Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167938.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_20, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 19866354
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 74000 characters in sequence are not A, C, G, or T
File 8 of 100
Found at i:1935569 original size:18 final size:18
Alignment explanation
Indices: 1935548--1935584 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
1935538 TTTAATATAA
*
1935548 ATATAAAATTATATAAAT
1 ATATAAAATTAAATAAAT
*
1935566 ATATATAATTAAATAAAT
1 ATATAAAATTAAATAAAT
1935584 A
1 A
1935585 ATTTAAAAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (18 bp):
ATATAAAATTAAATAAAT
Found at i:1939388 original size:20 final size:21
Alignment explanation
Indices: 1939360--1939403 Score: 63
Period size: 20 Copynumber: 2.1 Consensus size: 21
1939350 GCTGAGCCAG
*
1939360 ACAGCCATTCACCTAGCAA-A
1 ACAGCCATTCACATAGCAAGA
*
1939380 ACAGTCATTCACATAGCAAGA
1 ACAGCCATTCACATAGCAAGA
1939401 ACA
1 ACA
1939404 AAATATACCA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 17 0.81
21 4 0.19
ACGTcount: A:0.43, C:0.30, G:0.11, T:0.16
Consensus pattern (21 bp):
ACAGCCATTCACATAGCAAGA
Found at i:1942458 original size:24 final size:24
Alignment explanation
Indices: 1942431--1942491 Score: 88
Period size: 24 Copynumber: 2.5 Consensus size: 24
1942421 TAAAATTAAA
1942431 TATAATAATAAAAA-TTATTATAAT
1 TATAAT-ATAAAAATTTATTATAAT
*
1942455 TATAATTTAAAAATTTATTATAAT
1 TATAATATAAAAATTTATTATAAT
*
1942479 TATAATTTAAAAA
1 TATAATATAAAAA
1942492 GATATAAAAA
Statistics
Matches: 35, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
23 6 0.17
24 29 0.83
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (24 bp):
TATAATATAAAAATTTATTATAAT
Found at i:1943752 original size:29 final size:29
Alignment explanation
Indices: 1943681--1943752 Score: 74
Period size: 29 Copynumber: 2.5 Consensus size: 29
1943671 TTATAATTTA
*
1943681 ATAATTATTTAAATTTTTAATATTTTATT
1 ATAATTAATTAAATTTTTAATATTTTATT
** *
1943710 ATAATTAACCAAATTTTTTAT-TTTTATT
1 ATAATTAATTAAATTTTTAATATTTTATT
* *
1943738 TTTATTCAATTAAAT
1 ATAATT-AATTAAAT
1943753 ATTTGAATGA
Statistics
Matches: 34, Mismatches: 8, Indels: 2
0.77 0.18 0.05
Matches are distributed among these distances:
28 11 0.32
29 23 0.68
ACGTcount: A:0.38, C:0.04, G:0.00, T:0.58
Consensus pattern (29 bp):
ATAATTAATTAAATTTTTAATATTTTATT
Found at i:1948996 original size:15 final size:15
Alignment explanation
Indices: 1948976--1949008 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
1948966 GTATTGCTTA
1948976 AAATGAAAAGAAAAT
1 AAATGAAAAGAAAAT
*
1948991 AAATGAAAAGGAAAT
1 AAATGAAAAGAAAAT
1949006 AAA
1 AAA
1949009 GTCCCCATTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.73, C:0.00, G:0.15, T:0.12
Consensus pattern (15 bp):
AAATGAAAAGAAAAT
Found at i:1949532 original size:13 final size:13
Alignment explanation
Indices: 1949514--1949552 Score: 51
Period size: 13 Copynumber: 3.0 Consensus size: 13
1949504 TTTATTTAAA
*
1949514 TATATTTAAATTT
1 TATATTAAAATTT
**
1949527 TATATTAAAATAA
1 TATATTAAAATTT
1949540 TATATTAAAATTT
1 TATATTAAAATTT
1949553 AAAAATCAAT
Statistics
Matches: 21, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (13 bp):
TATATTAAAATTT
Found at i:1981656 original size:21 final size:22
Alignment explanation
Indices: 1981632--1981679 Score: 55
Period size: 21 Copynumber: 2.3 Consensus size: 22
1981622 TGAATTCCCA
*
1981632 CTTTTTA-ATTCAAATTTTTCT
1 CTTTTTATATTCAAATTTTGCT
*
1981653 C-TTTTATTTTCAAATTTTGCT
1 CTTTTTATATTCAAATTTTGCT
*
1981674 TTTTTT
1 CTTTTT
1981680 TTTTTTTTTT
Statistics
Matches: 22, Mismatches: 3, Indels: 3
0.79 0.11 0.11
Matches are distributed among these distances:
20 5 0.23
21 13 0.59
22 4 0.18
ACGTcount: A:0.19, C:0.12, G:0.02, T:0.67
Consensus pattern (22 bp):
CTTTTTATATTCAAATTTTGCT
Found at i:1981683 original size:21 final size:21
Alignment explanation
Indices: 1981640--1981683 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 21
1981630 CACTTTTTAA
*
1981640 TTCAAATTTTTCTCTTTTATT
1 TTCAAATTTTGCTCTTTTATT
* *
1981661 TTCAAATTTTGCTTTTTTTTT
1 TTCAAATTTTGCTCTTTTATT
1981682 TT
1 TT
1981684 TTTTTTGTTT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.16, C:0.11, G:0.02, T:0.70
Consensus pattern (21 bp):
TTCAAATTTTGCTCTTTTATT
Found at i:1983814 original size:20 final size:20
Alignment explanation
Indices: 1983789--1983827 Score: 78
Period size: 20 Copynumber: 1.9 Consensus size: 20
1983779 GTCTTTTGTA
1983789 GGACAAAACCGTGAGCTTAG
1 GGACAAAACCGTGAGCTTAG
1983809 GGACAAAACCGTGAGCTTA
1 GGACAAAACCGTGAGCTTA
1983828 AGTCTCGACC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.36, C:0.21, G:0.28, T:0.15
Consensus pattern (20 bp):
GGACAAAACCGTGAGCTTAG
Found at i:1983874 original size:14 final size:14
Alignment explanation
Indices: 1983855--1983886 Score: 64
Period size: 14 Copynumber: 2.3 Consensus size: 14
1983845 TACGCACCTG
1983855 ATTGCCTATACCAC
1 ATTGCCTATACCAC
1983869 ATTGCCTATACCAC
1 ATTGCCTATACCAC
1983883 ATTG
1 ATTG
1983887 TTGAAAGAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.28, C:0.31, G:0.09, T:0.31
Consensus pattern (14 bp):
ATTGCCTATACCAC
