 Copynumber: 2.0 Consensus size: 84
2583500 AACTAGCTTG
2583510 TAAAAGTCCAAAATTAAAAATAAACAAAATTTTAGAAATGAAAAAAAAAAGATCACAATAATGGG
1 TAAAAGTCCAAAATTAAAAATAAACAAAATTTTAGAAATGAAAAAAAAAAGATCACAATAATGGG
2583575 AAAATTTTGATTGAAAATC
66 AAAATTTTGATTGAAAATC
* *
2583594 TAAAAGTCCAAAGTTAAAAATAAACAAAATTTTAGAAATGAAAAAAATAAGATCACAATAATGGG
1 TAAAAGTCCAAAATTAAAAATAAACAAAATTTTAGAAATGAAAAAAAAAAGATCACAATAATGGG
2583659 AAAATTTTGATTGAAAATC
66 AAAATTTTGATTGAAAATC
2583678 CCAAATTCGT
Statistics
Matches: 82, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
84 82 1.00
ACGTcount: A:0.57, C:0.07, G:0.11, T:0.24
Consensus pattern (84 bp):
TAAAAGTCCAAAATTAAAAATAAACAAAATTTTAGAAATGAAAAAAAAAAGATCACAATAATGGG
AAAATTTTGATTGAAAATC
Found at i:2585118 original size:20 final size:22
Alignment explanation
Indices: 2585089--2585132 Score: 65
Period size: 21 Copynumber: 2.1 Consensus size: 22
2585079 AATAAATTTT
*
2585089 TATAT-TTTTTAAT-TTATTAA
1 TATATATTTTTAATATTAGTAA
2585109 TATATATTTTTAATATTAGTAA
1 TATATATTTTTAATATTAGTAA
2585131 TA
1 TA
2585133 ACTATAATAT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 5 0.24
21 8 0.38
22 8 0.38
ACGTcount: A:0.39, C:0.00, G:0.02, T:0.59
Consensus pattern (22 bp):
TATATATTTTTAATATTAGTAA
Found at i:2585177 original size:17 final size:19
Alignment explanation
Indices: 2585145--2585179 Score: 56
Period size: 17 Copynumber: 1.9 Consensus size: 19
2585135 TATAATATAT
2585145 TAATAAAAATTTTTATTTA
1 TAATAAAAATTTTTATTTA
2585164 TAAT-AAAA-TTTTATTT
1 TAATAAAAATTTTTATTT
2585180 TTTTATTAGG
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 8 0.50
18 4 0.25
19 4 0.25
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (19 bp):
TAATAAAAATTTTTATTTA
Found at i:2585477 original size:19 final size:20
Alignment explanation
Indices: 2585440--2585477 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
2585430 AAAAATATAA
*
2585440 TTTTATAAAATAATTTTATT
1 TTTTATAAAATAATATTATT
*
2585460 TTTTATTAAAT-ATATTAT
1 TTTTATAAAATAATATTAT
2585478 ATATATAAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
19 6 0.38
20 10 0.62
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (20 bp):
TTTTATAAAATAATATTATT
Found at i:2586944 original size:16 final size:15
Alignment explanation
Indices: 2586912--2586955 Score: 54
Period size: 16 Copynumber: 2.9 Consensus size: 15
2586902 AATTTAGATT
*
2586912 TTTTAAGAATCA-AA
1 TTTTAAAAATCATAA
2586926 TTTTAAAAATCATAGA
1 TTTTAAAAATCATA-A
*
2586942 TTTTTAAAATCATA
1 TTTTAAAAATCATA
2586956 TATCTATAAG
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
14 11 0.42
15 1 0.04
16 14 0.54
ACGTcount: A:0.48, C:0.07, G:0.05, T:0.41
Consensus pattern (15 bp):
TTTTAAAAATCATAA
Found at i:2591869 original size:36 final size:34
Alignment explanation
Indices: 2591771--2591879 Score: 107
Period size: 36 Copynumber: 3.2 Consensus size: 34
2591761 GATCAGCATC
* **
2591771 AATCATAGATTTTCTAAGAATC-AGA-TTTTAGG
1 AATCATAGATTTTTTAAGAATCTAGATTTTTAAA
* *
2591803 AATCACAGATTTTTTAAGAACCTTAGATTTTCTAAA
1 AATCATAGATTTTTTAAGAATC-TAGATTTT-TAAA
* *
2591839 AATCATAGATTTTTTAAGAATCATACATTTTT-AG
1 AATCATAGATTTTTTAAGAATC-TAGATTTTTAAA
2591873 AATCATA
1 AATCATA
2591880 TATTCATAGA
Statistics
Matches: 63, Mismatches: 10, Indels: 6
0.80 0.13 0.08
Matches are distributed among these distances:
32 19 0.30
34 11 0.17
35 4 0.06
36 29 0.46
ACGTcount: A:0.39, C:0.11, G:0.10, T:0.39
Consensus pattern (34 bp):
AATCATAGATTTTTTAAGAATCTAGATTTTTAAA
Found at i:2591874 original size:16 final size:18
Alignment explanation
Indices: 2591796--2591879 Score: 73
Period size: 18 Copynumber: 4.8 Consensus size: 18
2591786 AAGAATCAGA
* * *
2591796 TTTTAGGAATCACAGATT
1 TTTTAAGAATCATACATT
* * *
2591814 TTTTAAGAACCTTAGATT
1 TTTTAAGAATCATACATT
* * *
2591832 TTCTAAAAATCATAGATT
1 TTTTAAGAATCATACATT
2591850 TTTTAAGAATCATACA-T
1 TTTTAAGAATCATACATT
2591867 TTTT-AGAATCATA
1 TTTTAAGAATCATA
2591880 TATTCATAGA
Statistics
Matches: 55, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
16 9 0.16
17 5 0.09
18 41 0.75
ACGTcount: A:0.38, C:0.11, G:0.10, T:0.42
Consensus pattern (18 bp):
TTTTAAGAATCATACATT
Found at i:2595012 original size:21 final size:21
Alignment explanation
Indices: 2594986--2595029 Score: 88
Period size: 21 Copynumber: 2.1 Consensus size: 21
2594976 TTTGACAACT
2594986 TGATATCCAAGTTAGCGTCTA
1 TGATATCCAAGTTAGCGTCTA
2595007 TGATATCCAAGTTAGCGTCTA
1 TGATATCCAAGTTAGCGTCTA
2595028 TG
1 TG
2595030 GAATACTTGA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.27, C:0.18, G:0.20, T:0.34
Consensus pattern (21 bp):
TGATATCCAAGTTAGCGTCTA
Found at i:2595621 original size:16 final size:16
Alignment explanation
Indices: 2595575--2595623 Score: 62
Period size: 16 Copynumber: 3.1 Consensus size: 16
2595565 TATAACCAAA
*
2595575 TGCTTTAACATATATT
1 TGCTTTAAAATATATT
* *
2595591 TGCCTTAAAAAATATT
1 TGCTTTAAAATATATT
*
2595607 TGCTTTAAGATATATT
1 TGCTTTAAAATATATT
2595623 T
1 T
2595624 ATTAATATTC
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
16 27 1.00
ACGTcount: A:0.35, C:0.10, G:0.08, T:0.47
Consensus pattern (16 bp):
TGCTTTAAAATATATT
Found at i:2604183 original size:14 final size:14
Alignment explanation
Indices: 2604137--2604174 Score: 51
Period size: 14 Copynumber: 2.7 Consensus size: 14
2604127 TCGTATCTGT
2604137 AAATTTTTTTCAAC-
1 AAATTTTTTTC-ACG
*
2604151 AAATTTTTTTCGCG
1 AAATTTTTTTCACG
2604165 AAATTTTTTT
1 AAATTTTTTT
2604175 TACGGAATTA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
13 1 0.05
14 21 0.95
ACGTcount: A:0.29, C:0.11, G:0.05, T:0.55
Consensus pattern (14 bp):
AAATTTTTTTCACG
Found at i:2612144 original size:2 final size:2
Alignment explanation
Indices: 2612137--2612163 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
2612127 TACTATCAAA
2612137 TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC T
2612164 AACAAAATCT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:2613770 original size:30 final size:34
Alignment explanation
Indices: 2613729--2613789 Score: 85
Period size: 31 Copynumber: 1.9 Consensus size: 34
2613719 CATAGATTAC
2613729 ACAACAACAAAA-ATAA-AATAAAAA-AATAGTT
1 ACAACAACAAAATATAATAATAAAAATAATAGTT
*
2613760 ACAAC-ACAAAATATAATATTAAAAATAATA
1 ACAACAACAAAATATAATAATAAAAATAATA
2613790 TTAATATGAA
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
30 6 0.23
31 9 0.35
32 7 0.27
33 4 0.15
ACGTcount: A:0.69, C:0.10, G:0.02, T:0.20
Consensus pattern (34 bp):
ACAACAACAAAATATAATAATAAAAATAATAGTT
Found at i:2614863 original size:7 final size:7
Alignment explanation
Indices: 2614848--2614889 Score: 66
Period size: 7 Copynumber: 6.0 Consensus size: 7
2614838 TATAATTTAA
2614848 AAATTTT
1 AAATTTT
*
2614855 AAATATT
1 AAATTTT
*
2614862 AAAATTT
1 AAATTTT
2614869 AAATTTT
1 AAATTTT
2614876 AAATTTT
1 AAATTTT
2614883 AAATTTT
1 AAATTTT
2614890 TTGAATATCA
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
7 31 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (7 bp):
