Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold168
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: 2098754
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.34
File 12 of 16
Found at i:1303555 original size:17 final size:18
Alignment explanation
Indices: 1303518--1303556 Score: 53
Period size: 17 Copynumber: 2.2 Consensus size: 18
1303508 TCGTATCTAT
* *
1303518 ATATGTATCTATATATGA
1 ATATGTATCTAAATATAA
1303536 ATATGTAT-TAAATATAA
1 ATATGTATCTAAATATAA
1303553 ATAT
1 ATAT
1303557 CAGATACTGA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
17 11 0.58
18 8 0.42
ACGTcount: A:0.46, C:0.03, G:0.08, T:0.44
Consensus pattern (18 bp):
ATATGTATCTAAATATAA
Found at i:1304266 original size:17 final size:17
Alignment explanation
Indices: 1304244--1304279 Score: 72
Period size: 17 Copynumber: 2.1 Consensus size: 17
1304234 TCCTGGAATT
1304244 AGGTCAACATTTAAATA
1 AGGTCAACATTTAAATA
1304261 AGGTCAACATTTAAATA
1 AGGTCAACATTTAAATA
1304278 AG
1 AG
1304280 CAGCAAAACC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.47, C:0.11, G:0.14, T:0.28
Consensus pattern (17 bp):
AGGTCAACATTTAAATA
Found at i:1309547 original size:25 final size:27
Alignment explanation
Indices: 1309519--1309576 Score: 77
Period size: 28 Copynumber: 2.2 Consensus size: 27
1309509 TTTTTTTTAC
1309519 ATTTTT-TAATTAAATT-A-AAAATAAT
1 ATTTTTATAATT-AATTAATAAAATAAT
1309544 ATTTTTATAATTAATTAAATAAAATAAT
1 ATTTTTATAATTAATT-AATAAAATAAT
1309572 ATTTT
1 ATTTT
1309577 GGAGTAATGT
Statistics
Matches: 29, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
25 10 0.34
26 5 0.17
27 1 0.03
28 13 0.45
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (27 bp):
ATTTTTATAATTAATTAATAAAATAAT
Found at i:1309760 original size:8 final size:8
Alignment explanation
Indices: 1309747--1309771 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
1309737 TCTTTAATAC
1309747 AAAATTAA
1 AAAATTAA
1309755 AAAATTAA
1 AAAATTAA
1309763 AAAATTAA
1 AAAATTAA
1309771 A
1 A
1309772 TTTTTTATTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (8 bp):
AAAATTAA
Found at i:1310224 original size:3 final size:3
Alignment explanation
Indices: 1310216--1310256 Score: 82
Period size: 3 Copynumber: 13.7 Consensus size: 3
1310206 TGCATGCAAA
1310216 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
1310257 AAAGAGAATT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 38 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:1318110 original size:79 final size:78
Alignment explanation
Indices: 1317979--1318145 Score: 228
Period size: 79 Copynumber: 2.1 Consensus size: 78
1317969 ACAACGAGGC
* * **
1317979 TGGAGTATCCCCGATTATGAAAAATTGGTATTCTGGAAATAAAATCGGGGTTGGAGTATCCCCTT
1 TGGAGTATCCCCAATTATGAAAAATTGGTATTCTGAAAATAAAATCAAGGTTGGAGTATCCCC-T
*
1318044 AGAAATAACAGGGT
65 AAAAATAACAGGGT
* * *
1318058 TGGAGTATCCCTAATTAT-AGAAAATTGGTGTTTTGAAAATAAAATCAAGGTTGGAGTATCCCCT
1 TGGAGTATCCCCAATTATGA-AAAATTGGTATTCTGAAAATAAAATCAAGGTTGGAGTATCCCCT
*
1318122 AAAAATAACGGGGT
65 AAAAATAACAGGGT
1318136 TGGAGTATCC
1 TGGAGTATCC
1318146 TCGTGAAAAT
Statistics
Matches: 78, Mismatches: 9, Indels: 3
0.87 0.10 0.03
Matches are distributed among these distances:
78 24 0.31
79 54 0.69
ACGTcount: A:0.34, C:0.13, G:0.24, T:0.29
Consensus pattern (78 bp):
TGGAGTATCCCCAATTATGAAAAATTGGTATTCTGAAAATAAAATCAAGGTTGGAGTATCCCCTA
AAAATAACAGGGT
Found at i:1318163 original size:28 final size:27
Alignment explanation
Indices: 1318106--1318175 Score: 113
Period size: 28 Copynumber: 2.6 Consensus size: 27
1318096 ATAAAATCAA
1318106 GGTTGGAGTATCCCCTAAAAATAACGG
1 GGTTGGAGTATCCCCTAAAAATAACGG
* *
1318133 GGTTGGAGTATCCTCGTGAAAATAACGG
1 GGTTGGAGTATCC-CCTAAAAATAACGG
1318161 GGTTGGAGTATCCCC
1 GGTTGGAGTATCCCC
1318176 GATTTTGAGA
Statistics
Matches: 39, Mismatches: 3, Indels: 2
0.89 0.07 0.05
Matches are distributed among these distances:
27 14 0.36
28 25 0.64
ACGTcount: A:0.27, C:0.19, G:0.30, T:0.24
Consensus pattern (27 bp):
GGTTGGAGTATCCCCTAAAAATAACGG
Found at i:1318222 original size:79 final size:79
Alignment explanation
Indices: 1318130--1318347 Score: 312
Period size: 80 Copynumber: 2.7 Consensus size: 79
1318120 CTAAAAATAA
*
1318130 CGGGGTTGGAGTATCCTCGT-GAAAATAACGGGGTTGGAGTATCCCCGATTTTGAGAAATCAATA
1 CGGGGTTGGAGTATCCTC-TAGAAAATAACGGGGTTGGAGTATCCCCGATTGTGAGAAATCAATA
1318194 TTTTAAGAATAAAAC
65 TTTTAAGAATAAAAC
** *
1318209 CGGGGTTGGAGTATATTTCTAGGAAATAACGGGGTTGGAGTATCCCCGATTGTGAGAAATCAATA
1 CGGGGTTGGAGTAT-CCTCTAGAAAATAACGGGGTTGGAGTATCCCCGATTGTGAGAAATCAATA
* *
1318274 TTTTAGGAATAAAGC
65 TTTTAAGAATAAAAC
* * * * *
1318289 CGGGGTTGGAGTATCCCCTCGAAAATAACAGGGTTGGAGTATCCCCGGTTGTGAAAAAT
1 CGGGGTTGGAGTATCCTCTAGAAAATAACGGGGTTGGAGTATCCCCGATTGTGAGAAAT
1318348 TGGTGTTTCG
Statistics
Matches: 123, Mismatches: 14, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
79 52 0.42
80 71 0.58
ACGTcount: A:0.31, C:0.14, G:0.28, T:0.27
Consensus pattern (79 bp):
CGGGGTTGGAGTATCCTCTAGAAAATAACGGGGTTGGAGTATCCCCGATTGTGAGAAATCAATAT
TTTAAGAATAAAAC
Found at i:1318392 original size:51 final size:51
Alignment explanation
Indices: 1318328--1318451 Score: 149
Period size: 51 Copynumber: 2.4 Consensus size: 51
1318318 AGGGTTGGAG
* * *
1318328 TATCCCCGGTTGTGAAAAATTGGTGTTTCGAAAATAAAATCGGAGTTGAAA
1 TATCCCCGATTGTGAAAAATTGGTGTTTCAAAAATAAAACCGGAGTTGAAA
* * * * * *
1318379 TATCCCCGATTGTGGAAAATTAGTGTTTTAAAAATAAAACCGGGGTTGGAG
1 TATCCCCGATTGTGAAAAATTGGTGTTTCAAAAATAAAACCGGAGTTGAAA
* *
1318430 TACCCCCGATTATGAAAAATTG
1 TATCCCCGATTGTGAAAAATTG
1318452 AGAAACTTAA
Statistics
Matches: 60, Mismatches: 13, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
51 60 1.00
ACGTcount: A:0.35, C:0.14, G:0.23, T:0.29
Consensus pattern (51 bp):
TATCCCCGATTGTGAAAAATTGGTGTTTCAAAAATAAAACCGGAGTTGAAA
Found at i:1320835 original size:20 final size:20
Alignment explanation
Indices: 1320810--1320860 Score: 102
Period size: 20 Copynumber: 2.5 Consensus size: 20
1320800 GATCCATGTA
1320810 TATCGATACATGGAATAATG
1 TATCGATACATGGAATAATG
1320830 TATCGATACATGGAATAATG
1 TATCGATACATGGAATAATG
1320850 TATCGATACAT
1 TATCGATACAT
1320861 TTCCTTGGCA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.39, C:0.12, G:0.18, T:0.31
Consensus pattern (20 bp):
TATCGATACATGGAATAATG
Found at i:1320899 original size:13 final size:13
Alignment explanation
Indices: 1320877--1320934 Score: 53
Period size: 13 Copynumber: 4.0 Consensus size: 13
1320867 GGCAGTAGCT
*
1320877 TTGTAGCGATACA
1 TTGTATCGATACA
1320890 TTGTATCGATACAACA
1 TTGTATCGAT---ACA
1320906 CTTATGTATCGATACA
1 --T-TGTATCGATACA
1320922 TTGTATCGATACA
1 TTGTATCGATACA
1320935 AATCGTTGAA
Statistics
Matches: 38, Mismatches: 1, Indels: 12
0.75 0.02 0.24
Matches are distributed among these distances:
13 21 0.55
14 1 0.03
16 6 0.16
18 1 0.03
19 9 0.24
ACGTcount: A:0.33, C:0.17, G:0.16, T:0.34
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:1321712 original size:3 final size:3
Alignment explanation
Indices: 1321704--1321729 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
1321694 TACATACAAA
1321704 ATT ATT ATT ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT AT
1321730 AGAGAGAATT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
ATT
Found at i:1324043 original size:18 final size:15
Alignment explanation
Indices: 1324008--1324037 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
1323998 GAAAATGTGT
1324008 TGACTACTAGTTCTA
1 TGACTACTAGTTCTA
1324023 TGACTACTAGTTCTA
1 TGACTACTAGTTCTA
1324038 ATATGAGTAC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.27, C:0.20, G:0.13, T:0.40
Consensus pattern (15 bp):
TGACTACTAGTTCTA
Found at i:1324661 original size:2 final size:2
Alignment explanation
Indices: 1324654--1324678 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
1324644 GAGGCATCAG
1324654 GA GA GA GA GA GA GA GA GA GA GA GA G
1 GA GA GA GA GA GA GA GA GA GA GA GA G