Found at i:1991241 original size:20 final size:20
Alignment explanation
Indices: 1991208--1991247 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
1991198 AAGTCTTAAA
1991208 TTTTATTTATATTTTAATTT
1 TTTTATTTATATTTTAATTT
*
1991228 TTTTAGTTTA-ATTTTGATTT
1 TTTTA-TTTATATTTTAATTT
1991248 AATTTTTGTT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 14 0.78
21 4 0.22
ACGTcount: A:0.23, C:0.00, G:0.05, T:0.72
Consensus pattern (20 bp):
TTTTATTTATATTTTAATTT
Found at i:1991418 original size:21 final size:23
Alignment explanation
Indices: 1991394--1991436 Score: 63
Period size: 21 Copynumber: 2.0 Consensus size: 23
1991384 ATAATCTATT
*
1991394 TATTTTTA-TTTTTAT-TTTATA
1 TATTTTAATTTTTTATGTTTATA
1991415 TATTTTAATTTTTTATGTTTAT
1 TATTTTAATTTTTTATGTTTAT
1991437 TAATTTATTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 7 0.37
22 7 0.37
23 5 0.26
ACGTcount: A:0.23, C:0.00, G:0.02, T:0.74
Consensus pattern (23 bp):
TATTTTAATTTTTTATGTTTATA
Found at i:1991443 original size:22 final size:22
Alignment explanation
Indices: 1991402--1991443 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
1991392 TTTATTTTTA
*
1991402 TTTTTATTTTATATATTTTAAT
1 TTTTTATTTTATATAATTTAAT
1991424 TTTTTATGTTTAT-TAATTTA
1 TTTTTAT-TTTATATAATTTA
1991444 TTTGATTATT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
22 13 0.72
23 5 0.28
ACGTcount: A:0.26, C:0.00, G:0.02, T:0.71
Consensus pattern (22 bp):
TTTTTATTTTATATAATTTAAT
Found at i:1991446 original size:21 final size:21
Alignment explanation
Indices: 1991398--1991446 Score: 57
Period size: 22 Copynumber: 2.3 Consensus size: 21
1991388 TCTATTTATT
*
1991398 TTTA-TTTTTATTTTATATAT
1 TTTATTTTTTATTTTATATAA
1991418 TTTAATTTTTTATGTTTAT-TAA
1 TTT-ATTTTTTAT-TTTATATAA
1991440 TTTATTT
1 TTTATTT
1991447 GATTATTTGA
Statistics
Matches: 25, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
20 3 0.12
21 5 0.20
22 12 0.48
23 5 0.20
ACGTcount: A:0.24, C:0.00, G:0.02, T:0.73
Consensus pattern (21 bp):
TTTATTTTTTATTTTATATAA
Found at i:2000854 original size:22 final size:22
Alignment explanation
Indices: 2000826--2000867 Score: 84
Period size: 22 Copynumber: 1.9 Consensus size: 22
2000816 TGTTTATAAA
2000826 TGATACCATTTATACACAGCTC
1 TGATACCATTTATACACAGCTC
2000848 TGATACCATTTATACACAGC
1 TGATACCATTTATACACAGC
2000868 GGTAGGTAGT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.33, C:0.26, G:0.10, T:0.31
Consensus pattern (22 bp):
TGATACCATTTATACACAGCTC
Found at i:2007084 original size:114 final size:114
Alignment explanation
Indices: 2006884--2007111 Score: 402
Period size: 114 Copynumber: 2.0 Consensus size: 114
2006874 CGTCAAGGGT
*
2006884 TTTCTTGGAGGGGAAGAAGAAGGAGATGAGGATGATGAAGATGATCTGAAAGCTTCAACCTTATC
1 TTTCTTGGAGGGGAAGAAGAAAGAGATGAGGATGATGAAGATGATCTGAAAGCTTCAACCTTATC
*
2006949 CTTGCATTTGGTGTCGTCTCCTTTGTTTTCTTCCAAACACTTCTCCAAC
66 CTTGCATTTGATGTCGTCTCCTTTGTTTTCTTCCAAACACTTCTCCAAC
* * *
2006998 TTTCTTTGAGGGGAGGAAGAAAGAGATGAGGATGATGAAGTTGATCTGAAAGCTTCAACCTTATC
1 TTTCTTGGAGGGGAAGAAGAAAGAGATGAGGATGATGAAGATGATCTGAAAGCTTCAACCTTATC
*
2007063 CTTGCATTTGATGTTGTCTCCTTTGTTTTCTTCCAAACACTTCTCCAAC
66 CTTGCATTTGATGTCGTCTCCTTTGTTTTCTTCCAAACACTTCTCCAAC
2007112 CAATCAGCTT
Statistics
Matches: 108, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
114 108 1.00
ACGTcount: A:0.25, C:0.19, G:0.22, T:0.34
Consensus pattern (114 bp):
TTTCTTGGAGGGGAAGAAGAAAGAGATGAGGATGATGAAGATGATCTGAAAGCTTCAACCTTATC
CTTGCATTTGATGTCGTCTCCTTTGTTTTCTTCCAAACACTTCTCCAAC
Found at i:2007554 original size:46 final size:46
Alignment explanation
Indices: 2007493--2007581 Score: 144
Period size: 46 Copynumber: 1.9 Consensus size: 46
2007483 ATAATTATAA
*
2007493 AGTATAGAACAAGAATTC-AAGATTAACTGATGTTCCTAGCTACCAT
1 AGTATAGAACAAGAA-TCAAAGATTAACAGATGTTCCTAGCTACCAT
*
2007539 AGTATAGAAGAAGAATCAAAGATTAACAGATGTTCCTAGCTAC
1 AGTATAGAACAAGAATCAAAGATTAACAGATGTTCCTAGCTAC
2007582 TGTCTTCCCC
Statistics
Matches: 40, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
45 2 0.05
46 38 0.95
ACGTcount: A:0.42, C:0.16, G:0.17, T:0.26
Consensus pattern (46 bp):
AGTATAGAACAAGAATCAAAGATTAACAGATGTTCCTAGCTACCAT
Found at i:2023555 original size:6 final size:6
Alignment explanation
Indices: 2023544--2023580 Score: 58
Period size: 6 Copynumber: 6.3 Consensus size: 6
2023534 ATCATGAATG
*
2023544 TTTAAT TTTAAT TTTAAT TTAAAT TTTAA- TTTAAT TT
1 TTTAAT TTTAAT TTTAAT TTTAAT TTTAAT TTTAAT TT
2023581 AATAACTTTT
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
5 5 0.18
6 23 0.82
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (6 bp):
TTTAAT
Found at i:2033613 original size:62 final size:63
Alignment explanation
Indices: 2033533--2033658 Score: 191
Period size: 64 Copynumber: 2.0 Consensus size: 63
2033523 TCCCCTTTGG
* *
2033533 TGGTTTATCTACCAGAATTAAACTC-TAATTCTGTCGATTAAGTCTGGACATTGTTGCCAAGA
1 TGGTTTATCCACCAGAATTAAACTCATAATTCTGTCCATTAAGTCTGGACATTGTTGCCAAGA
* * *
2033595 TGGTTTATCCACGAGAATTAAACTCTATAATTCTGTCCCTTAAGTCTGGACTTTGTTGCCAAGA
1 TGGTTTATCCACCAGAATTAAACTC-ATAATTCTGTCCATTAAGTCTGGACATTGTTGCCAAGA
2033659 ATCAAATTTG
Statistics
Matches: 57, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
62 23 0.40
64 34 0.60