AAATTTT
Found at i:2626025 original size:51 final size:50
Alignment explanation
Indices: 2625889--2626026 Score: 152
Period size: 54 Copynumber: 2.6 Consensus size: 50
2625879 AAAGTTAGTA
* *
2625889 TTTTAGAGATAACAACGGGGCTAGAGTATCCCCGATTATGGAAAAACGATG
1 TTTTAGAAATAA-AACGGGGTTAGAGTATCCCCGATTATGGAAAAACGATG
* * *
2625940 TTCTAAAAAAAATAAAATCGGGGTTAGAGTATCCCCGATTAT-GAAAAATTGATG
1 TT-T--TAGAAATAAAA-CGGGGTTAGAGTATCCCCGATTATGGAAAAA-CGATG
*
2625994 TTTTAGAAATAAAACCGGGGTTGGAGTATCCCC
1 TTTTAGAAATAAAA-CGGGGTTAGAGTATCCCC
2626027 TCGGAAATAA
Statistics
Matches: 73, Mismatches: 9, Indels: 10
0.79 0.10 0.11
Matches are distributed among these distances:
51 28 0.38
52 1 0.01
53 9 0.12
54 35 0.48
ACGTcount: A:0.37, C:0.14, G:0.22, T:0.26
Consensus pattern (50 bp):
TTTTAGAAATAAAACGGGGTTAGAGTATCCCCGATTATGGAAAAACGATG
Found at i:2626089 original size:79 final size:79
Alignment explanation
Indices: 2625958--2626661 Score: 1129
Period size: 79 Copynumber: 8.9 Consensus size: 79
2625948 AAAATAAAAT
* * *
2625958 CGGGGTTAGAGTATCCCCGATTATGAAAAATTGATGTTTTAGAAATAAAACCGGGGTTGGAGTAT
1 CGGGGTTGGAGTATCCCCGATTGTGAAAAATTAATGTTTTAGAAATAAAACCGGGGTTGGAGTAT
2626023 CCCCTCGGAAATAA
66 CCCCTCGGAAATAA
* **
2626037 CGGGGTTGGAGTATCCCCGATTATGAAAAATTGGTGTTTTAGAAATAAAACCGGGGTTGGAGTAT
1 CGGGGTTGGAGTATCCCCGATTGTGAAAAATTAATGTTTTAGAAATAAAACCGGGGTTGGAGTAT
*
2626102 CCTCTCGGAAATAA
66 CCCCTCGGAAATAA
* *
2626116 CGAGGTTGGAGTATCCCCGATTGTGAAAAATTAATGTTTTAGAGATAAAACCGGGGTTGGAGTAT
1 CGGGGTTGGAGTATCCCCGATTGTGAAAAATTAATGTTTTAGAAATAAAACCGGGGTTGGAGTAT
*
2626181 CCCCTCGAAAATAA
66 CCCCTCGGAAATAA
* *
2626195 CGGGGTTGGAGTATCCCCGATTGTGAAAAATTAATATTTTAGAAATAAAGCCGGGGTTGGAGTAT
1 CGGGGTTGGAGTATCCCCGATTGTGAAAAATTAATGTTTTAGAAATAAAACCGGGGTTGGAGTAT
2626260 CCCCTCGGAAATAA
66 CCCCTCGGAAATAA
** * *
2626274 TAGGGTTGGAGTATCCCCGATTGTGAAAAATTAATATTTTAGAAATAAAGCCGGGGTTGGAGTAT
1 CGGGGTTGGAGTATCCCCGATTGTGAAAAATTAATGTTTTAGAAATAAAACCGGGGTTGGAGTAT
*
2626339 CCCCTCAGAAATAA
66 CCCCTCGGAAATAA
* * *
2626353 CGGGGTTGGAGTATCCCCGATTATGAAAAATTGATGTTTTAGAGATAAAACCGGGGTTGGAGTAT
1 CGGGGTTGGAGTATCCCCGATTGTGAAAAATTAATGTTTTAGAAATAAAACCGGGGTTGGAGTAT
*
2626418 CCCCTCGAAAATAA
66 CCCCTCGGAAATAA
* *
2626432 CGGGGTTGGAGTATCCCCGATTGTGAAAAATTAATATTTTAGAAATAAAGCCGGGGTTGGAGTAT
1 CGGGGTTGGAGTATCCCCGATTGTGAAAAATTAATGTTTTAGAAATAAAACCGGGGTTGGAGTAT
2626497 CCCCTCGGAAATAA
66 CCCCTCGGAAATAA
* * *
2626511 TGGGGTTGGAGTATCCCCGATTGTGAAAAATTAATATTTTAGAAATAAAGCCGGGGTTGGAGTAT
1 CGGGGTTGGAGTATCCCCGATTGTGAAAAATTAATGTTTTAGAAATAAAACCGGGGTTGGAGTAT
*
2626576 CCCCTCGAAAATAA
66 CCCCTCGGAAATAA
* * * *
2626590 CGGGGTTGGAGTATCCCTGATTATGAAAAATTGATGTTTTAGAGATAAAACCGGGGTTGGAGTAT
1 CGGGGTTGGAGTATCCCCGATTGTGAAAAATTAATGTTTTAGAAATAAAACCGGGGTTGGAGTAT
2626655 CCCCTCG
66 CCCCTCG
2626662 ATTAAAGGAA
Statistics
Matches: 583, Mismatches: 42, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
79 583 1.00
ACGTcount: A:0.32, C:0.15, G:0.26, T:0.27
Consensus pattern (79 bp):
CGGGGTTGGAGTATCCCCGATTGTGAAAAATTAATGTTTTAGAAATAAAACCGGGGTTGGAGTAT
CCCCTCGGAAATAA
Found at i:2626682 original size:53 final size:51
Alignment explanation
Indices: 2626590--2626716 Score: 163
Period size: 53 Copynumber: 2.5 Consensus size: 51
2626580 TCGAAAATAA
*
2626590 CGGGGTTGGAGTAT-CCCTGATTATGAAAAATTGATGTTTT-AGAGATAAAAC
1 CGGGGTTGGAGTATCCCCTGATTA-GAAAAATTGATGTTTTGA-AAATAAAAC
*
2626641 CGGGGTTGGAGTATCCCCTCGATTA-AAGGAAATTGGTGTTTTGAAAATAAAAC
1 CGGGGTTGGAGTATCCCCT-GATTAGAA--AAATTGATGTTTTGAAAATAAAAC
2626694 CGGGGTTGGAGTATCCCC-GATTA
1 CGGGGTTGGAGTATCCCCTGATTA
2626717 CGAGCAATTG
Statistics
Matches: 69, Mismatches: 2, Indels: 10
0.85 0.02 0.12
Matches are distributed among these distances:
51 21 0.30
52 4 0.06
53 43 0.62
54 1 0.01
ACGTcount: A:0.30, C:0.13, G:0.28, T:0.29
Consensus pattern (51 bp):
CGGGGTTGGAGTATCCCCTGATTAGAAAAATTGATGTTTTGAAAATAAAAC
Found at i:2627037 original size:27 final size:27
Alignment explanation
Indices: 2627006--2627061 Score: 103
Period size: 27 Copynumber: 2.1 Consensus size: 27
2626996 CCATCATATT
*
2627006 ATGCCTTCATTTTTTTATTCCATGCCC
1 ATGCCTTCATTTTTATATTCCATGCCC
2627033 ATGCCTTCATTTTTATATTCCATGCCC
1 ATGCCTTCATTTTTATATTCCATGCCC
2627060 AT
1 AT
2627062 CATTTCGTGT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.18, C:0.29, G:0.07, T:0.46
Consensus pattern (27 bp):
ATGCCTTCATTTTTATATTCCATGCCC
Found at i:2627738 original size:40 final size:40
Alignment explanation
Indices: 2627692--2627823 Score: 131
Period size: 42 Copynumber: 3.2 Consensus size: 40
2627682 TCCCACTTTT
*
2627692 TTGAGGACAAAGAAAAAAGGAATGAAATAG-GTCCTGCTCC
1 TTGAGGACAAAGAAAAAAGGAAAGAAA-AGTGTCCTGCTCC
* * *
2627732 TTGAGGACAAAGGAAAAGAAGAAAAGGAAAGTGTCCTGCTTC
1 TTGAGGACAAA-GAAAA-AAGGAAAGAAAAGTGTCCTGCTCC
* ** * *
2627774 TTGAGGACAAAGTGAAAAAGGGAAAGAAGTGTGCCCTGCTCT
1 TTGAGGACAAA--GAAAAAAGGAAAGAAAAGTGTCCTGCTCC
2627816 TTGAGGAC
1 TTGAGGAC
2627824 TGAAAAGTGC
Statistics
Matches: 75, Mismatches: 13, Indels: 6
0.80 0.14 0.06
Matches are distributed among these distances:
40 11 0.15
41 7 0.09
42 52 0.69
43 5 0.07
ACGTcount: A:0.39, C:0.14, G:0.29, T:0.18
Consensus pattern (40 bp):
TTGAGGACAAAGAAAAAAGGAAAGAAAAGTGTCCTGCTCC
Found at i:2627908 original size:61 final size:60
Alignment explanation
Indices: 2627808--2627979 Score: 231
Period size: 61 Copynumber: 2.8 Consensus size: 60
2627798 AGAAGTGTGC
* * *
2627808 CCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTCGTGTGGTCTTTG-AAAAGAAAAGGCGT
1 CCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTAGTGTGGGCTTTGAAAAAG-AAA-GCAT
* *
2627869 CCTGCTCTTTGAGGACT-AGAAGATGCCACCAACTAGTGTGGGATTTGCAAAAAGAAAGCAT
1 CCTGCTCTTTGAGGACTGAAAAG-TGCCACCAACTAGTGTGGGCTTTG-AAAAAGAAAGCAT
* *
2627930 CCTGCTTTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTGAAA
1 CCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTAGTGTGGGCTTTGAAA
2627980 GGCGTCTTGC
Statistics
Matches: 98, Mismatches: 9, Indels: 9
0.84 0.08 0.08
Matches are distributed among these distances:
60 7 0.07
61 79 0.81
62 7 0.07
63 5 0.05
ACGTcount: A:0.28, C:0.20, G:0.26, T:0.26
Consensus pattern (60 bp):
CCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTAGTGTGGGCTTTGAAAAAGAAAGCAT
Found at i:2628075 original size:155 final size:154
Alignment explanation
Indices: 2627866--2628631 Score: 845
Period size: 155 Copynumber: 4.8 Consensus size: 154
2627856 AAAGAAAAGG
* * *
2627866 CGTCCTGCTCTTTGAGGACTA-GAAGATGCCACCAACTAGTGTGGGATTTGCAAAAAGAAAGCAT
1 CGTCCTGCTCTTTGAGGACTAGGAAG-TGCCACCAACTTGTGTGGGCTTT-AAAAAAGAAAGCAT
* *
2627930 CCTGCTTTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTGAAAGGCGTCTTGCTCTTT
64 CCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTGAAAGGCGTCCTGCTCTTT
*
2627995 GAGGACAAAAAGGCGAAAGGAGAGAA
129 GAGGACAAAAGGGCGAAAGGAGAGAA
* *
2628021 CGTCCTGCTTTTTAAGGACTAGGAAGTGCCACCAACTTGTGTGGGCTTTACAAAAAGAAAGCATC
1 CGTCCTGCTCTTTGAGGACTAGGAAGTGCCACCAACTTGTGTGGGCTTTA-AAAAAGAAAGCATC