1324679 GGAATGGAAC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.52, T:0.00
Consensus pattern (2 bp):
GA
Found at i:1326332 original size:2 final size:2
Alignment explanation
Indices: 1326325--1326353 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
1326315 GAAGAGTTTC
1326325 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1326354 ACCATAGGAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:1328461 original size:23 final size:26
Alignment explanation
Indices: 1328434--1328485 Score: 65
Period size: 26 Copynumber: 2.1 Consensus size: 26
1328424 TTTTAAAATT
1328434 TTTTAA-A-TGAATTAAA-AATAATA
1 TTTTAATAGTGAATTAAATAATAATA
* *
1328457 TTTTAATAGTTAATTAAATAATTATA
1 TTTTAATAGTGAATTAAATAATAATA
1328483 TTT
1 TTT
1328486 GGAGTAATGT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
23 6 0.25
24 1 0.04
25 8 0.33
26 9 0.38
ACGTcount: A:0.48, C:0.00, G:0.04, T:0.48
Consensus pattern (26 bp):
TTTTAATAGTGAATTAAATAATAATA
Found at i:1328561 original size:27 final size:26
Alignment explanation
Indices: 1328523--1328590 Score: 68
Period size: 27 Copynumber: 2.6 Consensus size: 26
1328513 GATGTGAAGC
1328523 TAATT-TT-TTTTAAATTCAATAGTTT
1 TAATTATTATTTTAAATTCAATA-TTT
* *
1328548 TAATTATTATTTTAATATTTATTATTT
1 TAATTATTATTTTAA-ATTCAATATTT
* *
1328575 TAAATATTAATTTAAA
1 TAATTATTATTTTAAA
1328591 ATAAAAAATA
Statistics
Matches: 36, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
25 5 0.14
26 3 0.08
27 22 0.61
28 6 0.17
ACGTcount: A:0.38, C:0.01, G:0.01, T:0.59
Consensus pattern (26 bp):
TAATTATTATTTTAAATTCAATATTT
Found at i:1328569 original size:15 final size:16
Alignment explanation
Indices: 1328551--1328582 Score: 57
Period size: 15 Copynumber: 2.1 Consensus size: 16
1328541 ATAGTTTTAA
1328551 TTATTATTTT-AATAT
1 TTATTATTTTAAATAT
1328566 TTATTATTTTAAATAT
1 TTATTATTTTAAATAT
1328582 T
1 T
1328583 AATTTAAAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 10 0.62
16 6 0.38
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (16 bp):
TTATTATTTTAAATAT
Found at i:1328759 original size:21 final size:21
Alignment explanation
Indices: 1328714--1328759 Score: 51
Period size: 21 Copynumber: 2.2 Consensus size: 21
1328704 AAAAAATATA
*
1328714 AAAT-TAATTTTTTATTAATT
1 AAATCTAATCTTTTATTAATT
*
1328734 TAATCTAATCTTTTACTT-ATT
1 AAATCTAATCTTTTA-TTAATT
1328755 AAATC
1 AAATC
1328760 GTTGTTTAAA
Statistics
Matches: 21, Mismatches: 3, Indels: 3
0.78 0.11 0.11
Matches are distributed among these distances:
20 3 0.14
21 16 0.76
22 2 0.10
ACGTcount: A:0.37, C:0.09, G:0.00, T:0.54
Consensus pattern (21 bp):
AAATCTAATCTTTTATTAATT
Found at i:1329033 original size:27 final size:27
Alignment explanation
Indices: 1328995--1329055 Score: 90
Period size: 27 Copynumber: 2.3 Consensus size: 27
1328985 GATTTTAAAC
*
1328995 AATATTTTAATAGTTAATTAAA-AATTT
1 AATATTTTAATAATTAATTAAATAA-TT
1329022 AATATTTTAATAATTAATTAAATAATT
1 AATATTTTAATAATTAATTAAATAATT
1329049 -ATATTTT
1 AATATTTT
1329056 GGAGTAATGT
Statistics
Matches: 32, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
26 7 0.22
27 23 0.72
28 2 0.06
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.51
Consensus pattern (27 bp):
AATATTTTAATAATTAATTAAATAATT
Found at i:1329150 original size:16 final size:14
Alignment explanation
Indices: 1329113--1329150 Score: 51
Period size: 15 Copynumber: 2.6 Consensus size: 14
1329103 AATTCAATAG
1329113 TTTAA-ATTTTTAT
1 TTTAATATTTTTAT
1329126 TTTAATATTTCTTAT
1 TTTAATATTT-TTAT
1329141 TTTAAATATT
1 TTT-AATATT
1329151 AATTTAAAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
13 5 0.23
14 4 0.18
15 7 0.32
16 6 0.27
ACGTcount: A:0.32, C:0.03, G:0.00, T:0.66
Consensus pattern (14 bp):
TTTAATATTTTTAT
Found at i:1329694 original size:3 final size:3
Alignment explanation
Indices: 1329686--1329711 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
1329676 TACATGCAAA
1329686 ATT ATT ATT ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT AT
1329712 AAAGAGAATT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
ATT
Found at i:1334972 original size:26 final size:29
Alignment explanation
Indices: 1334902--1334975 Score: 82
Period size: 26 Copynumber: 2.5 Consensus size: 29
1334892 TATATTAAAA
1334902 TTATTGTATATTATATATTATAAATGACATAT
1 TTATT-TATATTATATATTATAAAT-A-ATAT
*
1334934 TATATTTAAATTAT-TA-TATAAAT-ATAT
1 T-TATTTATATTATATATTATAAATAATAT
1334961 TTATTTATATTATAT
1 TTATTTATATTATAT
1334976 GTAAAATAAA
Statistics
Matches: 38, Mismatches: 2, Indels: 9
0.78 0.04 0.18
Matches are distributed among these distances:
26 11 0.29
27 6 0.16
30 7 0.18
31 2 0.05
32 8 0.21
33 4 0.11
ACGTcount: A:0.42, C:0.01, G:0.03, T:0.54
Consensus pattern (29 bp):
TTATTTATATTATATATTATAAATAATAT
Found at i:1335084 original size:26 final size:24
Alignment explanation
Indices: 1335050--1335102 Score: 79
Period size: 24 Copynumber: 2.1 Consensus size: 24
1335040 ACTTATCAAG
1335050 CTATCTATATAAATTATTTTTTATAT
1 CTATCTATAT--ATTATTTTTTATAT
*
1335076 CTATTTATATATTATTTTTTATAT
1 CTATCTATATATTATTTTTTATAT
1335100 CTA
1 CTA
1335103 ATAATAAATA
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
24 17 0.65
26 9 0.35
ACGTcount: A:0.32, C:0.08, G:0.00, T:0.60
Consensus pattern (24 bp):
CTATCTATATATTATTTTTTATAT
Found at i:1335089 original size:24 final size:24
Alignment explanation
Indices: 1335057--1335111 Score: 83
Period size: 24 Copynumber: 2.3 Consensus size: 24
1335047 AAGCTATCTA
1335057 TATAAATTATTTTTTATATCTATT
1 TATAAATTATTTTTTATATCTATT
* *
1335081 TATATATTATTTTTTATATCTAAT
1 TATAAATTATTTTTTATATCTATT
*
1335105 AATAAAT
1 TATAAAT
1335112 ATATCATATT
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.38, C:0.04, G:0.00, T:0.58
Consensus pattern (24 bp):
TATAAATTATTTTTTATATCTATT
Found at i:1335098 original size:12 final size:12
Alignment explanation
Indices: 1335062--1335099 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
1335052 ATCTATATAA
1335062 ATTATTTTTTAT
1 ATTATTTTTTAT
*
1335074 ATCTA-TTTATAT
1 AT-TATTTTTTAT
1335086 ATTATTTTTTAT
1 ATTATTTTTTAT
1335098 AT
1 AT
1335100 CTAATAATAA
Statistics
Matches: 22, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
11 2 0.09
12 18 0.82
13 2 0.09
ACGTcount: A:0.29, C:0.03, G:0.00, T:0.68
Consensus pattern (12 bp):
ATTATTTTTTAT
Found at i:1335163 original size:17 final size:18
Alignment explanation
Indices: 1335138--1335171 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
1335128 CAAGACTTAA
*
1335138 ATATATTTATTTTTTATT
1 ATATATTTATATTTTATT
1335156 ATAT-TTTATATTTTAT
1 ATATATTTATATTTTAT
1335172 ATAATTAATA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 11 0.73
18 4 0.27
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (18 bp):
ATATATTTATATTTTATT
Found at i:1335337 original size:16 final size:15
Alignment explanation
Indices: 1335318--1335367 Score: 68
Period size: 13 Copynumber: 3.4 Consensus size: 15
1335308 TTAAGTTAAA
1335318 AAATTTAAAATATTTT
1 AAATTTAAAATA-TTT
*
1335334 AAATTTAAATTATTT
1 AAATTTAAAATATTT
1335349 AAATTT--AATATTT
1 AAATTTAAAATATTT
1335362 AAATTT
1 AAATTT
1335368 CTTAAATTTG
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
13 12 0.38
15 9 0.28
16 11 0.34
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (15 bp):
AAATTTAAAATATTT
Found at i:1335955 original size:28 final size:27
Alignment explanation
Indices: 1335896--1335959 Score: 76
Period size: 27 Copynumber: 2.3 Consensus size: 27
1335886 TACTCATTTG
* * *
1335896 TTTGTCAAAAATGGTGGTTATTTTGTG
1 TTTGTCAAAAATGATGGTTATTTTATA
1335923 TTTGTCAAAAATGATGGTT-TCCTTTATA
1 TTTGTCAAAAATGATGGTTAT--TTTATA
1335951 TTTGTCAAA
1 TTTGTCAAA
1335960 TATTGAGGCT
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
26 1 0.03
27 18 0.56
28 13 0.41
ACGTcount: A:0.27, C:0.08, G:0.19, T:0.47
Consensus pattern (27 bp):
TTTGTCAAAAATGATGGTTATTTTATA
Found at i:1340526 original size:28 final size:27