ACGTcount: A:0.28, C:0.19, G:0.17, T:0.36
Consensus pattern (63 bp):
TGGTTTATCCACCAGAATTAAACTCATAATTCTGTCCATTAAGTCTGGACATTGTTGCCAAGA
Found at i:2038433 original size:24 final size:24
Alignment explanation
Indices: 2038388--2038453 Score: 66
Period size: 24 Copynumber: 2.8 Consensus size: 24
2038378 TATTTGATAC
*
2038388 ATTATTAA-TATATAAATTTTATAT
1 ATTATTAATTATATAAATATTAT-T
*
2038412 ATTATTAATTA-ATTAATATTATT
1 ATTATTAATTATATAAATATTATT
* *
2038435 -TTATTAATAAAATAAATAT
1 ATTATTAATTATATAAATAT
2038454 GTTATTTTAT
Statistics
Matches: 36, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
22 9 0.25
23 8 0.22
24 17 0.47
25 2 0.06
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (24 bp):
ATTATTAATTATATAAATATTATT
Found at i:2038535 original size:14 final size:14
Alignment explanation
Indices: 2038484--2038535 Score: 61
Period size: 14 Copynumber: 3.8 Consensus size: 14
2038474 AAATTTAAAA
*
2038484 ATATATTAATTTTT
1 ATATATTAATATTT
*
2038498 ATATATTTAT-TTT
1 ATATATTAATATTT
*
2038511 AAATATTAATATTT
1 ATATATTAATATTT
*
2038525 ATTTATTAATA
1 ATATATTAATA
2038536 CAATTATATC
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
13 11 0.34
14 21 0.66
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (14 bp):
ATATATTAATATTT
Found at i:2043983 original size:86 final size:86
Alignment explanation
Indices: 2043883--2044054 Score: 317
Period size: 86 Copynumber: 2.0 Consensus size: 86
2043873 TGGTGTAGAA
2043883 GAGTCCTATATGTTGATTGTATATACTATTTCAGAGTCAAGAAACGACTTTTATAGAACAAAGAG
1 GAGTCCTATATGTTGATTGTATATACTATTTCAGAGTCAAGAAACGACTTTTATAGAACAAAGAG
2043948 TGTTATATATAAAATTAAAAT
66 TGTTATATATAAAATTAAAAT
* * *
2043969 GAGTCCTATGTGTTGATTGTATATACTATTTCAGAGTCAAGAAGCGATTTTTATAGAACAAAGAG
1 GAGTCCTATATGTTGATTGTATATACTATTTCAGAGTCAAGAAACGACTTTTATAGAACAAAGAG
2044034 TGTTATATATAAAATTAAAAT
66 TGTTATATATAAAATTAAAAT
2044055 ATATAGATCT
Statistics
Matches: 83, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
86 83 1.00
ACGTcount: A:0.40, C:0.09, G:0.16, T:0.35
Consensus pattern (86 bp):
GAGTCCTATATGTTGATTGTATATACTATTTCAGAGTCAAGAAACGACTTTTATAGAACAAAGAG
TGTTATATATAAAATTAAAAT
Found at i:2044208 original size:12 final size:12
Alignment explanation
Indices: 2044191--2044215 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
2044181 AACGTCCTAG
2044191 TGTTCTGTCATT
1 TGTTCTGTCATT
2044203 TGTTCTGTCATT
1 TGTTCTGTCATT
2044215 T
1 T
2044216 TAAACGGAGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.08, C:0.16, G:0.16, T:0.60
Consensus pattern (12 bp):
TGTTCTGTCATT
Found at i:2050709 original size:20 final size:21
Alignment explanation
Indices: 2050684--2050724 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
2050674 CGTTCATCAT
2050684 TCCTCC-GTTTCTCAGCAACC
1 TCCTCCAGTTTCTCAGCAACC
*
2050704 TCCTCCATTTTCTCAGCAACC
1 TCCTCCAGTTTCTCAGCAACC
2050725 AAACAAACAG
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 6 0.32
21 13 0.68
ACGTcount: A:0.17, C:0.44, G:0.07, T:0.32
Consensus pattern (21 bp):
TCCTCCAGTTTCTCAGCAACC
Found at i:2054408 original size:22 final size:24
Alignment explanation
Indices: 2054377--2054425 Score: 66
Period size: 24 Copynumber: 2.1 Consensus size: 24
2054367 TATCCAATTC
*
2054377 ATATGAACAAT-C-TCTAAAAATA
1 ATATGAACAATCCATCAAAAAATA
*
2054399 ATATGGACAATCCATCAAAAAATA
1 ATATGAACAATCCATCAAAAAATA
2054423 ATA
1 ATA
2054426 ATAACATGGA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
22 10 0.43
23 1 0.04
24 12 0.52
ACGTcount: A:0.55, C:0.14, G:0.06, T:0.24
Consensus pattern (24 bp):
ATATGAACAATCCATCAAAAAATA
Found at i:2056497 original size:18 final size:18
Alignment explanation
Indices: 2056459--2056496 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
2056449 GAAAGTCACC
*
2056459 TTTAGTTTCTCCCTCTCT
1 TTTAGTTCCTCCCTCTCT
*
2056477 TTTAGTTCCTTCCTCT-T
1 TTTAGTTCCTCCCTCTCT
2056494 TTT
1 TTT
2056497 TGCATACAAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
17 4 0.22
18 14 0.78
ACGTcount: A:0.05, C:0.29, G:0.05, T:0.61
Consensus pattern (18 bp):
TTTAGTTCCTCCCTCTCT
Found at i:2060539 original size:2 final size:2
Alignment explanation
Indices: 2060532--2060560 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
2060522 AACGTCACCG
2060532 CA CA CA CA CA CA CA CA CA CA CA CA CA CA C
1 CA CA CA CA CA CA CA CA CA CA CA CA CA CA C
2060561 GTGAACCCTA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.52, G:0.00, T:0.00
Consensus pattern (2 bp):
CA
Found at i:2071354 original size:14 final size:13
Alignment explanation
Indices: 2071327--2071378 Score: 54
Period size: 13 Copynumber: 3.9 Consensus size: 13
2071317 CACTTTTTTT
2071327 TTTTGTTAAT-TTA
1 TTTT-TTAATATTA
2071340 TTTTTTATATATTA
1 TTTTTTA-ATATTA
2071354 TTTTTTACAT-TTA
1 TTTTTTA-ATATTA
*
2071367 TATTTTAATATT
1 TTTTTTAATATT
2071379 TATTATGTTA
Statistics
Matches: 34, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
12 5 0.15
13 17 0.50
14 12 0.35
ACGTcount: A:0.27, C:0.02, G:0.02, T:0.69
Consensus pattern (13 bp):
TTTTTTAATATTA
Found at i:2071365 original size:27 final size:26
Alignment explanation
Indices: 2071327--2071389 Score: 74
Period size: 27 Copynumber: 2.3 Consensus size: 26
2071317 CACTTTTTTT
*
2071327 TTTTGTTAATTTATTTTTTATATATTA