*
2628086 CTGCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTGAAAGGCATCCTGCTCTTTG
65 CTGCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTGAAAGGCGTCCTGCTCTTTG
** * * *
2628151 AGGACTGGAAAATGCCACCAACTAGTGTGGGCTTTAAAA
130 AGGAC---AAAA-G-GGCGAA--A--G-GAG----AGAA
* * *
2628190 GGCGTCATGCTCTTTGAGGACT--GAATGGTGCCAACAACTTGTGTGGGCTTTGAAATGGAA-AA
1 --CGTCCTGCTCTTTGAGGACTAGGAA--GTGCCACCAACTTGTGTGGGCTTT-AAA--AAAGAA
* * *
2628252 AGCGTCTTGCTCTTTGAGGACTG-AAAGTGCCACCAACTTGTATGGGCTTTGAAAGGCGTCCTGC
59 AGCATCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTGAAAGGCGTCCTGC
* * * * *
2628316 TCTTTGAGGACTAAAGGGTGAGAGAAGAGAG
124 TCTTTGAGGACAAAAGGGCGAAAGGAGAGAA
* *
2628347 TGTCCTACTCTTTGAGGACTAGGAAGTGCCACCAACTTGTGTGGGCTTT-AAAAAG--AG--TCC
1 CGTCCTGCTCTTTGAGGACTAGGAAGTGCCACCAACTTGTGTGGGCTTTAAAAAAGAAAGCATCC
*
2628407 TGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAGAAGGCGTCCTGCT
66 TGCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTT-----GA-AAGGCGTCCTGCT
* * *
2628472 CTTTGAGGACTAAAGGGTGAAAGGAGAGAG
125 CTTTGAGGACAAAAGGGCGAAAGGAGAGAA
* *
2628502 CGTCCTGCTCTTTGAGGACTAGGAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAA-AAGGCGT
1 CGTCCTGCTCTTTGAGGACTAGGAAGTGCCACCAACTTGTGTGGGCTTTAAAA--AAGAAAGCAT
* *
2628566 CCTGCTCTTTGAGGACTG-AAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGCGTCCTGCTTTTT
64 CCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTGAAAGGCGTCCTGCTCTTT
2628630 GA
129 GA
2628632 AGACTGAAAG
Statistics
Matches: 524, Mismatches: 47, Indels: 81
0.80 0.07 0.12
Matches are distributed among these distances:
148 18 0.03
149 25 0.05
150 2 0.00
151 2 0.00
153 2 0.00
154 20 0.04
155 251 0.48
156 7 0.01
157 5 0.01
158 6 0.01
159 1 0.00
160 30 0.06
161 20 0.04
162 2 0.00
164 2 0.00
165 2 0.00
166 1 0.00
167 1 0.00
168 3 0.01
169 6 0.01
171 92 0.18
172 24 0.05
173 2 0.00
ACGTcount: A:0.26, C:0.19, G:0.29, T:0.26
Consensus pattern (154 bp):
CGTCCTGCTCTTTGAGGACTAGGAAGTGCCACCAACTTGTGTGGGCTTTAAAAAAGAAAGCATCC
TGCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTGAAAGGCGTCCTGCTCTTTGA
GGACAAAAGGGCGAAAGGAGAGAA
Found at i:2628167 original size:55 final size:54
Alignment explanation
Indices: 2628084--2628327 Score: 308
Period size: 55 Copynumber: 4.3 Consensus size: 54
2628074 AAAGAAAGCA
*
2628084 TCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTGAAAGGCA
1 TCCTGCTCTTTGAGGACTGAAAA-TGCCACCAACTTGTGTGGGCTTTGAAAGGCG
* *
2628139 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTAGTGTGGGCTTTAAAAGGCG
1 TCCTGCTCTTTGAGGACT-GAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGCG
* ** *
2628194 TCATGCTCTTTGAGGACTGAATGGTGCCAACAACTTGTGTGGGCTTTGAAATGGAAAAAGCG
1 TCCTGCTCTTTGAGGACTGAA-AATGCCACCAACTTGTGTGGGCTTTGAAA--G-----GCG
* * *
2628256 TCTTGCTCTTTGAGGACTGAAAGTGCCACCAACTTGTATGGGCTTTGAAAGGCG
1 TCCTGCTCTTTGAGGACTGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGCG
2628310 TCCTGCTCTTTGAGGACT
1 TCCTGCTCTTTGAGGACT
2628328 AAAGGGTGAG
Statistics
Matches: 166, Mismatches: 14, Indels: 19
0.83 0.07 0.10
Matches are distributed among these distances:
54 23 0.14
55 87 0.52
56 5 0.03
57 1 0.01
59 1 0.01
61 26 0.16
62 23 0.14
ACGTcount: A:0.24, C:0.20, G:0.27, T:0.28
Consensus pattern (54 bp):
TCCTGCTCTTTGAGGACTGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGCG
Found at i:2628302 original size:61 final size:62
Alignment explanation
Indices: 2628186--2628305 Score: 188
Period size: 62 Copynumber: 2.0 Consensus size: 62
2628176 TGTGGGCTTT
* * *
2628186 AAAAGGCGTCATGCTCTTTGAGGACTGAATGGTGCCAACAACTTGTGTGGGCTTTGAAATGG
1 AAAAAGCGTCATGCTCTTTGAGGACTGAATAGTGCCAACAACTTGTATGGGCTTTGAAATGG
* *
2628248 AAAAAGCGTCTTGCTCTTTGAGGACTGAA-AGTGCCACCAACTTGTATGGGCTTTGAAA
1 AAAAAGCGTCATGCTCTTTGAGGACTGAATAGTGCCAACAACTTGTATGGGCTTTGAAA
2628306 GGCGTCCTGC
Statistics
Matches: 53, Mismatches: 5, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
61 26 0.49
62 27 0.51
ACGTcount: A:0.28, C:0.17, G:0.28, T:0.28
Consensus pattern (62 bp):
AAAAAGCGTCATGCTCTTTGAGGACTGAATAGTGCCAACAACTTGTATGGGCTTTGAAATGG
Found at i:2628413 original size:55 final size:59
Alignment explanation
Indices: 2628340--2628483 Score: 192
Period size: 55 Copynumber: 2.5 Consensus size: 59
2628330 AGGGTGAGAG
* *
2628340 AAGAG-AGTGTCCTACTCTTTGAGGACTAGGAA-GTGCCACCAACTTGTGTGGGCTTTAA
1 AAGAGAAG-GTCCTGCTCTTTGAGGACTAGAAAGGTGCCACCAACTTGTGTGGGCTTTAA
2628398 AA-AG-A-GTCCTGCTCTTTGAGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTTAA
1 AAGAGAAGGTCCTGCTCTTTGAGGACTAGAAAGGTGCCACCAACTTGTGTGGGCTTTAA
2628453 AAGGAGAAGGCGTCCTGCTCTTTGAGGACTA
1 AA-GAGAA-G-GTCCTGCTCTTTGAGGACTA
2628484 AAGGGTGAAA
Statistics
Matches: 76, Mismatches: 2, Indels: 12
0.84 0.02 0.13
Matches are distributed among these distances:
54 3 0.04
55 46 0.61
57 5 0.07
58 3 0.04
61 19 0.25
ACGTcount: A:0.26, C:0.19, G:0.28, T:0.26
Consensus pattern (59 bp):
AAGAGAAGGTCCTGCTCTTTGAGGACTAGAAAGGTGCCACCAACTTGTGTGGGCTTTAA
Found at i:2628576 original size:100 final size:100
Alignment explanation
Indices: 2628403--2628587 Score: 327
Period size: 100 Copynumber: 1.9 Consensus size: 100
2628393 TTTAAAAAGA
*
2628403 GTCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAGAAGGCGTCC
1 GTCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCGTCC
2628468 TGCTCTTTGAGGACTAAAGGGTGAAAGGAGAGAGC
66 TGCTCTTTGAGGACTAAAGGGTGAAAGGAGAGAGC
*
2628503 GTCCTGCTCTTTGAGGACTAGGAA-GTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCGTC
1 GTCCTGCTCTTTGAGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCGTC
*
2628567 CTGCTCTTTGAGGACTGAAGG
65 CTGCTCTTTGAGGACTAAAGG
2628588 TGCCACCAAC
Statistics
Matches: 81, Mismatches: 3, Indels: 2
0.94 0.03 0.02
Matches are distributed among these distances:
100 78 0.96
101 3 0.04
ACGTcount: A:0.25, C:0.19, G:0.32, T:0.24
Consensus pattern (100 bp):
GTCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCGTCC
TGCTCTTTGAGGACTAAAGGGTGAAAGGAGAGAGC
Found at i:2628911 original size:61 final size:61
Alignment explanation
Indices: 2628501--2629121 Score: 778
Period size: 61 Copynumber: 10.4 Consensus size: 61
2628491 AAAGGAGAGA
*
2628501 GCGTCCTGCTCTTTGAGGACTAG-GAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAG
1 GCGTCCTGCTCTTTGAGGACTAGAG-GGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAG
*
2628562 GCGTCCTGCTCTTTGAGGACT-GAAGGTGCCACCAACTTGTGTGGGCTTT-----G-AAAG
1 GCGTCCTGCTCTTTGAGGACTAGAGGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAG
* * * * *
2628616 GCGTCCTGCTTTTTGAAGACT-GAAAGGTGCCACCAATTTGTGTGGGCTTTGAAAA--AAGAAA
1 GCGTCCTGCTCTTTGAGGACTAG-AGGGTGCCACCAACTTGTGTGGGCTTT-AAAAGGAA-AAG
* * *
2628677 GCATCCTGCTCTTTGAGGACT-GAAGGTGCCACCAACTTGTATGGGCTTT-----G-AAAG
1 GCGTCCTGCTCTTTGAGGACTAGAGGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAG
* ***
2628731 GCGTCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAG
1 GCGTCCTGCTCTTTGAGGACTAGAGGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAG
* * * *
2628792 GCGTCCTACTCTTTGAGGACTGAAAGGGTGCCACCAACTTATGTGGGCTTTAAAAGGAACAG
1 GCGTCCTGCTCTTTGAGGACT-AGAGGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAG
*
2628854 CCGTCCTGCTCTTTGAGGACTAGAGGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAG
1 GCGTCCTGCTCTTTGAGGACTAGAGGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAG
* *
2628915 GCGTCCTACTCTTTGAGGACTAAAGGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAG
1 GCGTCCTGCTCTTTGAGGACTAGAGGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAG
* * *
2628976 CCGTCCTGCTCTTTGAGGACT-GAATGGTGCCACCAACTTGTGTGAGCTTTAAAAGGAAAAG
1 GCGTCCTGCTCTTTGAGGACTAG-AGGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAG
* * * *
2629037 GCGTCCTACTCTTTGAGGACTGAAAGGGTGCCACCAACTTATGTGGGCTTTAAAA-GAACAG
1 GCGTCCTGCTCTTTGAGGACT-AGAGGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAG
*
2629098 CCGTCCTGCTCTTTGAGGACTAGA
1 GCGTCCTGCTCTTTGAGGACTAGA
2629122 ATGGCTAAAA
Statistics
Matches: 492, Mismatches: 47, Indels: 43
0.85 0.08 0.07
Matches are distributed among these distances:
54 46 0.09
55 53 0.11
60 54 0.11
61 259 0.53
62 80 0.16
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.26
Consensus pattern (61 bp):
GCGTCCTGCTCTTTGAGGACTAGAGGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAG
Found at i:2629005 original size:122 final size:121
Alignment explanation
Indices: 2628502--2629122 Score: 853
Period size: 115 Copynumber: 5.2 Consensus size: 121
2628492 AAGGAGAGAG
2628502 CGTCCTGCTCTTTGAGGACTAGGAA-GTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCGT
1 CGTCCTGCTCTTTGAGGACTA-GAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCGT
* * *
2628566 CCTGCTCTTTGAGGACTGAA-GGTGCCACCAACTTGTGTGGGCTTT----G-AAAGG
65 CCTACTCTTTGAGGACTAAAGGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGC
* * * *
2628617 CGTCCTGCTTTTTGAAGACT-GAAAGGTGCCACCAATTTGTGTGGGCTTTGAAAA--AAGAAAGC
1 CGTCCTGCTCTTTGAGGACTAG-AAGGTGCCACCAACTTGTGTGGGCTTT-AAAAGGAA-AAGGC
* * * * *
2628679 ATCCTGCTCTTTGAGGACTGAA-GGTGCCACCAACTTGTATGGGCTTT----G-AAAGG
63 GTCCTACTCTTTGAGGACTAAAGGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGC
* **
2628732 CGTCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCGTC
1 CGTCCTGCTCTTTGAGGACTAGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCGTC
* *
2628797 CTACTCTTTGAGGACTGAAAGGGTGCCACCAACTTATGTGGGCTTTAAAAGGAACAGC
66 CTACTCTTTGAGGACT-AAAGGGTGCCACCAACTTGTGTGGGCTTTAAAA-GAAAAGC
*
2628855 CGTCCTGCTCTTTGAGGACTAGAGGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCGTC
1 CGTCCTGCTCTTTGAGGACTAGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCGTC
2628920 CTACTCTTTGAGGACTAAAGGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGC
66 CTACTCTTTGAGGACTAAAGGGTGCCACCAACTTGTGTGGGCTTTAAAA-GAAAAGC
*
2628977 CGTCCTGCTCTTTGAGGACT-GAATGGTGCCACCAACTTGTGTGAGCTTTAAAAGGAAAAGGCGT
1 CGTCCTGCTCTTTGAGGACTAGAA-GGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCGT
* *
2629041 CCTACTCTTTGAGGACTGAAAGGGTGCCACCAACTTATGTGGGCTTTAAAAGAACAGC
65 CCTACTCTTTGAGGACT-AAAGGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGC
2629099 CGTCCTGCTCTTTGAGGACTAGAA
1 CGTCCTGCTCTTTGAGGACTAGAA
2629123 TGGCTAAAAG
Statistics
Matches: 459, Mismatches: 29, Indels: 28
0.89 0.06 0.05
Matches are distributed among these distances:
113 1 0.00
114 8 0.02
115 159 0.35
116 9 0.02
117 23 0.05
121 2 0.00
122 142 0.31
123 115 0.25
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.26
Consensus pattern (121 bp):
CGTCCTGCTCTTTGAGGACTAGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCGTC
CTACTCTTTGAGGACTAAAGGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGC
Found at i:2635383 original size:79 final size:79
Alignment explanation
Indices: 2635252--2635718 Score: 763
Period size: 79 Copynumber: 5.9 Consensus size: 79
2635242 AAAATAAAAT
* *
2635252 CGGGGTTAGAGTATCCCCGATTATGAAAAATTGATGTTTTAGAAATAAAACCGGGGTTGGAGTAT
1 CGGGGTTGGAGTATCCCCGATTATGAAAAATTAATGTTTTAGAAATAAAACCGGGGTTGGAGTAT
2635317 CCCCTCGGAAATAA
66 CCCCTCGGAAATAA
**
2635331 CGGGGTTGGAGTATCCCCGATTATGAAAAATTGGTGTTTTAGAAATAAAACCGGGGTTGGAGTAT
1 CGGGGTTGGAGTATCCCCGATTATGAAAAATTAATGTTTTAGAAATAAAACCGGGGTTGGAGTAT
2635396 CCCCTCGGAAATAA
66 CCCCTCGGAAATAA
* * *
2635410 CGGGGTTGGAGCATCCCCGATTGTGAAAAATTAATGTTTTAGAGATAAAACCGGGGTTGGAGTAT
1 CGGGGTTGGAGTATCCCCGATTATGAAAAATTAATGTTTTAGAAATAAAACCGGGGTTGGAGTAT
*
2635475 CCCCTCGCAAATAA
66 CCCCTCGGAAATAA
* * * *
2635489 CGGGGTTGGAGTATCCCCGATTGTGAAAAATTAATATTTTAGAAATAAAGCCGGGGTTGGAGCAT
1 CGGGGTTGGAGTATCCCCGATTATGAAAAATTAATGTTTTAGAAATAAAACCGGGGTTGGAGTAT
2635554 CCCCTCGGAAATAA
66 CCCCTCGGAAATAA
* * * * *
2635568 TGGGGTTGGAGCATCCCCGATTGTGAAAAATTAATATTTTAGAAATAAAGCCGGGGTTGGAGTAT
1 CGGGGTTGGAGTATCCCCGATTATGAAAAATTAATGTTTTAGAAATAAAACCGGGGTTGGAGTAT
2635633 CCCCTCGGAAATAA
66 CCCCTCGGAAATAA
* *
2635647 CGGGGTTGGAGTATCCCCGATTATGAAAAATTGATGTTTTAGAGATAAAACCGGGGTTGGAGTAT
1 CGGGGTTGGAGTATCCCCGATTATGAAAAATTAATGTTTTAGAAATAAAACCGGGGTTGGAGTAT
2635712 CCCCTCG
66 CCCCTCG
2635719 ATTAAAGGAA
Statistics
Matches: 364, Mismatches: 24, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
79 364 1.00
ACGTcount: A:0.31, C:0.16, G:0.27, T:0.26
Consensus pattern (79 bp):
CGGGGTTGGAGTATCCCCGATTATGAAAAATTAATGTTTTAGAAATAAAACCGGGGTTGGAGTAT
CCCCTCGGAAATAA
Found at i:2635739 original size:53 final size:52
Alignment explanation
Indices: 2635647--2635772 Score: 161
Period size: 53 Copynumber: 2.4 Consensus size: 52
2635637 TCGGAAATAA
*
2635647 CGGGGTTGGAGTAT-CCC-CGATTATGAAAAATTGATGTTTT-AGAGATAAAAC
1 CGGGGTTGGAGTATCCCCTCGATTA-GAAAAATTGATGTTTTGA-AAATAAAAC
* *
2635698 CGGGGTTGGAGTATCCCCTCGATTA-AAGGAAATTGGTGTTTTGAAAATAAAAT
1 CGGGGTTGGAGTATCCCCTCGATTAGAA--AAATTGATGTTTTGAAAATAAAAC
2635751 CGGGGTTGGAGTATCCCCTCGA
1 CGGGGTTGGAGTATCCCCTCGA
2635773 AAATAACGGG
Statistics
Matches: 67, Mismatches: 3, Indels: 8
0.86 0.04 0.10
Matches are distributed among these distances:
51 16 0.24
52 3 0.04
53 47 0.70
54 1 0.01
ACGTcount: A:0.29, C:0.14, G:0.28, T:0.29
Consensus pattern (52 bp):
CGGGGTTGGAGTATCCCCTCGATTAGAAAAATTGATGTTTTGAAAATAAAAC
Found at i:2635786 original size:211 final size:211
Alignment explanation
Indices: 2635531--2635930 Score: 692
Period size: 211 Copynumber: 1.9 Consensus size: 211
2635521 AATATTTTAG
* * *
2635531 AAATAAAGCCGGGGTTGGAGCATCCCCTCGGAAATAATGGGGTTGGAGCATCCCCGATTGTGAAA
1 AAATAAAACCGGGGTTGGAGCATCCCCTCGAAAATAACGGGGTTGGAGCATCCCCGATTGTGAAA
2635596 AATTAATATTTTAGAAATAAAGCCGGGGTTGGAGTATCCCCTCGGAAATAACGGGGTTGGAGTAT
66 AATTAATATTTTAGAAATAAAGCCGGGGTTGGAGTATCCCCTCGGAAATAACGGGGTTGGAGTAT
* * *
2635661 CCCCGATTATGAAAAATTGATGTTTTAGAGATAAAACCGGGGTTGGAGTATCCCCTCGATTAAAG
131 CCCCGATTATGAAAAATTAATATTTTAGAAATAAAACCGGGGTTGGAGTATCCCCTCGATTAAAG
2635726 GAAATTGGTGTTTTGA
196 GAAATTGGTGTTTTGA
* * *
2635742 AAATAAAATCGGGGTTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCGATTGTGAAA
1 AAATAAAACCGGGGTTGGAGCATCCCCTCGAAAATAACGGGGTTGGAGCATCCCCGATTGTGAAA
*
2635807 AATTAATATTTTAGAAATAAAGCCGGGGTTGGAGTATCCCCTTGGAAATAACGGGGTTGGAGTAT
66 AATTAATATTTTAGAAATAAAGCCGGGGTTGGAGTATCCCCTCGGAAATAACGGGGTTGGAGTAT
* *
2635872 CCCCGATTGTGAAAAATTAATATTTTAGAAATAAAGCCGGGGTTGGAGTATCCCCTCGA
131 CCCCGATTATGAAAAATTAATATTTTAGAAATAAAACCGGGGTTGGAGTATCCCCTCGA
2635931 AAATAACGGA
Statistics
Matches: 177, Mismatches: 12, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
211 177 1.00
ACGTcount: A:0.32, C:0.15, G:0.27, T:0.27
Consensus pattern (211 bp):
AAATAAAACCGGGGTTGGAGCATCCCCTCGAAAATAACGGGGTTGGAGCATCCCCGATTGTGAAA
AATTAATATTTTAGAAATAAAGCCGGGGTTGGAGTATCCCCTCGGAAATAACGGGGTTGGAGTAT
CCCCGATTATGAAAAATTAATATTTTAGAAATAAAACCGGGGTTGGAGTATCCCCTCGATTAAAG
GAAATTGGTGTTTTGA
Found at i:2635794 original size:290 final size:290
Alignment explanation
Indices: 2635454--2636058 Score: 1120
Period size: 290 Copynumber: 2.1 Consensus size: 290
2635444 TGTTTTAGAG
*
2635454 ATAAAACCGGGGTTGGAGTATCCCCTCGCAAATAACGGGGTTGGAGTATCCCCGATTGTGAAAAA
1 ATAAAACCGGGGTTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCGATTGTGAAAAA
*
2635519 TTAATATTTTAGAAATAAAGCCGGGGTTGGAGCATCCCCTCGGAAATAATGGGGTTGGAGCATCC
66 TTAATATTTTAGAAATAAAGCCGGGGTTGGAGCATCCCCTCGGAAATAACGGGGTTGGAGCATCC
*
2635584 CCGATTGTGAAAAATTAATATTTTAGAAATAAAGCCGGGGTTGGAGTATCCCCTCGGAAATAACG
131 CCGATTGTGAAAAATTAATATTTTAGAAATAAAGCCGGGGTTGGAGTATCCCCTCGAAAATAACG
*
2635649 GGGTTGGAGTATCCCCGATTATGAAAAATTGATGTTTTAGAGATAAAACCGGGGTTGGAGTATCC
196 GAGTTGGAGTATCCCCGATTATGAAAAATTGATGTTTTAGAGATAAAACCGGGGTTGGAGTATCC
2635714 CCTCGATTAAAGGAAATTGGTGTTTTGAAA
261 CCTCGATTAAAGGAAATTGGTGTTTTGAAA
*
2635744 ATAAAATCGGGGTTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCGATTGTGAAAAA
1 ATAAAACCGGGGTTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCGATTGTGAAAAA
* * *
2635809 TTAATATTTTAGAAATAAAGCCGGGGTTGGAGTATCCCCTTGGAAATAACGGGGTTGGAGTATCC
66 TTAATATTTTAGAAATAAAGCCGGGGTTGGAGCATCCCCTCGGAAATAACGGGGTTGGAGCATCC
2635874 CCGATTGTGAAAAATTAATATTTTAGAAATAAAGCCGGGGTTGGAGTATCCCCTCGAAAATAACG
131 CCGATTGTGAAAAATTAATATTTTAGAAATAAAGCCGGGGTTGGAGTATCCCCTCGAAAATAACG
* *
2635939 GAGTTGGAGTATCCCCGATTGTGAAAAATTGATGTTTTAGAGATAAAACCGGGGTTGGAGTATTC
196 GAGTTGGAGTATCCCCGATTATGAAAAATTGATGTTTTAGAGATAAAACCGGGGTTGGAGTATCC
2636004 CCTCGATTAAAGGAAATTGGTGTTTTGAAA
261 CCTCGATTAAAGGAAATTGGTGTTTTGAAA
2636034 ATAAAACCGGGGTTGGAGTATCCCC
1 ATAAAACCGGGGTTGGAGTATCCCC
2636059 GATTACGAGC
Statistics
Matches: 304, Mismatches: 11, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
290 304 1.00
ACGTcount: A:0.32, C:0.15, G:0.26, T:0.27
Consensus pattern (290 bp):
ATAAAACCGGGGTTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCGATTGTGAAAAA
TTAATATTTTAGAAATAAAGCCGGGGTTGGAGCATCCCCTCGGAAATAACGGGGTTGGAGCATCC
CCGATTGTGAAAAATTAATATTTTAGAAATAAAGCCGGGGTTGGAGTATCCCCTCGAAAATAACG
GAGTTGGAGTATCCCCGATTATGAAAAATTGATGTTTTAGAGATAAAACCGGGGTTGGAGTATCC
CCTCGATTAAAGGAAATTGGTGTTTTGAAA
Found at i:2635827 original size:132 final size:132
Alignment explanation
Indices: 2635610--2635848 Score: 406
Period size: 132 Copynumber: 1.8 Consensus size: 132
2635600 AATATTTTAG
* *
2635610 AAATAAAGCCGGGGTTGGAGTATCCCCTCGGAAATAACGGGGTTGGAGTATCCCCGATTATGAAA
1 AAATAAAACCGGGGTTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCGATTATGAAA
* * *
2635675 AATTGATGTTTTAGAGATAAAACCGGGGTTGGAGTATCCCCTCGATTAAAGGAAATTGGTGTTTT
66 AATTAATATTTTAGAAATAAAACCGGGGTTGGAGTATCCCCTCGATTAAAGGAAATTGGTGTTTT
2635740 GA
131 GA
* *
2635742 AAATAAAATCGGGGTTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCGATTGTGAAA
1 AAATAAAACCGGGGTTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCGATTATGAAA
*
2635807 AATTAATATTTTAGAAATAAAGCCGGGGTTGGAGTATCCCCT
66 AATTAATATTTTAGAAATAAAACCGGGGTTGGAGTATCCCCT
2635849 TGGAAATAAC
Statistics
Matches: 99, Mismatches: 8, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
132 99 1.00
ACGTcount: A:0.31, C:0.15, G:0.27, T:0.27
Consensus pattern (132 bp):
AAATAAAACCGGGGTTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCGATTATGAAA
AATTAATATTTTAGAAATAAAACCGGGGTTGGAGTATCCCCTCGATTAAAGGAAATTGGTGTTTT
GA
Found at i:2635834 original size:79 final size:79
Alignment explanation
Indices: 2635742--2636009 Score: 446
Period size: 79 Copynumber: 3.4 Consensus size: 79
2635732 GGTGTTTTGA
*
2635742 AAATAAAATCGGGGTTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCGATTGTGAAA
1 AAATAAAACCGGGGTTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCGATTGTGAAA
2635807 AATTAATATTTTAG
66 AATTAATATTTTAG
* * *
2635821 AAATAAAGCCGGGGTTGGAGTATCCCCTTGGAAATAACGGGGTTGGAGTATCCCCGATTGTGAAA
1 AAATAAAACCGGGGTTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCGATTGTGAAA
2635886 AATTAATATTTTAG
66 AATTAATATTTTAG
* *
2635900 AAATAAAGCCGGGGTTGGAGTATCCCCTCGAAAATAACGGAGTTGGAGTATCCCCGATTGTGAAA
1 AAATAAAACCGGGGTTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCGATTGTGAAA
* *
2635965 AATTGATGTTTTAG
66 AATTAATATTTTAG
* *
2635979 AGATAAAACCGGGGTTGGAGTATTCCCTCGA
1 AAATAAAACCGGGGTTGGAGTATCCCCTCGA
2636010 TTAAAGGAAA
Statistics
Matches: 177, Mismatches: 12, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
79 177 1.00
ACGTcount: A:0.32, C:0.15, G:0.26, T:0.27
Consensus pattern (79 bp):
AAATAAAACCGGGGTTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCGATTGTGAAA
AATTAATATTTTAG
Found at i:2636021 original size:53 final size:51
Alignment explanation
Indices: 2635941--2636063 Score: 153
Period size: 53 Copynumber: 2.4 Consensus size: 51
2635931 AAATAACGGA
* *
2635941 GTTGGAGTATCCCCGATTGTGAA--AAATTGATGTTTT-AGAGATAAAACCGGG
1 GTTGGAGTATCCCCGA-T-TAAAGGAAATTGATGTTTTGA-AAATAAAACCGGG
*
2635992 GTTGGAGTATTCCCTCGATTAAAGGAAATTGGTGTTTTGAAAATAAAACCGGG
1 GTTGGAGTA-TCCC-CGATTAAAGGAAATTGATGTTTTGAAAATAAAACCGGG
2636045 GTTGGAGTATCCCCGATTA
1 GTTGGAGTATCCCCGATTA
2636064 CGAGCAATTG
Statistics
Matches: 64, Mismatches: 3, Indels: 10
0.83 0.04 0.13
Matches are distributed among these distances:
51 18 0.28
52 9 0.14
53 36 0.56
54 1 0.02
ACGTcount: A:0.30, C:0.13, G:0.27, T:0.30
Consensus pattern (51 bp):
GTTGGAGTATCCCCGATTAAAGGAAATTGATGTTTTGAAAATAAAACCGGG
Found at i:2637348 original size:35 final size:34
Alignment explanation
Indices: 2637282--2637482 Score: 198
Period size: 35 Copynumber: 6.2 Consensus size: 34
2637272 TCCTTTCTAT
* *
2637282 CCATCATTCCATGCCTTCA-ATTTTTATTCCATGC
1 CCATCATT-TATGCCTTCATTTTTTTATTCCATGC
2637316 CCATCATATTATGCCTTCATTTTTTTATTCCATG-
1 CCATCAT-TTATGCCTTCATTTTTTTATTCCATGC
* *
2637350 CC--C----ATGCCTTCATTTTTATATTCCATAC
1 CCATCATTTATGCCTTCATTTTTTTATTCCATGC
* *
2637378 CCATCATTCCATGCCTTCATTTTTATATTCCATGC
1 CCATCATT-TATGCCTTCATTTTTTTATTCCATGC
2637413 CCATCATATTATGCCTTCATTTTTTTATTCCATG-
1 CCATCAT-TTATGCCTTCATTTTTTTATTCCATGC
*
2637447 CC--C----ATGCCTTCATTTTTATATTCCATGC
1 CCATCATTTATGCCTTCATTTTTTTATTCCATGC
2637475 CCATCATT
1 CCATCATT
2637483 CTGTGTTTTT
Statistics
Matches: 142, Mismatches: 8, Indels: 35
0.77 0.04 0.19