Alignment explanation
Indices: 1340467--1340556 Score: 78
Period size: 28 Copynumber: 3.4 Consensus size: 27
1340457 CACCAATTTG
* *
1340467 TTTGTCAAAAATGGTGGTTATTTTGTG
1 TTTGTCAAAAATGGTGGTTATTTTATA
*
1340494 TTTGTAAAAAATGGTGGTT-TCCTTTATA
1 TTTGTCAAAAATGGTGGTTAT--TTTATA
* * * *
1340522 TTTGTCAAATATGGAGGCT-TGTT-TA
1 TTTGTCAAAAATGGTGGTTATTTTATA
1340547 TTTGTCAAAA
1 TTTGTCAAAA
1340557 TTTGTGGCTA
Statistics
Matches: 52, Mismatches: 9, Indels: 6
0.78 0.13 0.09
Matches are distributed among these distances:
25 11 0.21
26 3 0.06
27 18 0.35
28 20 0.38
ACGTcount: A:0.27, C:0.07, G:0.21, T:0.46
Consensus pattern (27 bp):
TTTGTCAAAAATGGTGGTTATTTTATA
Found at i:1341324 original size:10 final size:10
Alignment explanation
Indices: 1341309--1341333 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
1341299 TCATCTAGAT
1341309 TGTGTAATAG
1 TGTGTAATAG
1341319 TGTGTAATAG
1 TGTGTAATAG
1341329 TGTGT
1 TGTGT
1341334 TGCATCTTCG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.24, C:0.00, G:0.32, T:0.44
Consensus pattern (10 bp):
TGTGTAATAG
Found at i:1342619 original size:19 final size:19
Alignment explanation
Indices: 1342595--1342632 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
1342585 TCTGGACCTC
*
1342595 CTGAAAATAATTATTCAAT
1 CTGAAAATAATAATTCAAT
1342614 CTGAAAATAATAATTCAAT
1 CTGAAAATAATAATTCAAT
1342633 TTTTTTTCCT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.50, C:0.11, G:0.05, T:0.34
Consensus pattern (19 bp):
CTGAAAATAATAATTCAAT
Found at i:1345855 original size:9 final size:9
Alignment explanation
Indices: 1345841--1345865 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
1345831 AGATAATATT
1345841 TTAAAAAAA
1 TTAAAAAAA
1345850 TTAAAAAAA
1 TTAAAAAAA
1345859 TTAAAAA
1 TTAAAAA
1345866 TTAATTTAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (9 bp):
TTAAAAAAA
Found at i:1347319 original size:22 final size:21
Alignment explanation
Indices: 1347272--1347319 Score: 53
Period size: 21 Copynumber: 2.2 Consensus size: 21
1347262 CGATTTAAAA
* *
1347272 CTTTTAAAGATAATTTTTTAT
1 CTTTTAAAGATAATTATTGAT
1347293 CTTTTGAAAGA-AATTATTGAT
1 CTTTT-AAAGATAATTATTGAT
1347314 CATTTT
1 C-TTTT
1347320 TTATTTTTTT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
21 14 0.61
22 9 0.39
ACGTcount: A:0.33, C:0.06, G:0.08, T:0.52
Consensus pattern (21 bp):
CTTTTAAAGATAATTATTGAT
Found at i:1352320 original size:23 final size:25
Alignment explanation
Indices: 1352275--1352322 Score: 64
Period size: 27 Copynumber: 1.9 Consensus size: 25
1352265 ATTAATATAT
1352275 TTTAATTAATTTTTTATGTAAATTTAA
1 TTTAATTAATTTTTTA--TAAATTTAA
1352302 TTTAATTAA-TTTTTA-AAATTT
1 TTTAATTAATTTTTTATAAATTT
1352323 TTAAACCAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
23 6 0.29
26 6 0.29
27 9 0.43
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.60
Consensus pattern (25 bp):
TTTAATTAATTTTTTATAAATTTAA
Found at i:1352929 original size:15 final size:16
Alignment explanation
Indices: 1352894--1352932 Score: 53
Period size: 15 Copynumber: 2.5 Consensus size: 16
1352884 AATATTTAAA
*
1352894 TTTAAATTTTAAATTT
1 TTTAAATATTAAATTT
*
1352910 ATTAAATATT-AATTT
1 TTTAAATATTAAATTT
1352925 TTTAAATA
1 TTTAAATA
1352933 ACTATAAAAA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
15 12 0.60
16 8 0.40
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (16 bp):
TTTAAATATTAAATTT
Found at i:1354388 original size:2 final size:2
Alignment explanation
Indices: 1354381--1354405 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
1354371 TTTAATAAAC
1354381 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
1354406 GCACGAGCAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:1354728 original size:26 final size:25
Alignment explanation
Indices: 1354676--1354729 Score: 81
Period size: 27 Copynumber: 2.1 Consensus size: 25
1354666 CTTTAATTAT
1354676 AATAATATTAATATATTAAAATAAA
1 AATAATATTAATATATTAAAATAAA
*
1354701 AATAATATTTAATATTTTTAAAATAAA
1 AATAATA-TTAATA-TATTAAAATAAA
1354728 AA
1 AA
1354730 AATCGATTGA
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
25 7 0.27
26 6 0.23
27 13 0.50
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (25 bp):
AATAATATTAATATATTAAAATAAA
Found at i:1355653 original size:17 final size:17
Alignment explanation
Indices: 1355587--1355654 Score: 54
Period size: 17 Copynumber: 4.1 Consensus size: 17
1355577 ATTAGGCAAG
1355587 ATTGAATTATAGTTTAAA
1 ATTGAATTATA-TTTAAA
*
1355605 ATT---TTTTATTTAAA
1 ATTGAATTATATTTAAA
* *
1355619 TTTAAATTA-ATTTAAAA
1 ATTGAATTATATTT-AAA
*
1355636 ATTGTATTATATTTAAA
1 ATTGAATTATATTTAAA
1355653 AT
1 AT
1355655 AATATAAAAA
Statistics
Matches: 39, Mismatches: 6, Indels: 11
0.70 0.11 0.20
Matches are distributed among these distances:
14 8 0.21
15 4 0.10
16 4 0.10
17 16 0.41
18 7 0.18
ACGTcount: A:0.44, C:0.00, G:0.04, T:0.51
Consensus pattern (17 bp):
ATTGAATTATATTTAAA
Found at i:1358770 original size:3 final size:3
Alignment explanation
Indices: 1358757--1358818 Score: 115
Period size: 3 Copynumber: 20.7 Consensus size: 3
1358747 CATGTATGTC
*
1358757 AAT AGT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1358805 AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AA
1358819 ATAGCTCGCA
Statistics
Matches: 57, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
3 57 1.00
ACGTcount: A:0.66, C:0.00, G:0.02, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:1361943 original size:14 final size:14
Alignment explanation
Indices: 1361924--1361951 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
1361914 TCAATCAGAT
1361924 AGAAGATAAGTATC
1 AGAAGATAAGTATC
1361938 AGAAGATAAGTATC
1 AGAAGATAAGTATC
1361952 GAATATGTAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.50, C:0.07, G:0.21, T:0.21
Consensus pattern (14 bp):
AGAAGATAAGTATC
Found at i:1365494 original size:15 final size:15
Alignment explanation
Indices: 1365456--1365501 Score: 51
Period size: 15 Copynumber: 3.1 Consensus size: 15
1365446 ATATTATATA
*
1365456 TTTATATAAATTTAAT
1 TTTATATAAA-TTATT
*
1365472 ATTA-ATAAATTATT
1 TTTATATAAATTATT
1365486 TTTATATAAATT-TT
1 TTTATATAAATTATT
1365500 TT
1 TT
1365502 ATTTTTATTA
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
14 11 0.42
15 12 0.46
16 3 0.12
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (15 bp):
TTTATATAAATTATT
Found at i:1365533 original size:20 final size:22
Alignment explanation
Indices: 1365496--1365539 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 22
1365486 TTTATATAAA
* *
1365496 TTTTTTATTTTTATTACT-TAT
1 TTTTTTAATATTATTACTATAT
1365517 TTTTTTAATATTA-TACTATAT
1 TTTTTTAATATTATTACTATAT
1365538 TT
1 TT
1365540 ACTTTTTTAT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
20 4 0.20
21 16 0.80
ACGTcount: A:0.25, C:0.05, G:0.00, T:0.70
Consensus pattern (22 bp):
TTTTTTAATATTATTACTATAT
Found at i:1365811 original size:21 final size:21
Alignment explanation
Indices: 1365785--1365835 Score: 58
Period size: 17 Copynumber: 2.7 Consensus size: 21
1365775 TTTTATTTAT
1365785 TTTATATTTAAAAATTAAATA
1 TTTATATTTAAAAATTAAATA
*
1365806 -TT-TA--TAAAAATTAATTA
1 TTTATATTTAAAAATTAAATA
1365823 TTTA-ATTTAAAAA
1 TTTATATTTAAAAA
1365836 AAAGTGAATG
Statistics
Matches: 25, Mismatches: 1, Indels: 9
0.71 0.03 0.26
Matches are distributed among these distances:
17 12 0.48
18 3 0.12
19 2 0.08
20 8 0.32
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (21 bp):
TTTATATTTAAAAATTAAATA
Found at i:1365815 original size:17 final size:17
Alignment explanation
Indices: 1365793--1365826 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
1365783 ATTTTATATT
1365793 TAAAAATTAAATATTTA
1 TAAAAATTAAATATTTA
*
1365810 TAAAAATTAATTATTTA
1 TAAAAATTAAATATTTA
1365827 ATTTAAAAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (17 bp):
TAAAAATTAAATATTTA
Found at i:1365973 original size:2 final size:2
Alignment explanation