1 TTTTGTTAATTTATATTTTA-ATATTA
2071354 TTTT-TTACATTTATATTTTAATATTTA
1 TTTTGTTA-ATTTATATTTTAATA-TTA
*
2071381 TTATGTTAA
1 TTTTGTTAA
2071390 ACGGCTGATT
Statistics
Matches: 31, Mismatches: 2, Indels: 6
0.79 0.05 0.15
Matches are distributed among these distances:
26 6 0.19
27 22 0.71
28 3 0.10
ACGTcount: A:0.29, C:0.02, G:0.03, T:0.67
Consensus pattern (26 bp):
TTTTGTTAATTTATATTTTAATATTA
Found at i:2071379 original size:14 final size:13
Alignment explanation
Indices: 2071335--2071382 Score: 60
Period size: 14 Copynumber: 3.5 Consensus size: 13
2071325 TTTTTTGTTA
2071335 ATTTATTTTTTAT
1 ATTTATTTTTTAT
*
2071348 ATATTATTTTTTAC
1 AT-TTATTTTTTAT
*
2071362 ATTTATATTTTAAT
1 ATTTAT-TTTTTAT
2071376 ATTTATT
1 ATTTATT
2071383 ATGTTAAACG
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
13 7 0.23
14 23 0.77
ACGTcount: A:0.29, C:0.02, G:0.00, T:0.69
Consensus pattern (13 bp):
ATTTATTTTTTAT
Found at i:2071595 original size:36 final size:36
Alignment explanation
Indices: 2071538--2071609 Score: 94
Period size: 36 Copynumber: 2.0 Consensus size: 36
2071528 TAATTACATG
*
2071538 ATAATTAATATATTTGTATGATTATATTAT-TTTTAT
1 ATAATTAATATATTTGCATGA-TATATTATATTTTAT
*
2071574 ATAATTATTAT-TATTGCATGATATATTATATTTTAT
1 ATAATTAATATAT-TTGCATGATATATTATATTTTAT
2071610 TACATGATAA
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
35 9 0.28
36 23 0.72
ACGTcount: A:0.36, C:0.01, G:0.06, T:0.57
Consensus pattern (36 bp):
ATAATTAATATATTTGCATGATATATTATATTTTAT
Found at i:2071597 original size:22 final size:22
Alignment explanation
Indices: 2071572--2071618 Score: 60
Period size: 22 Copynumber: 2.1 Consensus size: 22
2071562 TATTATTTTT
*
2071572 ATATAATTAT-TATTATTGCATG
1 ATAT-ATTATATATTATTACATG
*
2071594 ATATATTATATTTTATTACATG
1 ATATATTATATATTATTACATG
2071616 ATA
1 ATA
2071619 ATTTTTGCAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
21 5 0.23
22 17 0.77
ACGTcount: A:0.38, C:0.04, G:0.06, T:0.51
Consensus pattern (22 bp):
ATATATTATATATTATTACATG
Found at i:2071627 original size:36 final size:36
Alignment explanation
Indices: 2071550--2071628 Score: 90
Period size: 36 Copynumber: 2.2 Consensus size: 36
2071540 AATTAATATA
* * *
2071550 TTTGTATGATTATATTATTTTTATATAATTATTATT
1 TTTGCATGATTATATTATTTTTATATAATGATAATT
*
2071586 ATTGCATGA-TATATTATATTTTAT-TACATGATAATT
1 TTTGCATGATTATATTAT-TTTTATATA-ATGATAATT
2071622 TTTGCAT
1 TTTGCAT
2071629 TAAAATTTAT
Statistics
Matches: 36, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
35 10 0.28
36 26 0.72
ACGTcount: A:0.32, C:0.04, G:0.08, T:0.57
Consensus pattern (36 bp):
TTTGCATGATTATATTATTTTTATATAATGATAATT
Found at i:2072874 original size:9 final size:9
Alignment explanation
Indices: 2072813--2072888 Score: 52
Period size: 10 Copynumber: 8.3 Consensus size: 9
2072803 ATATATTATA
2072813 AAAAAGTATT
1 AAAAA-TATT
*
2072823 ATAAATAATT
1 AAAAAT-ATT
*
2072833 -AAAATGTTT
1 AAAAAT-ATT
2072842 AAAAATATGT
1 AAAAATAT-T
2072852 AAAAATAATT
1 AAAAAT-ATT
2072862 --AAATATT
1 AAAAATATT
2072869 AAAAATA-T
1 AAAAATATT
*
2072877 AAAAATAAT
1 AAAAATATT
2072886 AAA
1 AAA
2072889 CTAATTTTTA
Statistics
Matches: 54, Mismatches: 5, Indels: 15
0.73 0.07 0.20
Matches are distributed among these distances:
7 3 0.06
8 12 0.22
9 17 0.31
10 20 0.37
11 2 0.04
ACGTcount: A:0.64, C:0.00, G:0.04, T:0.32
Consensus pattern (9 bp):
AAAAATATT
Found at i:2072882 original size:17 final size:17
Alignment explanation
Indices: 2072841--2072888 Score: 53
Period size: 17 Copynumber: 2.8 Consensus size: 17
2072831 TTAAAATGTT
2072841 TAAAAATATGTAAAAATA
1 TAAAAATAT-TAAAAATA
*
2072859 -ATTAAATATTAAAAATA
1 TA-AAAATATTAAAAATA
*
2072876 TAAAAATAATAAA
1 TAAAAATATTAAA
2072889 CTAATTTTTA
Statistics
Matches: 25, Mismatches: 3, Indels: 5
0.76 0.09 0.15
Matches are distributed among these distances:
17 18 0.72
18 7 0.28
ACGTcount: A:0.69, C:0.00, G:0.02, T:0.29
Consensus pattern (17 bp):
TAAAAATATTAAAAATA
Found at i:2073128 original size:14 final size:16
Alignment explanation
Indices: 2073109--2073144 Score: 58
Period size: 16 Copynumber: 2.4 Consensus size: 16
2073099 AGAGAATATG
2073109 AAAAAAGAA-A-AAAA
1 AAAAAAGAACATAAAA
2073123 AAAAAAGAACATAAAA
1 AAAAAAGAACATAAAA
2073139 AAAAAA
1 AAAAAA
2073145 ATTTTGGCAA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
14 9 0.45
15 1 0.05
16 10 0.50
ACGTcount: A:0.89, C:0.03, G:0.06, T:0.03
Consensus pattern (16 bp):
AAAAAAGAACATAAAA
Found at i:2078427 original size:44 final size:44
Alignment explanation
Indices: 2078375--2078460 Score: 131
Period size: 44 Copynumber: 2.0 Consensus size: 44
2078365 ATTATTGGAA
*
2078375 TTATGATCACCCTCAAGGC-TCAAGATAAATA-TAATTATTTAGGC
1 TTATGATCACCCTCAAGGCAT-AAGAAAAATATTAA-TATTTAGGC
2078419 TTATGATCACCCTCAAGGCATAAGAAAAATATTAATATTTAG
1 TTATGATCACCCTCAAGGCATAAGAAAAATATTAATATTTAG
2078461 TATTTTGCTG
Statistics
Matches: 39, Mismatches: 1, Indels: 4
0.89 0.02 0.09
Matches are distributed among these distances:
44 35 0.90
45 4 0.10
ACGTcount: A:0.40, C:0.16, G:0.13, T:0.31
Consensus pattern (44 bp):
TTATGATCACCCTCAAGGCATAAGAAAAATATTAATATTTAGGC
Found at i:2089406 original size:87 final size:87
Alignment explanation