Matches are distributed among these distances:
27 45 0.32
28 4 0.03
30 2 0.01
32 2 0.01
34 20 0.14
35 68 0.48
36 1 0.01
ACGTcount: A:0.20, C:0.29, G:0.05, T:0.45
Consensus pattern (34 bp):
CCATCATTTATGCCTTCATTTTTTTATTCCATGC
Found at i:2637373 original size:62 final size:61
Alignment explanation
Indices: 2637290--2637416 Score: 193
Period size: 62 Copynumber: 2.1 Consensus size: 61
2637280 ATCCATCATT
* * *
2637290 CCATGCCTTCAATTTTTATTCCATGCCCATCATAT-TATGCCTTCATTTTTTTATTCCATGC
1 CCATGCCTTCAATTTTTATTCCATACCCATCAT-TCCATGCCTTCATTTTTATATTCCATGC
*
2637351 CCATGCCTTCATTTTTATATTCCATACCCATCATTCCATGCCTTCATTTTTATATTCCATGC
1 CCATGCCTTCAATTTT-TATTCCATACCCATCATTCCATGCCTTCATTTTTATATTCCATGC
2637413 CCAT
1 CCAT
2637417 CATATTATGC
Statistics
Matches: 60, Mismatches: 4, Indels: 3
0.90 0.06 0.04
Matches are distributed among these distances:
61 16 0.27
62 44 0.73
ACGTcount: A:0.20, C:0.30, G:0.06, T:0.44
Consensus pattern (61 bp):
CCATGCCTTCAATTTTTATTCCATACCCATCATTCCATGCCTTCATTTTTATATTCCATGC
Found at i:2637416 original size:97 final size:96
Alignment explanation
Indices: 2637282--2637483 Score: 377
Period size: 97 Copynumber: 2.1 Consensus size: 96
2637272 TCCTTTCTAT
2637282 CCATCATTCCATGCCTTCAATTTTTATTCCATGCCCATCATATTATGCCTTCATTTTTTTATTCC
1 CCATCATTCCATGCCTTCAATTTTTATTCCATGCCCATCATATTATGCCTTCATTTTTTTATTCC
2637347 ATGCCCATGCCTTCATTTTTATATTCCATAC
66 ATGCCCATGCCTTCATTTTTATATTCCATAC
*
2637378 CCATCATTCCATGCCTTCATTTTTATATTCCATGCCCATCATATTATGCCTTCATTTTTTTATTC
1 CCATCATTCCATGCCTTCAATTTT-TATTCCATGCCCATCATATTATGCCTTCATTTTTTTATTC
*
2637443 CATGCCCATGCCTTCATTTTTATATTCCATGC
65 CATGCCCATGCCTTCATTTTTATATTCCATAC
2637475 CCATCATTC
1 CCATCATTC
2637484 TGTGTTTTTT
Statistics
Matches: 103, Mismatches: 2, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
96 23 0.22
97 80 0.78
ACGTcount: A:0.20, C:0.30, G:0.05, T:0.45
Consensus pattern (96 bp):
CCATCATTCCATGCCTTCAATTTTTATTCCATGCCCATCATATTATGCCTTCATTTTTTTATTCC
ATGCCCATGCCTTCATTTTTATATTCCATAC
Found at i:2638664 original size:19 final size:19
Alignment explanation
Indices: 2638642--2638684 Score: 61
Period size: 19 Copynumber: 2.3 Consensus size: 19
2638632 CAACATCAAC
* *
2638642 AAAAAAT-AAATAAAAAAT
1 AAAAAATGAAAAAAAAAAG
2638660 AAAAAATGAAAAAAAAAAG
1 AAAAAATGAAAAAAAAAAG
2638679 AAAAAA
1 AAAAAA
2638685 GAACCTGCTT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
18 7 0.32
19 15 0.68
ACGTcount: A:0.86, C:0.00, G:0.05, T:0.09
Consensus pattern (19 bp):
AAAAAATGAAAAAAAAAAG
Found at i:2639773 original size:61 final size:61
Alignment explanation
Indices: 2639605--2639945 Score: 402
Period size: 61 Copynumber: 5.6 Consensus size: 61
2639595 ACATGACAAC
*
2639605 TTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCCAGTCCTCAAAGAGTAGGATACCT
1 TTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTCAAAGAGTAGGA-ACCT
* * * * * * ** *
2639667 TTTTCCTTTCAAAGCCCATATAAATTTGTGGTACCTTTTGGTCCTCAAAGAGTAGG-ACGT
1 TTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTCAAAGAGTAGGAACCT
* * * *
2639727 ATTTCCCTTTTAAAGTCCACACAAGTTGGTGGCACCTTTCAGTCCTCAAAGAGTAAGAAGCT
1 -TTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTCAAAGAGTAGGAACCT
* * * *
2639789 TTTTCCTTTTAAAGCCCACGCAAGTTGGTGGCACCTTTCAGTCCTTAAAAAGGAGGAACCT
1 TTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTCAAAGAGTAGGAACCT
* * *
2639850 TTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTTCAGTTCTCAAAAAATA-GAACAC-
1 TTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTCAAAGAGTAGGAAC-CT
* * * *
2639910 -TTTCGTTTCAAAGCCCACACAAGTTGTTAGCACCTT
1 TTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTT
2639946 CAAGACGTCC
Statistics
Matches: 236, Mismatches: 40, Indels: 9
0.83 0.14 0.03
Matches are distributed among these distances:
59 32 0.14
60 7 0.03
61 148 0.63
62 49 0.21
ACGTcount: A:0.27, C:0.25, G:0.17, T:0.31
Consensus pattern (61 bp):
TTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTCAAAGAGTAGGAACCT
Found at i:2639855 original size:123 final size:122
Alignment explanation
Indices: 2639605--2640248 Score: 510
Period size: 122 Copynumber: 5.4 Consensus size: 122
2639595 ACATGACAAC
* *
2639605 TTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCCAGTCCTCAAAGAGTAGGATACCTTTT
1 TTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTCAAAGAGTAAGATACCTTTT
* * * * ** * * *
2639670 TCCTTTCAAAGCCCATATAAATTTGTGGTACCTTTTGGTCCTCAAAGAGTAGGACGT
66 TCCTTTCAAAGCCCACACAAATTGGTGGCACCTTTCAGTCCTCAAAAAGGAGGACCT
* * *
2639727 ATTTCCCTTTTAAAGTCCACACAAGTTGGTGGCACCTTTCAGTCCTCAAAGAGTAAGA-AGCTTT
1 -TTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTCAAAGAGTAAGATACCTTT
* * * *
2639791 TTCCTTTTAAAGCCCACGCAAGTTGGTGGCACCTTTCAGTCCTTAAAAAGGAGGAACCT
65 TTCCTTTCAAAGCCCACACAAATTGGTGGCACCTTTCAGTCCTCAAAAAGGAGG-ACCT
* * *
2639850 TTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTTCAGTTCTCAAAAAAT-AGA-ACAC--T
1 TTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTCAAAGAGTAAGATAC-CTTT
* * * * * *
2639911 TTCGTTTCAAAGCCCACACAAGTTGTTAGCA-C---C--T--TC---AA-GACGTCC-
65 TTCCTTTCAAAGCCCACACAAATTGGTGGCACCTTTCAGTCCTCAAAAAGGAGGACCT
* * * **
2639956 -TTCCCTTTTAAAGCCCACACAAGTTAGTGGCACCTTTCAGTCCTCAAAGAGCAAGAT-GTTTTT
1 TTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTCAAAGAGTAAGATACCTTTT
* * * * * * * *
2640019 TTCTTTTAAAGCCCCCACAAGTTGGTGGCACCTTTCCGTTCTCAAAAAGCAAGACAC-
66 TCCTTTCAAAGCCCACACAAATTGGTGGCACCTTTCAGTCCTCAAAAAGGAGGAC-CT
** * * * * * *
2640076 -TTTCCTTTCGAAGCCCACATAAGTTAGTGGCACCTTTTAGTCCTCAAAGAG-CAG-GACGTCTT
1 TTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTCAAAGAGTAAGATACCT-TT
* * * * * ** *
2640138 TCCCTTTCAAAGCCCACGCAAGTTGGTGGCACCTTTTAGTCTTCAAGGAGCAGGATGCC-
65 TTCCTTTCAAAGCCCACACAAATTGGTGGCACCTTTCAGTCCTCAAAAAGGAGGA--CCT
* ** *
2640197 CTTTCCTTTTAAAGCTTACACAAGTTGGTGGCACCTTTTAGTCCTCAAAGAG
1 TTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTCAAAGAG
2640249 CAGGGCACTT
Statistics
Matches: 421, Mismatches: 76, Indels: 49
0.77 0.14 0.09
Matches are distributed among these distances:
105 46 0.11
106 3 0.01
107 28 0.07
108 4 0.01
109 2 0.00
111 1 0.00
112 1 0.00
113 1 0.00
114 1 0.00
115 2 0.00
116 1 0.00
118 2 0.00
119 7 0.02
120 119 0.28
121 5 0.01
122 142 0.34
123 56 0.13
ACGTcount: A:0.26, C:0.26, G:0.18, T:0.30
Consensus pattern (122 bp):
TTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTCAAAGAGTAAGATACCTTTT
TCCTTTCAAAGCCCACACAAATTGGTGGCACCTTTCAGTCCTCAAAAAGGAGGACCT
Found at i:2639869 original size:122 final size:123
Alignment explanation
Indices: 2639605--2640339 Score: 499
Period size: 120 Copynumber: 6.2 Consensus size: 123
2639595 ACATGACAAC
* *
2639605 TTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCCAGTCCTCAAAGAGTAGGATACCTTTT
1 TTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTCAAAGAGTAAGATACCTTTT
* * * * ** * * *
2639670 TCCTTTCAAAGCCCATATAAATTTGTGGTACCTTTTGGTCCTCAAAGAGTAGGACGTA