Indices: 1365966--1365995 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
1365956 TGGCGGTTGT
1365966 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1365996 GATCGATCGA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
TC
Found at i:1366272 original size:21 final size:21
Alignment explanation
Indices: 1366248--1366290 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 21
1366238 GAGGAAAACA
*
1366248 AGGAAGTTGAAG-AGAAAGAAG
1 AGGAAGTGGAAGAAG-AAGAAG
*
1366269 AGGAGGTGGAAGAAGAAGAAG
1 AGGAAGTGGAAGAAGAAGAAG
1366290 A
1 A
1366291 AGAGAAAGCT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
21 17 0.89
22 2 0.11
ACGTcount: A:0.51, C:0.00, G:0.42, T:0.07
Consensus pattern (21 bp):
AGGAAGTGGAAGAAGAAGAAG
Found at i:1373111 original size:14 final size:14
Alignment explanation
Indices: 1373074--1373119 Score: 56
Period size: 14 Copynumber: 3.2 Consensus size: 14
1373064 TATTTTACGT
1373074 ATATTTAAATATAA
1 ATATTTAAATATAA
*
1373088 ATATTAAAATATAA
1 ATATTTAAATATAA
* *
1373102 CTTTTTAAATATATA
1 ATATTTAAATATA-A
1373117 ATA
1 ATA
1373120 AAATATTTTT
Statistics
Matches: 25, Mismatches: 6, Indels: 1
0.78 0.19 0.03
Matches are distributed among these distances:
14 23 0.92
15 2 0.08
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.43
Consensus pattern (14 bp):
ATATTTAAATATAA
Found at i:1374896 original size:19 final size:19
Alignment explanation
Indices: 1374874--1374921 Score: 55
Period size: 19 Copynumber: 2.6 Consensus size: 19
1374864 ATATAATAAA
1374874 TAATTAATAAATATATATT
1 TAATTAATAAATATATATT
*
1374893 TAATTTAAT-AATATATTTT
1 TAA-TTAATAAATATATATT
*
1374912 TTATT-ATAAA
1 TAATTAATAAA
1374922 ACAAAATTTT
Statistics
Matches: 25, Mismatches: 2, Indels: 5
0.78 0.06 0.16
Matches are distributed among these distances:
17 2 0.08
18 4 0.16
19 14 0.56
20 5 0.20
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (19 bp):
TAATTAATAAATATATATT
Found at i:1376008 original size:13 final size:13
Alignment explanation
Indices: 1375983--1376010 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
1375973 ATATATTTAC
1375983 ATCATATTTGTAT
1 ATCATATTTGTAT
1375996 ATCATATTTGTAT
1 ATCATATTTGTAT
1376009 AT
1 AT
1376011 TTGTATATGT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.32, C:0.07, G:0.07, T:0.54
Consensus pattern (13 bp):
ATCATATTTGTAT
Found at i:1379485 original size:2 final size:2
Alignment explanation
Indices: 1379480--1379511 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
1379470 ATATATATAA
1379480 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1379512 TGTTTATGGT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
AG
Found at i:1385595 original size:25 final size:26
Alignment explanation
Indices: 1385555--1385603 Score: 73
Period size: 25 Copynumber: 1.9 Consensus size: 26
1385545 CCCCTTCTCA
*
1385555 TCCAACGTTCTTTTCTTGAATTTACT
1 TCCAACGTTATTTTCTTGAATTTACT
*
1385581 TCCAAC-TTATTTTCTTGCATTTA
1 TCCAACGTTATTTTCTTGAATTTA
1385604 TTTTTACATA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 15 0.71
26 6 0.29
ACGTcount: A:0.20, C:0.22, G:0.06, T:0.51
Consensus pattern (26 bp):
TCCAACGTTATTTTCTTGAATTTACT
Found at i:1386250 original size:11 final size:11
Alignment explanation
Indices: 1386234--1386262 Score: 51
Period size: 10 Copynumber: 2.7 Consensus size: 11
1386224 AAAGTTAAAT
1386234 ATTTAAATATA
1 ATTTAAATATA
1386245 ATTTAAA-ATA
1 ATTTAAATATA
1386255 ATTTAAAT
1 ATTTAAAT
1386263 TTAAAATAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
10 10 0.59
11 7 0.41
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (11 bp):
ATTTAAATATA
Found at i:1386271 original size:26 final size:25
Alignment explanation
Indices: 1386168--1386273 Score: 71
Period size: 26 Copynumber: 4.2 Consensus size: 25
1386158 TTTTAACTCA
*
1386168 AATTTAAAAAATTT-AATTT--ATT
1 AATTTAAAAAATTTAAATTTAAAAT
*
1386190 TATTTAAACTTAAATTT-AATTTAATAAT
1 AATTTAAA---AAATTTAAATTTAA-AAT
*
1386218 AA--TAAAAAAGTTAAATATTTAAATAT
1 AATTTAAAAAA-TTTAA-ATTTAAA-AT
1386244 AATTTAAAATAATTTAAATTTAAAAT
1 AATTTAAAA-AATTTAAATTTAAAAT
1386270 AATT
1 AATT
1386274 CAATCAATAT
Statistics
Matches: 66, Mismatches: 5, Indels: 22
0.71 0.05 0.24
Matches are distributed among these distances:
22 7 0.11
23 3 0.05
24 2 0.03
25 13 0.20
26 20 0.30
27 7 0.11
28 12 0.18
29 2 0.03
ACGTcount: A:0.54, C:0.01, G:0.01, T:0.44
Consensus pattern (25 bp):
AATTTAAAAAATTTAAATTTAAAAT
Found at i:1386273 original size:10 final size:10
Alignment explanation
Indices: 1386206--1386261 Score: 50
Period size: 10 Copynumber: 5.9 Consensus size: 10
1386196 AACTTAAATT
1386206 TAATTTAATAA
1 TAATTTAA-AA
1386217 TAA--TAAAA
1 TAATTTAAAA
*
1386225 -AAGTT-AAA
1 TAATTTAAAA
1386233 T-ATTTAAATA
1 TAATTTAAA-A
1386243 TAATTTAAAA
1 TAATTTAAAA
1386253 TAATTTAAA
1 TAATTTAAA
1386262 TTTAAAATAA
Statistics
Matches: 38, Mismatches: 1, Indels: 13
0.73 0.02 0.25
Matches are distributed among these distances:
7 2 0.05
8 8 0.21
9 6 0.16
10 12 0.32
11 10 0.26
ACGTcount: A:0.59, C:0.00, G:0.02, T:0.39
Consensus pattern (10 bp):
TAATTTAAAA
Found at i:1386423 original size:19 final size:18
Alignment explanation
Indices: 1386388--1386431 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
1386378 AAATCTTATG
* *
1386388 TATTATAAATTATTAATA
1 TATTAAAAAATATTAATA
1386406 TATTAAAAAATATATAATA
1 TATTAAAAAATAT-TAATA
*
1386425 TTTTAAA
1 TATTAAA
1386432 TATAATAATT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
18 11 0.50
19 11 0.50
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (18 bp):
TATTAAAAAATATTAATA
Found at i:1386439 original size:17 final size:17
Alignment explanation
Indices: 1386413--1386445 Score: 50
Period size: 16 Copynumber: 1.9 Consensus size: 17
1386403 ATATATTAAA
1386413 AAATATATAA-TATTTT
1 AAATATATAATTATTTT
1386429 AAATATAATAATTATTT
1 AAATAT-ATAATTATTT
1386446 GTGTGAACCC
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 6 0.40
17 4 0.27
18 5 0.33
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (17 bp):
AAATATATAATTATTTT
Found at i:1386692 original size:21 final size:21
Alignment explanation
Indices: 1386668--1386710 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
1386658 AAAAAAATCT
1386668 AAACTCAACTTTAAAACAAAA
1 AAACTCAACTTTAAAACAAAA
1386689 AAACTCAACTTTAAAACAAAA
1 AAACTCAACTTTAAAACAAAA
1386710 A
1 A
1386711 CTCATCTCGA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.63, C:0.19, G:0.00, T:0.19
Consensus pattern (21 bp):
AAACTCAACTTTAAAACAAAA
Found at i:1386891 original size:20 final size:21
Alignment explanation
Indices: 1386842--1386890 Score: 98
Period size: 21 Copynumber: 2.3 Consensus size: 21
1386832 TCAATTTTTG
1386842 TAAAAAAATAATAATTTAAGT
1 TAAAAAAATAATAATTTAAGT
1386863 TAAAAAAATAATAATTTAAGT
1 TAAAAAAATAATAATTTAAGT
1386884 TAAAAAA
1 TAAAAAA
1386891 TGAGTTACTG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.65, C:0.00, G:0.04, T:0.31
Consensus pattern (21 bp):
TAAAAAAATAATAATTTAAGT
Found at i:1387260 original size:3 final size:3
Alignment explanation
Indices: 1387252--1387280 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
1387242 TTACATCCCA
1387252 ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
1387281 ATGGATGAAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:1387389 original size:38 final size:38
Alignment explanation
Indices: 1387361--1387482 Score: 244
Period size: 38 Copynumber: 3.2 Consensus size: 38
1387351 GATAAATAAA
1387361 ATTATTATTATAAATTTTGTTTGAAAATGAAAGTTGTT
1 ATTATTATTATAAATTTTGTTTGAAAATGAAAGTTGTT
1387399 ATTATTATTATAAATTTTGTTTGAAAATGAAAGTTGTT
1 ATTATTATTATAAATTTTGTTTGAAAATGAAAGTTGTT
1387437 ATTATTATTATAAATTTTGTTTGAAAATGAAAGTTGTT
1 ATTATTATTATAAATTTTGTTTGAAAATGAAAGTTGTT
1387475 ATTATTAT
1 ATTATTAT
1387483 AAATTAAGCT
Statistics
Matches: 84, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 84 1.00
ACGTcount: A:0.37, C:0.00, G:0.12, T:0.51