Indices: 2089260--2089418 Score: 273
Period size: 87 Copynumber: 1.8 Consensus size: 87
2089250 TGCATAACAT
2089260 ATTCCGTAAAGGGGTTAGCATAAACTCGTTCAAATCGATTTAATGAATTAAAATTGATGAAAATA
1 ATTCCGTAAAGGGGTTAGCATAAACTCGTTCAAATCGATTTAATGAATTAAAATTGATGAAAATA
2089325 ATTAATTCGATTTTATTTATTA
66 ATTAATTCGATTTTATTTATTA
** * * *
2089347 ATTCCGTAAAGGTTTTAGCATAAATTCGTTCAAATCGATTTAATTAATTAAATTTGATGAAAATA
1 ATTCCGTAAAGGGGTTAGCATAAACTCGTTCAAATCGATTTAATGAATTAAAATTGATGAAAATA
2089412 ATTAATT
66 ATTAATT
2089419 TTAGTTATAG
Statistics
Matches: 67, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
87 67 1.00
ACGTcount: A:0.40, C:0.09, G:0.13, T:0.39
Consensus pattern (87 bp):
ATTCCGTAAAGGGGTTAGCATAAACTCGTTCAAATCGATTTAATGAATTAAAATTGATGAAAATA
ATTAATTCGATTTTATTTATTA
Found at i:2089471 original size:22 final size:23
Alignment explanation
Indices: 2089445--2089508 Score: 62
Period size: 21 Copynumber: 2.9 Consensus size: 23
2089435 TTTTAGATTA
2089445 ATTAAATTAATTAATTTTTATT-
1 ATTAAATTAATTAATTTTTATTG
* **
2089467 TTTAAAATTAA-TAA-TTGAATTG
1 ATT-AAATTAATTAATTTTTATTG
*
2089489 ATCAAATTAATTAATTTTTA
1 ATTAAATTAATTAATTTTTA
2089509 ATAAATAAAA
Statistics
Matches: 31, Mismatches: 7, Indels: 7
0.69 0.16 0.16
Matches are distributed among these distances:
21 12 0.39
22 9 0.29
23 10 0.32
ACGTcount: A:0.44, C:0.02, G:0.03, T:0.52
Consensus pattern (23 bp):
ATTAAATTAATTAATTTTTATTG
Found at i:2089611 original size:17 final size:17
Alignment explanation
Indices: 2089585--2089619 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
2089575 TTAAATTTTT
*
2089585 TAATAATTTAGTTTGAA
1 TAATAATTTAATTTGAA
*
2089602 TAATATTTTAATTTGAA
1 TAATAATTTAATTTGAA
2089619 T
1 T
2089620 TTTATTTAAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.40, C:0.00, G:0.09, T:0.51
Consensus pattern (17 bp):
TAATAATTTAATTTGAA
Found at i:2091020 original size:12 final size:12
Alignment explanation
Indices: 2091003--2091028 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
2090993 TGTAGTTTGG
2091003 TTCTTTTTTTTT
1 TTCTTTTTTTTT
2091015 TTCTTTTTTTTT
1 TTCTTTTTTTTT
2091027 TT
1 TT
2091029 TTTCACTGGA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.00, C:0.08, G:0.00, T:0.92
Consensus pattern (12 bp):
TTCTTTTTTTTT
Found at i:2091265 original size:3 final size:3
Alignment explanation
Indices: 2091257--2091303 Score: 94
Period size: 3 Copynumber: 15.7 Consensus size: 3
2091247 GTTCATATTC
2091257 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
2091304 AATGATTAGT
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 44 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:2091670 original size:13 final size:13
Alignment explanation
Indices: 2091635--2091673 Score: 53
Period size: 13 Copynumber: 3.0 Consensus size: 13
2091625 GTAATAAAAA
*
2091635 ATTTTAATTTATTA
1 ATTTTAATTT-TTG
2091649 ATTTT-ATTTTTG
1 ATTTTAATTTTTG
2091661 ATTTTAATTTTTG
1 ATTTTAATTTTTG
2091674 TTTAATTGTT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
12 7 0.30
13 11 0.48
14 5 0.22
ACGTcount: A:0.26, C:0.00, G:0.05, T:0.69
Consensus pattern (13 bp):
ATTTTAATTTTTG
Found at i:2093011 original size:17 final size:20
Alignment explanation
Indices: 2092975--2093014 Score: 59
Period size: 17 Copynumber: 2.1 Consensus size: 20
2092965 TTTTTAGATT
2092975 TATGATATGTAATATTTTTA
1 TATGATATGTAATATTTTTA
2092995 TATGAT-TGT-AT-TTTTTA
1 TATGATATGTAATATTTTTA
2093012 TAT
1 TAT
2093015 TTAATAACTT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
17 9 0.45
18 2 0.10
19 3 0.15
20 6 0.30
ACGTcount: A:0.30, C:0.00, G:0.10, T:0.60
Consensus pattern (20 bp):
TATGATATGTAATATTTTTA
Found at i:2094732 original size:2 final size:2
Alignment explanation
Indices: 2094725--2094755 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
2094715 AAGACGAAGA
2094725 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
2094756 GAGAGAGAGA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:2094760 original size:2 final size:2
Alignment explanation
Indices: 2094755--2094788 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
2094745 ATATATATAT
2094755 AG 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 AG
2094789 TGATATGGAA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
AG
Found at i:2097106 original size:3 final size:3
Alignment explanation
Indices: 2097100--2097129 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
2097090 CACTTGAGCT
2097100 GCA GCA GCA GCA GCA GCA GCA GCA GCA GCA
1 GCA GCA GCA GCA GCA GCA GCA GCA GCA GCA
2097130 ATTTCCTCCT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.33, C:0.33, G:0.33, T:0.00
Consensus pattern (3 bp):
GCA
Found at i:2108629 original size:11 final size:11
Alignment explanation
Indices: 2108613--2108639 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
2108603 CAAGCAAGCA
2108613 GCTTGGTCTTG
1 GCTTGGTCTTG
2108624 GCTTGGTCTTG
1 GCTTGGTCTTG
2108635 GCTTG
1 GCTTG
2108640 AGATTACTCA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.00, C:0.19, G:0.37, T:0.44
Consensus pattern (11 bp):
GCTTGGTCTTG
Found at i:2113303 original size:23 final size:22
Alignment explanation
Indices: 2113266--2113312 Score: 60
Period size: 23 Copynumber: 2.1 Consensus size: 22