66 TCCTTTCAAAGCCCACACAAATTGGTGGCACCTTTCAGTCCTCAAAAAGGAGGACCTA
* * *
2639728 TTTCCCTTTTAAAGTCCACACAAGTTGGTGGCACCTTTCAGTCCTCAAAGAGTAAGA-AGCTTTT
1 TTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTCAAAGAGTAAGATACCTTTT
* * * *
2639792 TCCTTTTAAAGCCCACGCAAGTTGGTGGCACCTTTCAGTCCTTAAAAAGGAGGAACCT-
66 TCCTTTCAAAGCCCACACAAATTGGTGGCACCTTTCAGTCCTCAAAAAGGAGG-ACCTA
* * *
2639850 TTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTTCAGTTCTCAAAAAAT-AGA-ACAC--T
1 TTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTCAAAGAGTAAGATAC-CTTT
* * * * * *
2639911 TTCGTTTCAAAGCCCACACAAGTTGTTAGCA-C---C--T--TC---AA-GACGTCC--
65 TTCCTTTCAAAGCCCACACAAATTGGTGGCACCTTTCAGTCCTCAAAAAGGAGGACCTA
* * * **
2639956 -TTCCCTTTTAAAGCCCACACAAGTTAGTGGCACCTTTCAGTCCTCAAAGAGCAAGAT-GTTTTT
1 TTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTCAAAGAGTAAGATACCTTTT
* * * * * * * *
2640019 TTCTTTTAAAGCCCCCACAAGTTGGTGGCACCTTTCCGTTCTCAAAAAGCAAGA-C-A
66 TCCTTTCAAAGCCCACACAAATTGGTGGCACCTTTCAGTCCTCAAAAAGGAGGACCTA
* ** * * * * * *
2640075 CTTTCCTTTCGAAGCCCACATAAGTTAGTGGCACCTTTTAGTCCTCAAAGAG-CAG-GACGTCTT
1 TTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTCAAAGAGTAAGATACCT-TT
* * * * * ** *
2640138 TCCCTTTCAAAGCCCACGCAAGTTGGTGGCACCTTTTAGTCTTCAAGGAGCAGGATGCC--
65 TTCCTTTCAAAGCCCACACAAATTGGTGGCACCTTTCAGTCCTCAAAAAGGAGGA--CCTA
* ** * * * **
2640197 CTTTCCTTTTAAAGCTTACACAAGTTGGTGGCACCTTTTAGTCCTCAAAGAGCAGGGCA-C--TT
1 TTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTCAAAGAGTAAGATACCTTTT
* * * ** * * * * * * *
2640259 TCCTTTTAAAGCCCACATAAGTTAATGACACCTTTTAGTCCTTAAAGAGCAAGACGTA
66 TCCTTTCAAAGCCCACACAAATTGGTGGCACCTTTCAGTCCTCAAAAAGGAGGACCTA
2640317 -TTTCCTTTTCAAAGCCCACACAA
1 TTTTCCTTTT-AAAGCCCACACAA
2640340 ACTAGTGACT
Statistics
Matches: 488, Mismatches: 94, Indels: 63
0.76 0.15 0.10
Matches are distributed among these distances:
105 46 0.09
106 3 0.01
107 28 0.06
108 4 0.01
109 2 0.00
111 1 0.00
112 1 0.00
113 1 0.00
114 1 0.00
115 2 0.00
116 1 0.00
118 4 0.01
119 15 0.03
120 174 0.36
121 4 0.01
122 142 0.29
123 58 0.12
124 1 0.00
ACGTcount: A:0.27, C:0.26, G:0.17, T:0.30
Consensus pattern (123 bp):
TTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTCAAAGAGTAAGATACCTTTT
TCCTTTCAAAGCCCACACAAATTGGTGGCACCTTTCAGTCCTCAAAAAGGAGGACCTA
Found at i:2640041 original size:61 final size:61
Alignment explanation
Indices: 2639946--2640339 Score: 397
Period size: 61 Copynumber: 6.5 Consensus size: 61
2639936 TTAGCACCTT
* *
2639946 CAAGACGTC-CTTCCCTTTTAAAGCCCACACAAGTTAGTGGCACCTTTCAGTCCTCAAAGAG
1 CAAGACG-CACTTTCCTTTTAAAGCCCACACAAGTTAGTGGCACCTTTTAGTCCTCAAAGAG
* *** * * * ** * *
2640007 CAAGATGTTTTTTTCTTTTAAAGCCCCCACAAGTTGGTGGCACCTTTCCGTTCTCAAAAAG
1 CAAGACGCACTTTCCTTTTAAAGCCCACACAAGTTAGTGGCACCTTTTAGTCCTCAAAGAG
** *
2640068 CAAGA--CACTTTCCTTTCGAAGCCCACATAAGTTAGTGGCACCTTTTAGTCCTCAAAGAG
1 CAAGACGCACTTTCCTTTTAAAGCCCACACAAGTTAGTGGCACCTTTTAGTCCTCAAAGAG
* * * * * * *
2640127 CAGGACG-TCTTTCCCTTTCAAAGCCCACGCAAGTTGGTGGCACCTTTTAGTCTTCAAGGAG
1 CAAGACGCACTTT-CCTTTTAAAGCCCACACAAGTTAGTGGCACCTTTTAGTCCTCAAAGAG
* * * ** *
2640188 CAGGATGCCCTTTCCTTTTAAAGCTTACACAAGTTGGTGGCACCTTTTAGTCCTCAAAGAG
1 CAAGACGCACTTTCCTTTTAAAGCCCACACAAGTTAGTGGCACCTTTTAGTCCTCAAAGAG
* * * * *
2640249 C-AG-GGCACTTTCCTTTTAAAGCCCACATAAGTTAATGACACCTTTTAGTCCTTAAAGAG
1 CAAGACGCACTTTCCTTTTAAAGCCCACACAAGTTAGTGGCACCTTTTAGTCCTCAAAGAG
*
2640308 CAAGACGTA-TTTCCTTTTCAAAGCCCACACAA
1 CAAGACGCACTTTCCTTTT-AAAGCCCACACAA
2640340 ACTAGTGACT
Statistics
Matches: 273, Mismatches: 52, Indels: 16
0.80 0.15 0.05
Matches are distributed among these distances:
59 93 0.34
60 16 0.06
61 160 0.59
62 4 0.01
ACGTcount: A:0.27, C:0.27, G:0.17, T:0.29
Consensus pattern (61 bp):
CAAGACGCACTTTCCTTTTAAAGCCCACACAAGTTAGTGGCACCTTTTAGTCCTCAAAGAG
Found at i:2640078 original size:166 final size:166
Alignment explanation
Indices: 2639793--2640100 Score: 449
Period size: 166 Copynumber: 1.9 Consensus size: 166
2639783 GAAGCTTTTT
* * * * *
2639793 CCTTTTAAAGCCCACGCAAGTTGGTGGCACCTTTCAGTCCTTAAAAAGGAGGAACCTTTTTCCTT
1 CCTTTTAAAGCCCACACAAGTTAGTGGCACCTTTCAGTCCTCAAAAAGCAAGAACCTTTTTCCTT
*
2639858 TTAAAGCCCACACAAGTTGGTGGCACCTTTCAGTTCTCAAAAAATAGAACACTTTCGTTTCAAAG
66 TTAAAGCCCACACAAGTTGGTGGCACCTTTCAGTTCTCAAAAAATAGAACACTTTCCTTTCAAAG
2639923 CCCACACAAGTTGTTAGCACCTTCAAGACGTCCTTC
131 CCCACACAAGTTGTTAGCACCTTCAAGACGTCCTTC
* *** *
2639959 CCTTTTAAAGCCCACACAAGTTAGTGGCACCTTTCAGTCCTCAAAGAGCAAGATGTTTTTTTCTT
1 CCTTTTAAAGCCCACACAAGTTAGTGGCACCTTTCAGTCCTCAAAAAGCAAGAACCTTTTTCCTT
* * *
2640024 TTAAAGCCCCCACAAGTTGGTGGCACCTTTCCGTTCTCAAAAAGCA-AG-ACACTTTCCTTTCGA
66 TTAAAGCCCACACAAGTTGGTGGCACCTTTCAGTTCTCAAAAA--ATAGAACACTTTCCTTTCAA
*
2640087 AGCCCACATAAGTT
129 AGCCCACACAAGTT
2640101 AGTGGCACCT
Statistics
Matches: 125, Mismatches: 15, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
166 122 0.98
167 2 0.02
168 1 0.01
ACGTcount: A:0.28, C:0.27, G:0.16, T:0.29
Consensus pattern (166 bp):
CCTTTTAAAGCCCACACAAGTTAGTGGCACCTTTCAGTCCTCAAAAAGCAAGAACCTTTTTCCTT
TTAAAGCCCACACAAGTTGGTGGCACCTTTCAGTTCTCAAAAAATAGAACACTTTCCTTTCAAAG
CCCACACAAGTTGTTAGCACCTTCAAGACGTCCTTC
Found at i:2640148 original size:227 final size:226
Alignment explanation
Indices: 2639729--2640339 Score: 602
Period size: 227 Copynumber: 2.6 Consensus size: 226
2639719 TAGGACGTAT
* * *
2639729 TTCCCTTTTAAAGTCCACACAAGTTGGTGGCACCTTTCAGTCCTCAAAGAGTAAGAAGCTTTTTC
1 TTCCCTTTTAAAGCCCACACAAGTTAGTGGCACCTTTCAGTCCTCAAAGAGCAAGAAGCTTTTTC
* * * *
2639794 CTTTTAAAGCCCACGCAAGTTGGTGGCACCTTTCAGTCCTTAAAAAGGAGGAACCTTTTTCCTTT
66 CTTTTAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTCAAAAAGCAAGAACC-TTTTCCTTT
* * * * *
2639859 TAAAGCCCACACAAGTTGGTGGCACCTTTCAGTTCTCAAAAAATAGAACACTTTCGTTTCAAAGC
130 CAAAGCCCACACAAGTTAGTGGCACCTTTCAGTCCTCAAAAAACAGAACACTTTCCTTTCAAAGC
*
2639924 CCACACAAGTTGTTAGCACCTTCAAGACGTCC
195 CCACACAAGTTGGTAGCACCTTCAAGACGTCC
* * *
2639956 TTCCCTTTTAAAGCCCACACAAGTTAGTGGCACCTTTCAGTCCTCAAAGAGCAAGATGTTTTTTT
1 TTCCCTTTTAAAGCCCACACAAGTTAGTGGCACCTTTCAGTCCTCAAAGAGCAAGAAGCTTTTTC
* * *
2640021 CTTTTAAAGCCCCCACAAGTTGGTGGCACCTTTCCGTTCTCAAAAAGCAAG-ACAC-TTTCCTTT
66 CTTTTAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTCAAAAAGCAAGAAC-CTTTTCCTTT
* * * * * * *
2640084 CGAAGCCCACATAAGTTAGTGGCACCTTTTAGTCCTCAAAGAGCAGGACGTCTTTCCCTTTCAAA
130 CAAAGCCCACACAAGTTAGTGGCACCTTTCAGTCCTCAAAAAACAGAAC-ACTTT-CCTTTCAAA
* *
2640149 GCCCACGCAAGTTGGTGGCACCTTTTAGTCTTCAAGGAGCAGGATGCCC
193 GCCCACACAAGTTGGTAGCA-C-------CTTCAA-GA-C--G-T--CC
* ** * * * **
2640198 TTTCCTTTTAAAGCTTACACAAGTTGGTGGCACCTTTTAGTCCTCAAAGAGC-AG-GGCACTTTC
1 TTCCCTTTTAAAGCCCACACAAGTTAGTGGCACCTTTCAGTCCTCAAAGAGCAAGAAGCTTTTTC
* ** * * * * *
2640261 CTTTTAAAGCCCACATAAGTTAATGACACCTTTTAGTCCTTAAAGAGCAAG-ACGTATTTCCTTT
66 CTTTTAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTCAAAAAGCAAGAACCT-TTTCC-TT
2640325 TCAAAGCCCACACAA
129 TCAAAGCCCACACAA
2640340 ACTAGTGACT
Statistics
Matches: 312, Mismatches: 51, Indels: 27