Consensus pattern (38 bp):
ATTATTATTATAAATTTTGTTTGAAAATGAAAGTTGTT
Found at i:1388018 original size:15 final size:16
Alignment explanation
Indices: 1387970--1388027 Score: 54
Period size: 15 Copynumber: 3.9 Consensus size: 16
1387960 TATATATATA
*
1387970 ATATTTATAT-ATTTT
1 ATATTTATATAAATTT
*
1387985 A-ATTAATTATAAA--T
1 ATATTTA-TATAAATTT
1387999 ATATTTA-ATAAATTT
1 ATATTTATATAAATTT
1388014 ATATTTATATAAAT
1 ATATTTATATAAAT
1388028 GATGGTATGA
Statistics
Matches: 34, Mismatches: 3, Indels: 11
0.71 0.06 0.23
Matches are distributed among these distances:
13 5 0.15
14 6 0.18
15 16 0.47
16 7 0.21
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (16 bp):
ATATTTATATAAATTT
Found at i:1388088 original size:16 final size:16
Alignment explanation
Indices: 1388050--1388127 Score: 60
Period size: 14 Copynumber: 5.2 Consensus size: 16
1388040 TAATTTGTAT
* *
1388050 TATTAAATTTTAA-GA
1 TATTATATTTTAATTA
*
1388065 TA-TATATTTTTATTA
1 TATTATATTTTAATTA
1388080 TATTATATTTTAATTA
1 TATTATATTTTAATTA
* *
1388096 TTTTATA-TGT-ATTA
1 TATTATATTTTAATTA
*
1388110 TATT-TA-TATAATTA
1 TATTATATTTTAATTA
1388124 TATT
1 TATT
1388128 TAAAATTATT
Statistics
Matches: 52, Mismatches: 8, Indels: 7
0.78 0.12 0.10
Matches are distributed among these distances:
13 4 0.08
14 23 0.44
15 7 0.13
16 18 0.35
ACGTcount: A:0.37, C:0.00, G:0.03, T:0.60
Consensus pattern (16 bp):
TATTATATTTTAATTA
Found at i:1388147 original size:14 final size:14
Alignment explanation
Indices: 1388092--1388148 Score: 53
Period size: 14 Copynumber: 4.0 Consensus size: 14
1388082 TTATATTTTA
*
1388092 ATTAT-TTTATATGT
1 ATTATATTTAAAT-T
* *
1388106 ATTATATTTATATA
1 ATTATATTTAAATT
1388120 ATTATATTTAAAATT
1 ATTATATTT-AAATT
*
1388135 ATTAAATTTAAATT
1 ATTATATTTAAATT
1388149 TTTTAAGATT
Statistics
Matches: 37, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
14 19 0.51
15 18 0.49
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.56
Consensus pattern (14 bp):
ATTATATTTAAATT
Found at i:1388506 original size:5 final size:5
Alignment explanation
Indices: 1388490--1388525 Score: 56
Period size: 5 Copynumber: 7.4 Consensus size: 5
1388480 TATTAAATAA
*
1388490 TAAAT T-AAT TAAAT TAAAT TAAAT TAATT TAAAT TA
1 TAAAT TAAAT TAAAT TAAAT TAAAT TAAAT TAAAT TA
1388526 TTAAATATTA
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
4 4 0.14
5 24 0.86
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (5 bp):
TAAAT
Found at i:1388755 original size:26 final size:26
Alignment explanation
Indices: 1388726--1388815 Score: 69
Period size: 26 Copynumber: 3.4 Consensus size: 26
1388716 AAATTAAAAA
1388726 TTATTTATTTTTAAATAATTTTATTT
1 TTATTTATTTTTAAATAATTTTATTT
* **
1388752 TTA--TATTTTATCAATAATATAAATTTT
1 TTATTTATTTT-TAAATAAT-TTTA-TTT
* *
1388779 TTAAATTATATTTAAAT-ATTTTATTT
1 TT-ATTTATTTTTAAATAATTTTATTT
1388805 TTATATTATTT
1 TTAT-TTATTT
1388816 ATAATTTTAT
Statistics
Matches: 48, Mismatches: 9, Indels: 14
0.68 0.13 0.20
Matches are distributed among these distances:
24 6 0.12
25 8 0.17
26 15 0.31
27 7 0.15
28 3 0.06
29 4 0.08
30 5 0.10
ACGTcount: A:0.36, C:0.01, G:0.00, T:0.63
Consensus pattern (26 bp):
TTATTTATTTTTAAATAATTTTATTT
Found at i:1390651 original size:19 final size:19
Alignment explanation
Indices: 1390609--1390651 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 19
1390599 CAAGTCAAAT
1390609 ACATATTGATATTCAATGA
1 ACATATTGATATTCAATGA
* *
1390628 TCATACTTGA-ATTCAATTA
1 ACATA-TTGATATTCAATGA
1390647 ACATA
1 ACATA
1390652 GTTTTTAATT
Statistics
Matches: 20, Mismatches: 3, Indels: 2
0.80 0.12 0.08
Matches are distributed among these distances:
19 16 0.80
20 4 0.20
ACGTcount: A:0.42, C:0.14, G:0.07, T:0.37
Consensus pattern (19 bp):
ACATATTGATATTCAATGA
Found at i:1391240 original size:42 final size:42
Alignment explanation
Indices: 1391161--1391240 Score: 115
Period size: 42 Copynumber: 1.9 Consensus size: 42
1391151 TTATTATTTA
* * *
1391161 TATTATATTGATTTTAATATATTTATTTATTCGTATCAATAT
1 TATTATATTAATTTTAATATATTTATATATTCATATCAATAT
* *
1391203 TATTATATTAATTTTAATTTATTTATATATTTATATCA
1 TATTATATTAATTTTAATATATTTATATATTCATATCA
1391241 TATAATCATA
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
42 33 1.00
ACGTcount: A:0.35, C:0.04, G:0.03, T:0.59
Consensus pattern (42 bp):
TATTATATTAATTTTAATATATTTATATATTCATATCAATAT
Found at i:1391253 original size:19 final size:19
Alignment explanation
Indices: 1391229--1391265 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
1391219 ATTTATTTAT
1391229 ATATTTATATCATATAATC
1 ATATTTATATCATATAATC
*
1391248 ATATTTATATTATATAAT
1 ATATTTATATCATATAAT
1391266 TATGATTAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.43, C:0.05, G:0.00, T:0.51
Consensus pattern (19 bp):
ATATTTATATCATATAATC
Found at i:1392960 original size:2 final size:2
Alignment explanation
Indices: 1392947--1392983 Score: 65
Period size: 2 Copynumber: 18.5 Consensus size: 2
1392937 CTGATCTTAG
*
1392947 TC TC TA TC TC 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 TC TC TC TC TC T
1392984 AGTCTCACAT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.03, C:0.46, G:0.00, T:0.51
Consensus pattern (2 bp):
TC
Found at i:1393481 original size:21 final size:21
Alignment explanation
Indices: 1393457--1393497 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
1393447 TTTTATTTTA
*
1393457 AATTTAATTATTTTAATAATT
1 AATTTAATTATTTAAATAATT
*
1393478 AATTTTATTATTTAAATAAT
1 AATTTAATTATTTAAATAAT
1393498 ATTTAAAATA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (21 bp):
AATTTAATTATTTAAATAATT
Found at i:1393697 original size:2 final size:2
Alignment explanation
Indices: 1393690--1393714 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
1393680 AGGCAGCCAA
1393690 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
1393715 AACCCAAGAG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:1406381 original size:16 final size:16
Alignment explanation
Indices: 1406336--1406385 Score: 50
Period size: 16 Copynumber: 3.2 Consensus size: 16
1406326 ATTATATTCA
1406336 ATAT-AAGTATGAAA-
1 ATATGAAGTATGAAAT
** * *
1406350 ATATGATTTTTTAAAT
1 ATATGAAGTATGAAAT
1406366 ATATGAAGTATGAAAT
1 ATATGAAGTATGAAAT
1406382 ATAT
1 ATAT
1406386 TTATGTTTTA
Statistics
Matches: 26, Mismatches: 8, Indels: 2
0.72 0.22 0.06
Matches are distributed among these distances:
14 4 0.15
15 6 0.23
16 16 0.62
ACGTcount: A:0.48, C:0.00, G:0.12, T:0.40
Consensus pattern (16 bp):
ATATGAAGTATGAAAT
Found at i:1407514 original size:24 final size:25
Alignment explanation
Indices: 1407476--1407532 Score: 71
Period size: 24 Copynumber: 2.2 Consensus size: 25
1407466 TCAATTTTGA
* *
1407476 ATATAATATAAAAAAATTAAAATATT
1 ATATAATAT-AAAAAATAAAAAAATT
1407502 ATATAATAT-AAAAATAAAAAAATT
1 ATATAATATAAAAAATAAAAAAATT
1407526 ATGATAA
1 AT-ATAA
1407533 AATTTATATA
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
24 15 0.54
25 4 0.14
26 9 0.32
ACGTcount: A:0.67, C:0.00, G:0.02, T:0.32
Consensus pattern (25 bp):
ATATAATATAAAAAATAAAAAAATT
Found at i:1409184 original size:3 final size:3
Alignment explanation
Indices: 1409176--1409217 Score: 75
Period size: 3 Copynumber: 13.7 Consensus size: 3
1409166 ACCATTTGAA
1409176 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT ATAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A-AT AA
1409218 GTCAACAATA
Statistics
Matches: 38, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
3 35 0.92
4 3 0.08
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:1410174 original size:2 final size:2
Alignment explanation
Indices: 1410162--1410197 Score: 63
Period size: 2 Copynumber: 18.0 Consensus size: 2
1410152 AAATCAATAA
*
1410162 AT AT CT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1410198 CTTATTGAAT
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1411758 original size:3 final size:3
Alignment explanation