2113256 TAAATCAATA
*
2113266 ATTTTTAAAATAATTA-AACATT
1 ATTTTTAAAAAAATTACAA-ATT
2113288 ATTTTATAAAAAAATTACAAATT
1 ATTTT-TAAAAAAATTACAAATT
2113311 AT
1 AT
2113313 AAATCAATTT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
22 5 0.23
23 15 0.68
24 2 0.09
ACGTcount: A:0.53, C:0.04, G:0.00, T:0.43
Consensus pattern (22 bp):
ATTTTTAAAAAAATTACAAATT
Found at i:2114655 original size:20 final size:20
Alignment explanation
Indices: 2114630--2114671 Score: 66
Period size: 20 Copynumber: 2.1 Consensus size: 20
2114620 TATTTTTTTA
2114630 TTATTTATCAATTAATATAT
1 TTATTTATCAATTAATATAT
**
2114650 TTATTTATTTATTAATATAT
1 TTATTTATCAATTAATATAT
2114670 TT
1 TT
2114672 TTATTTTTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.36, C:0.02, G:0.00, T:0.62
Consensus pattern (20 bp):
TTATTTATCAATTAATATAT
Found at i:2115502 original size:6 final size:6
Alignment explanation
Indices: 2115491--2115540 Score: 68
Period size: 6 Copynumber: 8.7 Consensus size: 6
2115481 ATATTCTTAA
* *
2115491 TTTTAT TTTTAT TTTTAT TCTTAT TCTTAT TTTTA- TTTTA- TTTTAT
1 TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT
2115537 TTTT
1 TTTT
2115541 TAAATGATTT
Statistics
Matches: 41, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
5 10 0.24
6 31 0.76
ACGTcount: A:0.16, C:0.04, G:0.00, T:0.80
Consensus pattern (6 bp):
TTTTAT
Found at i:2115510 original size:24 final size:24
Alignment explanation
Indices: 2115482--2115537 Score: 82
Period size: 24 Copynumber: 2.4 Consensus size: 24
2115472 AATAATTTGA
2115482 TATTCTTAATT-TTATTTTTATTTT
1 TATTCTT-ATTCTTATTTTTATTTT
2115506 TATTCTTATTCTTATTTTTA-TTT
1 TATTCTTATTCTTATTTTTATTTT
2115529 TATT-TTATT
1 TATTCTTATT
2115538 TTTTAAATGA
Statistics
Matches: 31, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
22 5 0.16
23 10 0.32
24 16 0.52
ACGTcount: A:0.20, C:0.05, G:0.00, T:0.75
Consensus pattern (24 bp):
TATTCTTATTCTTATTTTTATTTT
Found at i:2115514 original size:18 final size:17
Alignment explanation
Indices: 2115490--2115540 Score: 77
Period size: 18 Copynumber: 3.0 Consensus size: 17
2115480 GATATTCTTA
2115490 ATTTTATTTTTATTTTT
1 ATTTTATTTTTATTTTT
*
2115507 ATTCTTATTCTTATTTTT
1 ATT-TTATTTTTATTTTT
2115525 ATTTTA-TTTTATTTTT
1 ATTTTATTTTTATTTTT
2115541 TAAATGATTT
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
16 9 0.29
17 6 0.19
18 16 0.52
ACGTcount: A:0.18, C:0.04, G:0.00, T:0.78
Consensus pattern (17 bp):
ATTTTATTTTTATTTTT
Found at i:2115627 original size:58 final size:57
Alignment explanation
Indices: 2115548--2115727 Score: 197
Period size: 57 Copynumber: 3.1 Consensus size: 57
2115538 TTTTAAATGA
* *
2115548 TTTTCTTAAAATAAAATTCTAAAAAAATATTTTCGAGGAAAAGTTGAAAGTATTAAT
1 TTTTCTTAAAATAAATTTCTAAAAAAATATTTTCGAGGAAAAGTTGAAAGTATCAAT
* * *
2115605 TTTTCTTGAAAATAATTTTCT-AAAAAATATTTTTGAGAAAAAGTTGAAAGTATCAAT
1 TTTTCTT-AAAATAAATTTCTAAAAAAATATTTTCGAGGAAAAGTTGAAAGTATCAAT
* * * *
2115662 TTTTCTAAAAAATTAAAGTTTC-AGAAAAATATTTTGGA-GAAAAGTTTG-AAGTACCAAT
1 TTTTCT-TAAAA-TAAA-TTTCTAAAAAAATATTTTCGAGGAAAAG-TTGAAAGTATCAAT
*
2115720 TTTCCTTA
1 TTTTCTTA
2115728 TAAAAAAAAA
Statistics
Matches: 104, Mismatches: 13, Indels: 12
0.81 0.10 0.09
Matches are distributed among these distances:
57 51 0.49
58 33 0.32
59 20 0.19
ACGTcount: A:0.44, C:0.07, G:0.11, T:0.38
Consensus pattern (57 bp):
TTTTCTTAAAATAAATTTCTAAAAAAATATTTTCGAGGAAAAGTTGAAAGTATCAAT
Found at i:2118988 original size:15 final size:15
Alignment explanation
Indices: 2118965--2118998 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
2118955 TTCATGCATG
* *
2118965 CATTTTCATTCATTA
1 CATTCTCATTCAATA
2118980 CATTCTCATTCAATA
1 CATTCTCATTCAATA
2118995 CATT
1 CATT
2118999 TAACAAAGTA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.29, C:0.24, G:0.00, T:0.47
Consensus pattern (15 bp):
CATTCTCATTCAATA
Found at i:2126234 original size:12 final size:12
Alignment explanation
Indices: 2126219--2126265 Score: 55
Period size: 11 Copynumber: 4.1 Consensus size: 12
2126209 TAAAAACAAG
2126219 AAAAAAATGAGA
1 AAAAAAATGAGA
2126231 AAAAAAATGA-A
1 AAAAAAATGAGA
2126242 AAAAAAA--AGA
1 AAAAAAATGAGA
*
2126252 ATGAAAAATGAGA
1 A-AAAAAATGAGA
2126265 A
1 A
2126266 CTTAAGACGA
Statistics
Matches: 30, Mismatches: 1, Indels: 7
0.79 0.03 0.18
Matches are distributed among these distances:
9 1 0.03
10 2 0.07
11 13 0.43
12 10 0.33
13 4 0.13
ACGTcount: A:0.77, C:0.00, G:0.15, T:0.09
Consensus pattern (12 bp):
AAAAAAATGAGA
Found at i:2126248 original size:15 final size:15
Alignment explanation
Indices: 2126230--2126259 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
2126220 AAAAAATGAG
2126230 AAAAAAAATGAAAAA
1 AAAAAAAATGAAAAA
*
2126245 AAAAAGAATGAAAAA
1 AAAAAAAATGAAAAA
2126260 TGAGAACTTA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.83, C:0.00, G:0.10, T:0.07
Consensus pattern (15 bp):
AAAAAAAATGAAAAA
Found at i:2127311 original size:44 final size:44
Alignment explanation
Indices: 2127251--2127594 Score: 349
Period size: 44 Copynumber: 7.9 Consensus size: 44
2127241 TTAATGAGCA
* *
2127251 ATTTATTTTTTCAAAGTCGTTAAGCCTCTGTTTAGAGGAGCTTT
1 ATTTATTTTTTCAAAGTCGTTGAGCCTCTGATTAGAGGAGCTTT
* * *
2127295 ATTTATTTTTTGAAAGTCGTGGAGTCTCTGATTAGAGGAGCTTT