0.80 0.13 0.07
Matches are distributed among these distances:
225 47 0.15
226 6 0.02
227 129 0.41
228 1 0.00
235 6 0.02
236 2 0.01
237 1 0.00
239 1 0.00
240 48 0.15
241 7 0.02
242 64 0.21
ACGTcount: A:0.27, C:0.26, G:0.17, T:0.29
Consensus pattern (226 bp):
TTCCCTTTTAAAGCCCACACAAGTTAGTGGCACCTTTCAGTCCTCAAAGAGCAAGAAGCTTTTTC
CTTTTAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTCAAAAAGCAAGAACCTTTTCCTTTC
AAAGCCCACACAAGTTAGTGGCACCTTTCAGTCCTCAAAAAACAGAACACTTTCCTTTCAAAGCC
CACACAAGTTGGTAGCACCTTCAAGACGTCC
Found at i:2640260 original size:181 final size:181
Alignment explanation
Indices: 2639946--2640339 Score: 527
Period size: 181 Copynumber: 2.2 Consensus size: 181
2639936 TTAGCACCTT
* *
2639946 CAAGACGTCCTTCCCTTTTAAAGCCCACACAAGTTAGTGGCACCTTTCAGTCCTCAAAGAGCAAG
1 CAAGACGTCTTTCCCTTTCAAAGCCCACACAAGTTAGTGGCACCTTTCAGTCCTCAAAGAGCAAG
*** * * * *
2640011 ATGTTTTTTTCTTTTAAAGCCCCCACAAGTTGGTGGCACCTTTCCGTTCTCAAAAAGCAAGACAC
66 ATGCCCTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTCAAAAAGCAAGACAC
* * *
2640076 TTTCCTTTCGAAGCCCACATAAGTTAGTGGCACCTTTTAGTCCTCAAAGAG
131 TTTCCTTTCAAAGCCCACATAAGTTAATGACACCTTTTAGTCCTCAAAGAG
* * * * * * *
2640127 CAGGACGTCTTTCCCTTTCAAAGCCCACGCAAGTTGGTGGCACCTTTTAGTCTTCAAGGAGCAGG
1 CAAGACGTCTTTCCCTTTCAAAGCCCACACAAGTTAGTGGCACCTTTCAGTCCTCAAAGAGCAAG
** * * * *
2640192 ATGCCCTTTCCTTTTAAAGCTTACACAAGTTGGTGGCACCTTTTAGTCCTCAAAGAGCAGGGCAC
66 ATGCCCTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTCAAAAAGCAAGACAC
* *
2640257 TTTCCTTTTAAAGCCCACATAAGTTAATGACACCTTTTAGTCCTTAAAGAG
131 TTTCCTTTCAAAGCCCACATAAGTTAATGACACCTTTTAGTCCTCAAAGAG
* *
2640308 CAAGACGTATTTCCTTTTCAAAGCCCACACAA
1 CAAGACGTCTTTCCCTTTCAAAGCCCACACAA
2640340 ACTAGTGACT
Statistics
Matches: 182, Mismatches: 31, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
181 182 1.00
ACGTcount: A:0.27, C:0.27, G:0.17, T:0.29
Consensus pattern (181 bp):
CAAGACGTCTTTCCCTTTCAAAGCCCACACAAGTTAGTGGCACCTTTCAGTCCTCAAAGAGCAAG
ATGCCCTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTCAAAAAGCAAGACAC
TTTCCTTTCAAAGCCCACATAAGTTAATGACACCTTTTAGTCCTCAAAGAG
Found at i:2640260 original size:347 final size:349
Alignment explanation
Indices: 2639609--2640281 Score: 818
Period size: 347 Copynumber: 1.9 Consensus size: 349
2639599 GACAACTTTT
* * *
2639609 CCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCCAGTCCTCAAAGAGTAGGATACCTTTTTCCT
1 CCTTTTAAAGCCCACACAAGTTAGTGGCACCTTCCAGTCCTCAAAGAGCAAGATACCTTTTTCCT
* * * * ** * * * *
2639674 TTCAAAGCCCATATAAATTTGTGGTACCTTTTGGTCCTCAAAGAGTAGGACGTATTTCCCTTTTA
66 TTCAAAGCCCACACAAATTGGTGGCACCTTTCCGTCCTCAAAAAGCAAGACG-ATTTCCCTTTCA
* * * * *
2639739 AAGTCCACACAAGTTGGTGGCACCTTTCAGTCCTCAAAGAGTAAGAAGCTTTTTCCTTTTAAAGC
130 AAGCCCACACAAGTTAGTGGCACCTTTCAGTCCTCAAAGAGCAAGAAGCTTTTCCCTTTCAAAGC
* *
2639804 CCACGCAAGTTGGTGGCACCTTTCAGTCCTTAAAAAGGAGGAACCTTTTTCCTTTTAAAGCCCAC
195 CCACGCAAGTTGGTGGCACCTTTCAGTCCTTAAAAAGCAGGAACCTCTTTCCTTTTAAAGCCCAC
* * *
2639869 ACAAGTTGGTGGCACCTTTCAGTTCTCAAAAAATAGAACACTTTCGTTTCAAAGCCCACACAAGT
260 ACAAGTTGGTGGCACCTTTCAGTCCTCAAAAAACAGAACACTTTCCTTTCAAAGCCCACACAAGT
2639934 TGTTAGCACCTTCAAGACGTCCTTC
325 TGTTAGCACCTTCAAGACGTCCTTC
* ** *
2639959 CCTTTTAAAGCCCACACAAGTTAGTGGCACCTTTCAGTCCTCAAAGAGCAAGAT-GTTTTTTTCT
1 CCTTTTAAAGCCCACACAAGTTAGTGGCACCTTCCAGTCCTCAAAGAGCAAGATACCTTTTTCCT
* * * * *
2640023 TTTAAAGCCCCCACAAGTTGGTGGCACCTTTCCGTTCTCAAAAAGCAAGAC-ACTTT-CCTTTCG
66 TTCAAAGCCCACACAAATTGGTGGCACCTTTCCGTCCTCAAAAAGCAAGACGA-TTTCCCTTTCA
* * * *
2640086 AAGCCCACATAAGTTAGTGGCACCTTTTAGTCCTCAAAGAGCAGGACG-TCTTTCCCTTTCAAAG
130 AAGCCCACACAAGTTAGTGGCACCTTTCAGTCCTCAAAGAGCAAGAAGCT-TTTCCCTTTCAAAG
* ** * *
2640150 CCCACGCAAGTTGGTGGCACCTTTTAGT-CTTCAAGGAGCAGGATGCC-CTTTCCTTTTAAAGCT
194 CCCACGCAAGTTGGTGGCACCTTTCAGTCCTT-AAAAAGCAGGA-ACCTCTTTCCTTTTAAAGCC
* * * * ** * *
2640213 TACACAAGTTGGTGGCACCTTTTAGTCCTCAAAGAGCAGGGCACTTTCCTTTTAAAGCCCACATA
257 CACACAAGTTGGTGGCACCTTTCAGTCCTCAAAAAACAGAACACTTTCCTTTCAAAGCCCACACA
2640278 AGTT
322 AGTT
2640282 AATGACACCT
Statistics
Matches: 270, Mismatches: 49, Indels: 11
0.82 0.15 0.03
Matches are distributed among these distances:
346 4 0.01
347 166 0.61
348 5 0.02
349 45 0.17
350 50 0.19
ACGTcount: A:0.27, C:0.26, G:0.18, T:0.30
Consensus pattern (349 bp):
CCTTTTAAAGCCCACACAAGTTAGTGGCACCTTCCAGTCCTCAAAGAGCAAGATACCTTTTTCCT
TTCAAAGCCCACACAAATTGGTGGCACCTTTCCGTCCTCAAAAAGCAAGACGATTTCCCTTTCAA
AGCCCACACAAGTTAGTGGCACCTTTCAGTCCTCAAAGAGCAAGAAGCTTTTCCCTTTCAAAGCC
CACGCAAGTTGGTGGCACCTTTCAGTCCTTAAAAAGCAGGAACCTCTTTCCTTTTAAAGCCCACA
CAAGTTGGTGGCACCTTTCAGTCCTCAAAAAACAGAACACTTTCCTTTCAAAGCCCACACAAGTT
GTTAGCACCTTCAAGACGTCCTTC
Found at i:2640618 original size:50 final size:49
Alignment explanation
Indices: 2640504--2640637 Score: 155
Period size: 50 Copynumber: 2.7 Consensus size: 49
2640494 TTTCACAATT
* * *
2640504 TGTATCAATACATTCTTCAATGTATCT-ATATATTCTAGGTTTTACCCAGA
1 TGTATCGATACATTTTTC-ATGTAT-TGATAAATTCTAGGTTTTACCCAGA
*
2640554 TGTATTGATACATTTTTCATTGTATTGATAAATTCT-GGATTTTACCCAGA
1 TGTATCGATACATTTTTCA-TGTATTGATAAATTCTAGG-TTTTACCCAGA
* * *
2640604 TGTATCGATACATTTCTCATGTATCGATACATTC
1 TGTATCGATACATTTTTCATGTATTGATAAATTC
2640638 AAGTATTTTT
Statistics
Matches: 73, Mismatches: 8, Indels: 7
0.83 0.09 0.08
Matches are distributed among these distances:
49 17 0.23
50 56 0.77
ACGTcount: A:0.28, C:0.16, G:0.12, T:0.43
Consensus pattern (49 bp):
TGTATCGATACATTTTTCATGTATTGATAAATTCTAGGTTTTACCCAGA
Found at i:2643273 original size:158 final size:159
Alignment explanation
Indices: 2642984--2643346 Score: 425
Period size: 158 Copynumber: 2.3 Consensus size: 159
2642974 TCATTGATGT
* * * * * * **
2642984 TTTTATTTCTAAAATACCGATTTTCCACCATCGAGGATACTCCAA-CCCCGTTATTTCTGAGGGG
1 TTTTATTTCCAAAACATCGATTTTCCACAATCGGGGATACTCCAACCCCCGTTATTTCCGAGCAG
* * * *
2643048 ATACTCCAACTCCGATTTTATTTCTAAAACACTGATTTTTCACCATCAGGGATACTCCAATCCCG
66 ATACTCCAACTCCGATTTTATTTCTAAAACACTGATTTTCCACAATCAAGAATACTCCAATCCCG
2643113 TTATTTTCAAAGGGATACTCCAACCTCGA-
131 TTATTTTCAAAGGGATACTCCAACC-CGAG
* * *
2643142 TTTTATTTCCAAAACATTGATTTTTCACAATCGGGGATACTCTAACCCCCGTTATTTCCG-GCAG
1 TTTTATTTCCAAAACATCGATTTTCCACAATCGGGGATACTCCAACCCCCGTTATTTCCGAGCAG
* *
2643206 ATACTTCAA-TCCCGATTTTATTT-TCAAAACA-TCGATTTTCCACAATCAAGAATACTCTAA-C
66 ATACTCCAACT-CCGATTTTATTTCT-AAAACACT-GATTTTCCACAATCAAGAATACTCCAATC
** * *
2643267 CTCGTTATTTTTTAGGGGATACTCCAACCCTAG
128 C-CGTTATTTTCAAAGGGATACTCCAACCCGAG
* *
2643300 TTTTACTTCCAAAACATCAATTTTCCACAATCGGGGATACTCCAACC
1 TTTTATTTCCAAAACATCGATTTTCCACAATCGGGGATACTCCAACC
2643347 TCGGTTTTTA
Statistics
Matches: 173, Mismatches: 26, Indels: 12
0.82 0.12 0.06
Matches are distributed among these distances:
157 7 0.04
158 153 0.88
159 13 0.08
ACGTcount: A:0.29, C:0.26, G:0.12, T:0.34
Consensus pattern (159 bp):
TTTTATTTCCAAAACATCGATTTTCCACAATCGGGGATACTCCAACCCCCGTTATTTCCGAGCAG
ATACTCCAACTCCGATTTTATTTCTAAAACACTGATTTTCCACAATCAAGAATACTCCAATCCCG
TTATTTTCAAAGGGATACTCCAACCCGAG
Done.