Indices: 1411750--1411785 Score: 72
Period size: 3 Copynumber: 12.0 Consensus size: 3
1411740 AAGCAAGAGT
1411750 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1411786 ATAATAAAAA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:1415104 original size:14 final size:15
Alignment explanation
Indices: 1415082--1415119 Score: 51
Period size: 15 Copynumber: 2.6 Consensus size: 15
1415072 AAATAGTGAT
*
1415082 ATTTGATTTA-ATAA
1 ATTTAATTTATATAA
1415096 ATTTAATTTATATAA
1 ATTTAATTTATATAA
*
1415111 ATTAAATTT
1 ATTTAATTT
1415120 TAAATAATTT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
14 9 0.43
15 12 0.57
ACGTcount: A:0.45, C:0.00, G:0.03, T:0.53
Consensus pattern (15 bp):
ATTTAATTTATATAA
Found at i:1415536 original size:13 final size:14
Alignment explanation
Indices: 1415520--1415583 Score: 55
Period size: 13 Copynumber: 4.6 Consensus size: 14
1415510 TATTATCATT
1415520 AATT-ATAATAAAA
1 AATTAATAATAAAA
1415533 AATTAATAAT-AAA
1 AATTAATAATAAAA
*
1415546 TATTAATAATTAAAA
1 AATTAATAA-TAAAA
*
1415561 TAATT-ATAATTATAA
1 -AATTAATAA-TAAAA
1415576 AA-TAATAA
1 AATTAATAA
1415584 ATATAATATA
Statistics
Matches: 43, Mismatches: 3, Indels: 9
0.78 0.05 0.16
Matches are distributed among these distances:
13 16 0.37
14 12 0.28
15 12 0.28
16 3 0.07
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (14 bp):
AATTAATAATAAAA
Found at i:1415550 original size:26 final size:25
Alignment explanation
Indices: 1415521--1415602 Score: 71
Period size: 23 Copynumber: 3.3 Consensus size: 25
1415511 ATTATCATTA
1415521 ATTATAATAAAAAATTAATAATAAAT
1 ATTATAATAAAAAA-TAATAATAAAT
* * *
1415547 ATTAATAAT-TAAAATAATTATAATT
1 ATT-ATAATAAAAAATAATAATAAAT
* * *
1415572 A-TAAAATAATAAAT-ATAATATAT
1 ATTATAATAAAAAATAATAATAAAT
1415595 ATTATAAT
1 ATTATAAT
1415603 TATTATTTAA
Statistics
Matches: 43, Mismatches: 10, Indels: 8
0.70 0.16 0.13
Matches are distributed among these distances:
23 11 0.26
24 10 0.23
25 10 0.23
26 7 0.16
27 5 0.12
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (25 bp):
ATTATAATAAAAAATAATAATAAAT
Found at i:1415761 original size:17 final size:18
Alignment explanation
Indices: 1415733--1415767 Score: 63
Period size: 17 Copynumber: 2.0 Consensus size: 18
1415723 AAAATAATTT
1415733 ATATTATATATATTTAAA
1 ATATTATATATATTTAAA
1415751 ATATT-TATATATTTAAA
1 ATATTATATATATTTAAA
1415768 TTATATAATT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 12 0.71
18 5 0.29
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (18 bp):
ATATTATATATATTTAAA
Found at i:1415781 original size:16 final size:16
Alignment explanation
Indices: 1415729--1415840 Score: 79
Period size: 16 Copynumber: 7.0 Consensus size: 16
1415719 ATTTAAAATA
1415729 ATTTATATTATAT-AT
1 ATTTATATTATATAAT
* * *
1415744 ATTTAAAATATTTATAT
1 ATTTATATTATATA-AT
*
1415761 ATTTAAATTATATAAT
1 ATTTATATTATATAAT
* * *
1415777 TTTTATTTTATATTAT
1 ATTTATATTATATAAT
1415793 ATTTATATTATATTTTAAT
1 ATTTATATTATA---TAAT
*
1415812 ATTT-TA--ATATTAT
1 ATTTATATTATATAAT
*
1415825 ATTTATATCATATAAT
1 ATTTATATTATATAAT
1415841 CTTATAATAT
Statistics
Matches: 75, Mismatches: 14, Indels: 15
0.72 0.13 0.14
Matches are distributed among these distances:
13 7 0.09
14 2 0.03
15 10 0.13
16 33 0.44
17 14 0.19
18 2 0.03
19 7 0.09
ACGTcount: A:0.40, C:0.01, G:0.00, T:0.59
Consensus pattern (16 bp):
ATTTATATTATATAAT
Found at i:1415794 original size:32 final size:34
Alignment explanation
Indices: 1415729--1415840 Score: 121
Period size: 32 Copynumber: 3.5 Consensus size: 34
1415719 ATTTAAAATA
* *
1415729 ATTTATATTATATATATTTAAAATATT--TA-TAT
1 ATTTATATTATATA-ATTTAATATTTTAATATTAT
* *
1415761 ATTTAAATTATATAATTT-TTATTTT-ATATTAT
1 ATTTATATTATATAATTTAATATTTTAATATTAT
1415793 ATTTATATTATAT--TTTAATATTTTAATATTAT
1 ATTTATATTATATAATTTAATATTTTAATATTAT
*
1415825 ATTTATATCATATAAT
1 ATTTATATTATATAAT
1415841 CTTATAATAT
Statistics
Matches: 67, Mismatches: 7, Indels: 10
0.80 0.08 0.12
Matches are distributed among these distances:
30 7 0.10
31 12 0.18
32 47 0.70
34 1 0.01
ACGTcount: A:0.40, C:0.01, G:0.00, T:0.59
Consensus pattern (34 bp):
ATTTATATTATATAATTTAATATTTTAATATTAT
Found at i:1415803 original size:21 final size:22
Alignment explanation
Indices: 1415729--1415837 Score: 72
Period size: 21 Copynumber: 5.1 Consensus size: 22
1415719 ATTTAAAATA
* *
1415729 ATTTATATTATATATAT-TTAAA
1 ATTTATATTATATTTATATT-AT
*
1415751 ATATT-TA-TATATTTAAATTAT
1 AT-TTATATTATATTTATATTAT
1415772 ATAATT-T-TTAT-TTTATATTAT
1 AT--TTATATTATATTTATATTAT
*
1415793 ATTTATATTATATTT-TAATAT
1 ATTTATATTATATTTATATTAT
*
1415814 -TTTAATATTATATTTATATCAT
1 ATTT-ATATTATATTTATATTAT
1415836 AT
1 AT
1415838 AATCTTATAA
Statistics
Matches: 70, Mismatches: 7, Indels: 19
0.73 0.07 0.20
Matches are distributed among these distances:
19 2 0.03
20 4 0.06
21 41 0.59
22 20 0.29
23 3 0.04
ACGTcount: A:0.39, C:0.01, G:0.00, T:0.60
Consensus pattern (22 bp):
ATTTATATTATATTTATATTAT
Found at i:1415837 original size:11 final size:11
Alignment explanation
Indices: 1415729--1415837 Score: 72
Period size: 11 Copynumber: 10.2 Consensus size: 11
1415719 ATTTAAAATA
1415729 ATTTATATTAT
1 ATTTATATTAT
* *
1415740 ATATAT-TTAAA
1 ATTTATATT-AT
1415751 ATATT-TA-TAT
1 AT-TTATATTAT
*
1415761 ATTTAAATTAT
1 ATTTATATTAT
1415772 ATAATT-T-TTAT
1 AT--TTATATTAT
1415783 -TTTATATTAT
1 ATTTATATTAT
1415793 ATTTATATTAT
1 ATTTATATTAT
*
1415804 ATTT-TAATAT
1 ATTTATATTAT
1415814 -TTTAATATTAT
1 ATTT-ATATTAT
*
1415825 ATTTATATCAT
1 ATTTATATTAT
1415836 AT
1 AT
1415838 AATCTTATAA
Statistics
Matches: 76, Mismatches: 9, Indels: 26
0.68 0.08 0.23
Matches are distributed among these distances:
8 2 0.03
9 6 0.08
10 16 0.21
11 46 0.61
12 4 0.05
13 2 0.03
ACGTcount: A:0.39, C:0.01, G:0.00, T:0.60
Consensus pattern (11 bp):
ATTTATATTAT
Found at i:1415840 original size:21 final size:21
Alignment explanation
Indices: 1415758--1415846 Score: 76
Period size: 21 Copynumber: 4.2 Consensus size: 21
1415748 AAAATATTTA
*
1415758 TATATTTAAATTATATAAT-T
1 TATATTTATATTATATAATAT
* *
1415778 TTTATTTTATATTATATTTATAT
1 TATA-TTTATATTATA-TAATAT
1415801 TATATTTTAATATT-T-TAATAT
1 TATA-TTT-ATATTATATAATAT
* *
1415822 TATATTTATATCATATAATCT
1 TATATTTATATTATATAATAT
1415843 TATA
1 TATA
1415847 ATATTTAATG
Statistics
Matches: 56, Mismatches: 7, Indels: 11
0.76 0.09 0.15
Matches are distributed among these distances:
19 4 0.07
20 7 0.12
21 28 0.50
22 3 0.05
23 9 0.16
24 5 0.09
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.60
Consensus pattern (21 bp):
TATATTTATATTATATAATAT
Found at i:1416143 original size:29 final size:31
Alignment explanation
Indices: 1416076--1416143 Score: 90
Period size: 29 Copynumber: 2.3 Consensus size: 31
1416066 CCTTTTTTTG
*
1416076 TTTTATTTTATTTTATTAAATTGTATAATAA
1 TTTTATTTTATTTTATTAAATTGTACAATAA
1416107 TTTT-TTTTATTTTA-TAAATT-TAC-ATATA
1 TTTTATTTTATTTTATTAAATTGTACAATA-A
1416135 TTTTATTTT
1 TTTTATTTT
1416144 TAATTATTTT
Statistics
Matches: 34, Mismatches: 1, Indels: 6
0.83 0.02 0.15
Matches are distributed among these distances:
27 3 0.09
28 7 0.21
29 10 0.29
30 10 0.29
31 4 0.12
ACGTcount: A:0.31, C:0.01, G:0.01, T:0.66
Consensus pattern (31 bp):
TTTTATTTTATTTTATTAAATTGTACAATAA
Found at i:1416144 original size:30 final size:31
Alignment explanation
Indices: 1416076--1416145 Score: 85
Period size: 30 Copynumber: 2.4 Consensus size: 31
1416066 CCTTTTTTTG
*
1416076 TTTTA-TTTTATTTTATTAAATTGTATAATA
1 TTTTATTTTTATTTTATTAAATTGTACAATA
*
1416106 ATTT-TTTTTATTTTA-TAAATT-TACATATA
1 TTTTATTTTTATTTTATTAAATTGTACA-ATA
1416135 TTTTATTTTTA
1 TTTTATTTTTA
1416146 ATTATTTTTA
Statistics
Matches: 34, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
28 3 0.09
29 12 0.35
30 19 0.56
ACGTcount: A:0.31, C:0.01, G:0.01, T:0.66
Consensus pattern (31 bp):
TTTTATTTTTATTTTATTAAATTGTACAATA
Found at i:1416510 original size:15 final size:15
Alignment explanation