1 ATTTATTTTTTCAAAGTCGTTGAGCCTCTGATTAGAGGAGCTTT
* ** * * *
2127339 GTTTATTTTTTCCAAAGTTATTGAGCCTCTGATTAAAGAATCTTT
1 ATTTATTTTTT-CAAAGTCGTTGAGCCTCTGATTAGAGGAGCTTT
* * * *
2127384 AGTTA-TTTTCCAAAGTTG-TGAGCCTCTGATTAGATGAGCTTT
1 ATTTATTTTTTCAAAGTCGTTGAGCCTCTGATTAGAGGAGCTTT
* * * *
2127426 GTTTA-TTTTTCTAAAGTCATTGAGCCTCTGTTTAAAGGAGCTTT
1 ATTTATTTTTTC-AAAGTCGTTGAGCCTCTGATTAGAGGAGCTTT
* * * * *
2127470 GTTTATTTTTTCAAAGTCATTGAGCCTTTAATTAGAGAAGCTTT
1 ATTTATTTTTTCAAAGTCGTTGAGCCTCTGATTAGAGGAGCTTT
* * * * * *
2127514 AGTTATTTTCT-AAAGTTG-TGAGCCTCTGATTATAAGAGTTTT
1 ATTTATTTTTTCAAAGTCGTTGAGCCTCTGATTAGAGGAGCTTT
2127556 ATTTATTTTTTCAAAGTCGTTGAGCCTCT-ACTTAGAGGA
1 ATTTATTTTTTCAAAGTCGTTGAGCCTCTGA-TTAGAGGA
2127595 ACTTAATCAA
Statistics
Matches: 242, Mismatches: 51, Indels: 14
0.79 0.17 0.05
Matches are distributed among these distances:
42 55 0.23
43 24 0.10
44 129 0.53
45 34 0.14
ACGTcount: A:0.25, C:0.12, G:0.19, T:0.44
Consensus pattern (44 bp):
ATTTATTTTTTCAAAGTCGTTGAGCCTCTGATTAGAGGAGCTTT
Found at i:2127461 original size:86 final size:86
Alignment explanation
Indices: 2127252--2127592 Score: 322
Period size: 86 Copynumber: 3.9 Consensus size: 86
2127242 TAATGAGCAA
* * * * * * *
2127252 TTTATTTTT-TCAAAGTCGTTAAGCCTCTGTTTAGAGGAGCTTTATTTATTTTTTGAAAGTCGTG
1 TTTATTTTTCT-AAAGTCATTGAGCCTCTGATTAAAGAAGCTTTAGTTATTTTTTCAAAGTCGT-
*
2127316 GAGTCTCTGATTAGAGGAGCTTTG
64 GAGCCTCTGATTAGA-GAGCTTTG
* * * * *
2127340 TTTATTTTTTCCAAAGTTATTGAGCCTCTGATTAAAGAATCTTTAGTTA-TTTTCCAAAGTTGTG
1 TTTA-TTTTTCTAAAGTCATTGAGCCTCTGATTAAAGAAGCTTTAGTTATTTTTTCAAAGTCGTG
2127404 AGCCTCTGATTAGATGAGCTTTG
65 AGCCTCTGATTAGA-GAGCTTTG
* * *
2127427 TTTATTTTTCTAAAGTCATTGAGCCTCTGTTTAAAGGAGCTTT-GTTTATTTTTTCAAAGTCATT
1 TTTATTTTTCTAAAGTCATTGAGCCTCTGATTAAAGAAGCTTTAG-TTATTTTTTCAAAGTC-GT
* *
2127491 GAGCCTTTAATTAGAGAAGCTTTAG
64 GAGCCTCTGATTAGAG-AGCTTT-G
* *
2127516 -TTA-TTTTCTAAAGT--TGTGAGCCTCTGATTATAAG-AGTTTTATTTATTTTTTCAAAGTCGT
1 TTTATTTTTCTAAAGTCAT-TGAGCCTCTGATTA-AAGAAGCTTTAGTTATTTTTTCAAAGTCG-
2127576 TGAGCCTCT-ACTTAGAG
63 TGAGCCTCTGA-TTAGAG
2127593 GAACTTAATC
Statistics
Matches: 212, Mismatches: 29, Indels: 26
0.79 0.11 0.10
Matches are distributed among these distances:
85 3 0.01
86 85 0.40
87 51 0.24
88 38 0.18
89 35 0.17
ACGTcount: A:0.24, C:0.13, G:0.18, T:0.45
Consensus pattern (86 bp):
TTTATTTTTCTAAAGTCATTGAGCCTCTGATTAAAGAAGCTTTAGTTATTTTTTCAAAGTCGTGA
GCCTCTGATTAGAGAGCTTTG
Found at i:2127539 original size:130 final size:131
Alignment explanation
Indices: 2127273--2127584 Score: 439
Period size: 130 Copynumber: 2.4 Consensus size: 131
2127263 AAAGTCGTTA
* * * * * *
2127273 AGCCTCTGTTTAGAGGAGCTTTATTTATTTTTTGAAAGTCGTGGAGTCTCTGATTAGAGGAGCTT
1 AGCCTCTGATTAGAAGAGCTTTATTTATTTTTTCAAAGTCGTTGAGCCTCTGATTAAAGGAGCTT
* * *
2127338 TGTTTATTTTTTCCAAAGTTATTGAGCCTCTGATTAAAGAATCTTTAGTTATTTTCCAAAGTTGT
66 TGTTTATTTTTTCCAAAGTCATTGAGCCTCTAATTAAAGAAGCTTTAGTTATTTTCCAAAGTTGT
2127403 G
131 G
* * * *
2127404 AGCCTCTGATTAGATGAGCTTTGTTTA-TTTTTCTAAAGTCATTGAGCCTCTGTTTAAAGGAGCT
1 AGCCTCTGATTAGAAGAGCTTTATTTATTTTTTC-AAAGTCGTTGAGCCTCTGATTAAAGGAGCT
* * *
2127468 TTGTTTATTTTTT-CAAAGTCATTGAGCCTTTAATTAGAGAAGCTTTAGTTATTTTCTAAAGTTG
65 TTGTTTATTTTTTCCAAAGTCATTGAGCCTCTAATTAAAGAAGCTTTAGTTATTTTCCAAAGTTG
2127532 TG
130 TG
* *
2127534 AGCCTCTGATTATAAGAGTTTTATTTATTTTTTCAAAGTCGTTGAGCCTCT
1 AGCCTCTGATTAGAAGAGCTTTATTTATTTTTTCAAAGTCGTTGAGCCTCT
2127585 ACTTAGAGGA
Statistics
Matches: 159, Mismatches: 20, Indels: 5
0.86 0.11 0.03
Matches are distributed among these distances:
130 91 0.57
131 68 0.43
ACGTcount: A:0.24, C:0.13, G:0.19, T:0.44
Consensus pattern (131 bp):
AGCCTCTGATTAGAAGAGCTTTATTTATTTTTTCAAAGTCGTTGAGCCTCTGATTAAAGGAGCTT
TGTTTATTTTTTCCAAAGTCATTGAGCCTCTAATTAAAGAAGCTTTAGTTATTTTCCAAAGTTGT
G
Found at i:2128666 original size:27 final size:27
Alignment explanation
Indices: 2128613--2128666 Score: 74
Period size: 27 Copynumber: 2.0 Consensus size: 27
2128603 TTTTTTCTTA
* *
2128613 TTTAATATTATTATTATTTCTTTTATT
1 TTTAATATTATTATTATTTATTATATT
2128640 TTTAATATTATTTATTA-TTATTATATT
1 TTTAATATTA-TTATTATTTATTATATT
2128667 AGAATAATTT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
27 18 0.75
28 6 0.25
ACGTcount: A:0.30, C:0.02, G:0.00, T:0.69
Consensus pattern (27 bp):
TTTAATATTATTATTATTTATTATATT
Found at i:2128695 original size:5 final size:5
Alignment explanation
Indices: 2128685--2128717 Score: 57
Period size: 5 Copynumber: 6.4 Consensus size: 5
2128675 TTGGTATTCC
2128685 TTATT TTATTT TTATT TTATT TTATT TTATT TT
1 TTATT TTA-TT TTATT TTATT TTATT TTATT TT
2128718 TTAAAATGAT
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
5 22 0.81
6 5 0.19
ACGTcount: A:0.18, C:0.00, G:0.00, T:0.82
Consensus pattern (5 bp):
TTATT
Found at i:2128797 original size:57 final size:58
Alignment explanation
Indices: 2128726--2128973 Score: 247
Period size: 57 Copynumber: 4.3 Consensus size: 58
2128716 TTTTAAAATG
2128726 ATTTT-CTT-AAAATAAAATTT-AAAAAAATATTTTTGAGAAAAAGTTGAAAGTATCA
1 ATTTTCCTTAAAAATAAAATTTAAAAAAAATATTTTTGAGAAAAAGTTGAAAGTATCA
* * * * *
2128781 ATTTTCCTTGAAAAT-AATTTTCAAAATAATATTTTTGAGGAAAAGTTGAAAGTATCA
1 ATTTTCCTTAAAAATAAAATTTAAAAAAAATATTTTTGAGAAAAAGTTGAAAGTATCA