Indices: 1416492--1416545 Score: 58
Period size: 15 Copynumber: 3.7 Consensus size: 15
1416482 TATTAAAATT
1416492 TTAAAAATATAAAAA
1 TTAAAAATATAAAAA
*
1416507 TT-AAAATACT-AAAT
1 TTAAAAATA-TAAAAA
*
1416521 TTAATAATATAAAAA
1 TTAAAAATATAAAAA
*
1416536 TTAATAATAT
1 TTAAAAATAT
1416546 TTTATTATTA
Statistics
Matches: 33, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
14 12 0.36
15 21 0.64
ACGTcount: A:0.63, C:0.02, G:0.00, T:0.35
Consensus pattern (15 bp):
TTAAAAATATAAAAA
Found at i:1416894 original size:19 final size:19
Alignment explanation
Indices: 1416852--1416892 Score: 66
Period size: 19 Copynumber: 2.2 Consensus size: 19
1416842 AAACATGATA
1416852 ATTTATATATTCATATTAT
1 ATTTATATATTCATATTAT
*
1416871 ATTTATATATT-TTATTAT
1 ATTTATATATTCATATTAT
1416889 ATTT
1 ATTT
1416893 TAATGTGTTC
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
18 10 0.48
19 11 0.52
ACGTcount: A:0.34, C:0.02, G:0.00, T:0.63
Consensus pattern (19 bp):
ATTTATATATTCATATTAT
Found at i:1416954 original size:13 final size:13
Alignment explanation
Indices: 1416936--1416965 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
1416926 TTTTGAAATA
*
1416936 TTTATGTATTTAT
1 TTTATGTATATAT
1416949 TTTATGTATATAT
1 TTTATGTATATAT
1416962 TTTA
1 TTTA
1416966 ATTTTTTTTC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.27, C:0.00, G:0.07, T:0.67
Consensus pattern (13 bp):
TTTATGTATATAT
Found at i:1418673 original size:2 final size:2
Alignment explanation
Indices: 1418666--1418697 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
1418656 CACAAAATAC
1418666 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1418698 GAAAGGAAGA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1419630 original size:3 final size:3
Alignment explanation
Indices: 1419622--1419657 Score: 63
Period size: 3 Copynumber: 12.0 Consensus size: 3
1419612 TGTTATACAA
*
1419622 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT TTT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1419658 TCAAAAGATT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
ATT
Found at i:1420677 original size:2 final size:2
Alignment explanation
Indices: 1420670--1420703 Score: 61
Period size: 2 Copynumber: 17.5 Consensus size: 2
1420660 TAAGGGAGAC
1420670 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT -T AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1420704 GAATATTTAT
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 30 0.97
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1421594 original size:12 final size:12
Alignment explanation
Indices: 1421569--1421607 Score: 53
Period size: 12 Copynumber: 3.3 Consensus size: 12
1421559 TAGATATTGA
1421569 AAAAAATAAT-T
1 AAAAAATAATAT
* *
1421580 AAAACATGATAT
1 AAAAAATAATAT
1421592 AAAAAATAATAT
1 AAAAAATAATAT
1421604 AAAA
1 AAAA
1421608 TTATTAATAT
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
11 8 0.35
12 15 0.65
ACGTcount: A:0.72, C:0.03, G:0.03, T:0.23
Consensus pattern (12 bp):
AAAAAATAATAT
Found at i:1421757 original size:3 final size:3
Alignment explanation
Indices: 1421736--1421780 Score: 72
Period size: 3 Copynumber: 15.0 Consensus size: 3
1421726 GGTGGTAAGC
* *
1421736 AAT AAC AAT AAT AAC AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1421781 GTAGAAGAAG
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
3 38 1.00
ACGTcount: A:0.67, C:0.04, G:0.00, T:0.29
Consensus pattern (3 bp):
AAT
Found at i:1422956 original size:2 final size:2
Alignment explanation
Indices: 1422949--1422988 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
1422939 ATTTTGACTT
1422949 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1422989 AGACTTCAAT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:1424666 original size:2 final size:2
Alignment explanation
Indices: 1424659--1424688 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
1424649 TAATTTCTTG
1424659 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1424689 CATACACACA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:1424819 original size:2 final size:2
Alignment explanation
Indices: 1424812--1424858 Score: 94
Period size: 2 Copynumber: 23.5 Consensus size: 2
1424802 ATTTTATAGC
1424812 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1424854 AT AT A
1 AT AT A
1424859 AACAGCACTT
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 45 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:1425093 original size:17 final size:18
Alignment explanation
Indices: 1425071--1425104 Score: 61
Period size: 17 Copynumber: 1.9 Consensus size: 18
1425061 GTTTGGATTA
1425071 TTTATTTAA-ATTTAAAT
1 TTTATTTAATATTTAAAT
1425088 TTTATTTAATATTTAAA
1 TTTATTTAATATTTAAA
1425105 AAATTTGGAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 9 0.56
18 7 0.44
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (18 bp):
TTTATTTAATATTTAAAT
Found at i:1425725 original size:17 final size:17
Alignment explanation
Indices: 1425672--1425727 Score: 53
Period size: 17 Copynumber: 3.2 Consensus size: 17
1425662 TAAATTTAAA
*
1425672 AAATATAATTTTTATTATT
1 AAATATAA--TTTAATATT
1425691 AAATAATAATTTAA-ATT
1 AAAT-ATAATTTAATATT
1425708 AAAT-TAATTTAAATATT
1 AAATATAATTT-AATATT
1425725 AAA
1 AAA
1425728 AAATTTTATT
Statistics
Matches: 33, Mismatches: 1, Indels: 8
0.79 0.02 0.19
Matches are distributed among these distances:
15 6 0.18
16 2 0.06
17 13 0.39
18 4 0.12
19 4 0.12
20 4 0.12
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
AAATATAATTTAATATT
Found at i:1430357 original size:20 final size:20
Alignment explanation
Indices: 1430313--1430351 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
1430303 ATTTATTTAC
**
1430313 ATAAAAATATAAATTTAATT
1 ATAAAAATATAAAAATAATT
1430333 ATAAAAATATAAAAATAAT
1 ATAAAAATATAAAAATAAT
1430352 ATTAAACTCT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (20 bp):
ATAAAAATATAAAAATAATT
Found at i:1431539 original size:10 final size:10
Alignment explanation
Indices: 1431526--1431557 Score: 50
Period size: 10 Copynumber: 3.4 Consensus size: 10
1431516 ACGTCCTTCC
1431526 ATAATAAAAA
1 ATAATAAAAA
1431536 AT-A-AAAAA
1 ATAATAAAAA
1431544 ATAATAAAAA
1 ATAATAAAAA
1431554 ATAA
1 ATAA
1431558 AAACCTTCAA
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
8 7 0.35
9 2 0.10
10 11 0.55
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (10 bp):
ATAATAAAAA
Found at i:1431549 original size:18 final size:18
Alignment explanation
Indices: 1431526--1431560 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
1431516 ACGTCCTTCC
1431526 ATAATAAAAAATAAAAAA
1 ATAATAAAAAATAAAAAA
1431544 ATAATAAAAAATAAAAA
1 ATAATAAAAAATAAAAA
1431561 CCTTCAACTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.83, C:0.00, G:0.00, T:0.17
Consensus pattern (18 bp):
ATAATAAAAAATAAAAAA
Found at i:1432068 original size:2 final size:2
Alignment explanation
Indices: 1432061--1432102 Score: 84
Period size: 2 Copynumber: 21.0 Consensus size: 2
1432051 TATGTGTATG
1432061 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1432103 GACACACACA
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:1434771 original size:23 final size:24
Alignment explanation
Indices: 1434745--1434791 Score: 62
Period size: 22 Copynumber: 2.0 Consensus size: 24
1434735 TAATTAATTT
1434745 TTTTTATATTT-TAAAAAATTAAA
1 TTTTTATATTTATAAAAAATTAAA
* *
1434768 -TTTTATATTTATAAATATTTAAA
1 TTTTTATATTTATAAAAAATTAAA
1434791 T
1 T
1434792 ATATCTTTTA
Statistics
Matches: 20, Mismatches: 2, Indels: 3
0.80 0.08 0.12
Matches are distributed among these distances:
22 10 0.50
23 10 0.50
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (24 bp):
TTTTTATATTTATAAAAAATTAAA
Found at i:1434774 original size:22 final size:23
Alignment explanation
Indices: 1434746--1434791 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 23
1434736 AATTAATTTT
1434746 TTTTATATTT-TAAAAAATTAAA
1 TTTTATATTTATAAAAAATTAAA
* *
1434768 TTTTATATTTATAAATATTTAAA
1 TTTTATATTTATAAAAAATTAAA
1434791 T
1 T
1434792 ATATCTTTTA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
22 10 0.48
23 11 0.52
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (23 bp):
TTTTATATTTATAAAAAATTAAA
Found at i:1435051 original size:2 final size:2
Alignment explanation
Indices: 1435044--1435081 Score: 51
Period size: 2 Copynumber: 19.0 Consensus size: 2
1435034 TGAACGGGAA
*
1435044 CT CT CT CT CT C- CAT AT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT C-T CT CT CT CT CT CT CT CT CT CT CT CT
1435082 ATATATATAT
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
1 1 0.03
2 31 0.97
ACGTcount: A:0.05, C:0.47, G:0.00, T:0.47
Consensus pattern (2 bp):
CT
Found at i:1435679 original size:6 final size:6
Alignment explanation
Indices: 1435658--1435695 Score: 62
Period size: 6 Copynumber: 6.7 Consensus size: 6
1435648 ACAAACAAAT
1435658 GGGGA- GGGGA- GGGGAG GGGGAG GGGGAG GGGGAG GGGG
1 GGGGAG GGGGAG GGGGAG GGGGAG GGGGAG GGGGAG GGGG
1435696 TTTGCATTTT
Statistics
Matches: 32, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
5 10 0.31
6 22 0.69
ACGTcount: A:0.16, C:0.00, G:0.84, T:0.00
Consensus pattern (6 bp):
GGGGAG
Found at i:1436271 original size:49 final size:50
Alignment explanation
Indices: 1436209--1436307 Score: 173
Period size: 49 Copynumber: 2.0 Consensus size: 50
1436199 AGCAAAACAG
* *
1436209 AACAGCTTCTATCAAACATGATATGAGAGAAT-GTGCTTCAAAATTCAGC
1 AACAGATTCTATCAAACATGATACGAGAGAATGGTGCTTCAAAATTCAGC
1436258 AACAGATTCTATCAAACATGATACGAGAGAATGGTGCTTCAAAATTCAGC
1 AACAGATTCTATCAAACATGATACGAGAGAATGGTGCTTCAAAATTCAGC
1436308 CATGCTTATA
Statistics
Matches: 47, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
49 30 0.64
50 17 0.36
ACGTcount: A:0.39, C:0.18, G:0.17, T:0.25
Consensus pattern (50 bp):
AACAGATTCTATCAAACATGATACGAGAGAATGGTGCTTCAAAATTCAGC
Found at i:1439846 original size:22 final size:22
Alignment explanation
Indices: 1439818--1439864 Score: 94
Period size: 22 Copynumber: 2.1 Consensus size: 22
1439808 AATATGTATC
1439818 AGACACAAATATTTCAAAACGA
1 AGACACAAATATTTCAAAACGA
1439840 AGACACAAATATTTCAAAACGA
1 AGACACAAATATTTCAAAACGA
1439862 AGA
1 AGA
1439865 GTTAGAGGAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.55, C:0.17, G:0.11, T:0.17
Consensus pattern (22 bp):
AGACACAAATATTTCAAAACGA
Found at i:1441274 original size:24 final size:25
Alignment explanation
Indices: 1441245--1441292 Score: 80
Period size: 25 Copynumber: 2.0 Consensus size: 25
1441235 TTTTTTATTA
*
1441245 TTTAAAAATT-TTATTAATAAATAT
1 TTTAAAAATTATAATTAATAAATAT
1441269 TTTAAAAATTATAATTAATAAATA
1 TTTAAAAATTATAATTAATAAATA
1441293 ATTTGTTTAT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
24 10 0.45
25 12 0.55
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (25 bp):
TTTAAAAATTATAATTAATAAATAT
Found at i:1442970 original size:28 final size:27
Alignment explanation
Indices: 1442921--1442991 Score: 72
Period size: 28 Copynumber: 2.5 Consensus size: 27
1442911 TTTTATCGAT
* *
1442921 AATTTATAATTTTACTATTTAAAAGTTG
1 AATTTTTAATTTTACTAATTAAAA-TTG
*
1442949 AATTTTTAATTTTA-TAAATTAAAATTT
1 AATTTTTAATTTTACT-AATTAAAATTG
1442976 AATTTTGATAATTTTA
1 AATTTT--TAATTTTA
1442992 GATATAAAAA
Statistics
Matches: 37, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
27 9 0.24
28 20 0.54
29 8 0.22
ACGTcount: A:0.41, C:0.01, G:0.04, T:0.54
Consensus pattern (27 bp):
AATTTTTAATTTTACTAATTAAAATTG
Found at i:1443420 original size:5 final size:5
Alignment explanation
Indices: 1443396--1443469 Score: 73
Period size: 5 Copynumber: 15.2 Consensus size: 5
1443386 AATAATAAAA
* * * *
1443396 TATAT CATAT TA-AT TTTAT TATAT TATTTT TATAT T-TAT TA-AA TATAT
1 TATAT TATAT TATAT TATAT TATAT TA-TAT TATAT TATAT TATAT TATAT
*
1443444 TATTT TATAT TATAT TATAT TATAT T
1 TATAT TATAT TATAT TATAT TATAT T
1443470 TTTTATTATT
Statistics
Matches: 55, Mismatches: 10, Indels: 8
0.75 0.14 0.11
Matches are distributed among these distances:
4 10 0.18
5 41 0.75
6 4 0.07
ACGTcount: A:0.36, C:0.01, G:0.00, T:0.62
Consensus pattern (5 bp):
TATAT
Found at i:1443436 original size:29 final size:29
Alignment explanation
Indices: 1443396--1443475 Score: 83
Period size: 29 Copynumber: 2.8 Consensus size: 29
1443386 AATAATAAAA
* *
1443396 TATATCATATTAATTTTATTATATTATTTT
1 TATATTATATTAATTTTATTATATTA-TAT
* * *
1443426 TATATT-TATTAAATATATTATTTTATAT
1 TATATTATATTAATTTTATTATATTATAT
1443454 TATATTATATTATATTTT-TTAT
1 TATATTATATTA-ATTTTATTAT
1443476 TATTTGTTAT
Statistics
Matches: 41, Mismatches: 7, Indels: 5
0.77 0.13 0.09
Matches are distributed among these distances:
28 8 0.20
29 25 0.61
30 8 0.20
ACGTcount: A:0.35, C:0.01, G:0.00, T:0.64
Consensus pattern (29 bp):
TATATTATATTAATTTTATTATATTATAT
Found at i:1443443 original size:24 final size:25
Alignment explanation
Indices: 1443415--1443478 Score: 84
Period size: 23 Copynumber: 2.8 Consensus size: 25
1443405 TTAATTTTAT
1443415 TATATTATTTTTATATT-TATTAAA
1 TATATTATTTTTATATTATATTAAA
*
1443439 TATATTA-TTTTATATTATATTATA
1 TATATTATTTTTATATTATATTAAA
1443463 T-TA-TATTTTT-TATTAT
1 TATATTATTTTTATATTAT
1443479 TTGTTATCTA
Statistics
Matches: 37, Mismatches: 1, Indels: 6
0.84 0.02 0.14
Matches are distributed among these distances:
22 8 0.22
23 15 0.41
24 14 0.38
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (25 bp):
TATATTATTTTTATATTATATTAAA
Found at i:1443453 original size:12 final size:12
Alignment explanation
Indices: 1443402--1443479 Score: 56
Period size: 12 Copynumber: 6.4 Consensus size: 12
1443392 AAAATATATC
1443402 ATATTAATTTTATT
1 ATATT-ATTTTA-T
1443416 ATATTATTTT-T
1 ATATTATTTTAT
**
1443427 ATATTTATTAAAT
1 ATA-TTATTTTAT
1443440 ATATTATTTTAT
1 ATATTATTTTAT
*
1443452 AT-TATATTATATT
1 ATAT-TATTTTA-T
1443465 ATATT-TTTTAT
1 ATATTATTTTAT
1443476 -TATT
1 ATATT
1443480 TGTTATCTAT
Statistics
Matches: 53, Mismatches: 6, Indels: 14
0.73 0.08 0.19
Matches are distributed among these distances:
10 4 0.08
11 6 0.11
12 24 0.45
13 13 0.25
14 6 0.11
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (12 bp):
ATATTATTTTAT
Found at i:1443463 original size:22 final size:23
Alignment explanation
Indices: 1443415--1443475 Score: 72
Period size: 24 Copynumber: 2.6 Consensus size: 23
1443405 TTAATTTTAT
1443415 TATATTATTTTTATATT-TATTAAA
1 TATATTA-TTTTATATTATATT-AA
1443439 TATATTATTTTATATTATATTATA
1 TATATTATTTTATATTATATTA-A
1443463 TTATATT-TTTTAT
1 -TATATTATTTTAT
1443476 TATTTGTTAT
Statistics
Matches: 34, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
23 10 0.29
24 18 0.53
25 6 0.18
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (23 bp):
TATATTATTTTATATTATATTAA
Found at i:1443479 original size:44 final size:43
Alignment explanation
Indices: 1443393--1443476 Score: 114
Period size: 44 Copynumber: 1.9 Consensus size: 43
1443383 TATAATAATA
*
1443393 AAATATATCATATTAATTTTATTATATTATTTTTATATTTATT
1 AAATATATCATATTAATTATATTATATTATTTTTATATTTATT
* * *
1443436 AAATATATTATTTTATATTATATTATATTATATTTTTTATT
1 AAATATATCATATTA-ATTATATTATATTAT-TTTTATATT
1443477 ATTTGTTATC
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
43 13 0.37
44 14 0.40
45 8 0.23
ACGTcount: A:0.37, C:0.01, G:0.00, T:0.62
Consensus pattern (43 bp):
AAATATATCATATTAATTATATTATATTATTTTTATATTTATT
Found at i:1443621 original size:21 final size:21
Alignment explanation
Indices: 1443595--1443648 Score: 58
Period size: 21 Copynumber: 2.6 Consensus size: 21
1443585 ATATTTAATT
1443595 AATTAATTTAATGAA-ATAAAA
1 AATTAATTTAAT-AATATAAAA
*
1443616 AATTAATATAATAATTATAAAA
1 AATTAATTTAATAA-TATAAAA
*
1443638 AA-TATTTTAAT
1 AATTAATTTAAT
1443649 TTTTGATTTT
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
20 2 0.07
21 18 0.64
22 8 0.29
ACGTcount: A:0.59, C:0.00, G:0.02, T:0.39
Consensus pattern (21 bp):
AATTAATTTAATAATATAAAA
Done.