* * * *
2128838 ATTTTTCTTAAAAATAAATTTTTTAAAAAAAAATATTTTTAAGGAAAAGTTGAAAGTATCA
1 ATTTTCCTTAAAAATAAA--ATTT-AAAAAAAATATTTTTGAGAAAAAGTTGAAAGTATCA
* ** * * * * * * *
2128899 ATTTTTCTCGAAATTAAAGTTTCAGAAAAACA--TTTGAGAAAAAGTTAAAAGTACCA
1 ATTTTCCTTAAAAATAAAATTTAAAAAAAATATTTTTGAGAAAAAGTTGAAAGTATCA
*
2128955 ATTTTCCTTAAAAAAAAAA
1 ATTTTCCTTAAAAATAAAA
2128974 CGTTTTAAGG
Statistics
Matches: 161, Mismatches: 25, Indels: 13
0.81 0.13 0.07
Matches are distributed among these distances:
55 5 0.03
56 41 0.25
57 51 0.32
58 9 0.06
59 3 0.02
60 4 0.02
61 48 0.30
ACGTcount: A:0.48, C:0.06, G:0.10, T:0.36
Consensus pattern (58 bp):
ATTTTCCTTAAAAATAAAATTTAAAAAAAATATTTTTGAGAAAAAGTTGAAAGTATCA
Found at i:2128885 original size:16 final size:15
Alignment explanation
Indices: 2128840--2128879 Score: 53
Period size: 15 Copynumber: 2.5 Consensus size: 15
2128830 AAGTATCAAT
*
2128840 TTTTCTTAAAAATAAA
1 TTTT-TTAAAAAAAAA
2128856 TTTTTTAAAAAAAAA
1 TTTTTTAAAAAAAAA
2128871 TATTTTTAA
1 T-TTTTTAA
2128880 GGAAAAGTTG
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 11 0.50
16 11 0.50
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (15 bp):
TTTTTTAAAAAAAAA
Found at i:2128969 original size:118 final size:117
Alignment explanation
Indices: 2128746--2128968 Score: 306
Period size: 118 Copynumber: 1.9 Consensus size: 117
2128736 AATAAAATTT
* * * *
2128746 AAAAAAATATTTTTGAGAAAAAGTTGAAAGTATCAATTTTCCTTGAAAATAATTTTCAAAATAAT
1 AAAAAAATATTTTTAAGAAAAAGTTGAAAGTATCAATTTTCCTCGAAAATAAGTTTCAAAATAAC
* * * *
2128811 ATTTTTGAGGAAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAATTTTTTAA
66 A-TTTTGAGAAAAAGTTAAAAGTACCAATTTTCCTTAAAAATAAATTTTTTAA
* * *
2128864 AAAAAAATATTTTTAAGGAAAAGTTGAAAGTATCAATTTTTCTCGAAATTAAAGTTTCAGAAA-A
1 AAAAAAATATTTTTAAGAAAAAGTTGAAAGTATCAATTTTCCTCGAAAAT-AAGTTTCA-AAATA
2128928 ACA-TTTGAGAAAAAGTTAAAAGTACCAATTTTCCTTAAAAA
64 ACATTTTGAGAAAAAGTTAAAAGTACCAATTTTCCTTAAAAA
2128969 AAAAACGTTT
Statistics
Matches: 92, Mismatches: 11, Indels: 5
0.85 0.10 0.05
Matches are distributed among these distances:
117 34 0.37
118 45 0.49
119 10 0.11
120 3 0.03
ACGTcount: A:0.47, C:0.07, G:0.11, T:0.35
Consensus pattern (117 bp):
AAAAAAATATTTTTAAGAAAAAGTTGAAAGTATCAATTTTCCTCGAAAATAAGTTTCAAAATAAC
ATTTTGAGAAAAAGTTAAAAGTACCAATTTTCCTTAAAAATAAATTTTTTAA
Found at i:2129062 original size:102 final size:101
Alignment explanation
Indices: 2128860--2129060 Score: 255
Period size: 102 Copynumber: 2.0 Consensus size: 101
2128850 AATAAATTTT
* * * * *
2128860 TTAAAAAAAAATATTTTTAAGGAAAAGTTGAAAGTATCAATTTTTCTCGAAATTAAAGTTTCAGA
1 TTAAAAAAAAATAGTTTTAAGGAAAAGTTGAAAGTATCAATTTTTCTCAAAATGAAACTCTCA-A
2128925 AAAACATTTGAGAAAAAGTTAAAAGTACCAATTTTCC
65 AAAACATTTGAGAAAAAGTTAAAAGTACCAATTTTCC
*
2128962 TTAAAAAAAAA-ACGTTTTAAGGAAAAGTTGAAAGTATCAATTTTTCTTAAAATAGAAACTCTC-
1 TTAAAAAAAAATA-GTTTTAAGGAAAAGTTGAAAGTATCAATTTTTCTCAAAAT-GAAACTCTCA
** * *
2129025 AAATGCTTTTGA-AGAAAAGTTAAAAGTATCAATTTT
64 AAAAACATTTGAGA-AAAAGTTAAAAGTACCAATTTT
2129061 TCTTGAACAA
Statistics
Matches: 86, Mismatches: 10, Indels: 7
0.83 0.10 0.07
Matches are distributed among these distances:
100 1 0.01
101 31 0.36
102 48 0.56
103 6 0.07
ACGTcount: A:0.47, C:0.08, G:0.12, T:0.33
Consensus pattern (101 bp):
TTAAAAAAAAATAGTTTTAAGGAAAAGTTGAAAGTATCAATTTTTCTCAAAATGAAACTCTCAAA
AAACATTTGAGAAAAAGTTAAAAGTACCAATTTTCC
Found at i:2129759 original size:143 final size:143
Alignment explanation
Indices: 2129585--2129854 Score: 513
Period size: 143 Copynumber: 1.9 Consensus size: 143
2129575 CGTTATGACA
2129585 ATAAATAAAAGCCATTGATATCATATCATATTATATATTATATATAATATTATATTACAACATAC
1 ATAAATAAAAGCCATTGATATCATATCATATTATATATTATATATAATATTATATTACAACATAC
2129650 ATAAAAACTTGATAAAATTTGCTTACGCAAACACTTAGATGGATAACCTATATTATTAACATATC
66 ATAAAAACTTGATAAAATTTGCTTACGCAAACACTTAGATGGATAACCTATATTATTAACATATC
2129715 ATATTATATATTT
131 ATATTATATATTT
*
2129728 ATAAATAAAAGCCATTGATATCATATCATATTATATATTATATATTATATTATATTACAACATAC
1 ATAAATAAAAGCCATTGATATCATATCATATTATATATTATATATAATATTATATTACAACATAC
* *
2129793 ATAAAAACTTGATAAAATTTGCTTACGCGAACACTTAGATGGATAACTTATATTATTAACAT
66 ATAAAAACTTGATAAAATTTGCTTACGCAAACACTTAGATGGATAACCTATATTATTAACAT
2129855 GTATGATTGT
Statistics
Matches: 124, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
143 124 1.00
ACGTcount: A:0.44, C:0.12, G:0.06, T:0.37
Consensus pattern (143 bp):
ATAAATAAAAGCCATTGATATCATATCATATTATATATTATATATAATATTATATTACAACATAC
ATAAAAACTTGATAAAATTTGCTTACGCAAACACTTAGATGGATAACCTATATTATTAACATATC
ATATTATATATTT
Found at i:2130354 original size:284 final size:283
Alignment explanation
Indices: 2129826--2130359 Score: 756
Period size: 283 Copynumber: 1.9 Consensus size: 283
2129816 TACGCGAACA
**
2129826 CTTAGATGGATAACTTATATTATTAACATGTATGATTGTTTTAAATAATTTTATTATATCAATTA
1 CTTAGATGGATAACTTATATTATTAACATGTATGATAATTTTAAATAATTTTATTATATCAATTA
* * * *
2129891 TGTAATTTTTAAAGTTTTAAACTTTATATTTATCTAAATCTTTTAAAGTACATAAGTTTTATCTT
66 TGTAATTTTTAAAATTTAAAACTTTACATTTATCTAAATCTTTCAAAGTACATAAGTTTTATCTT
* * * *
2129956 AATTTAAACATGAAAAAAACATATCTCGTACCTCACATTTATCCATGTATATGAAATACAAAATT
131 AATTTAAACATG-AAAAAACATATCACATACCTCACATTTACCCATGTATATAAAATACAAAATT
* * *
2130021 TAAATAAATTTCAAAAGTTAAATCACTAAATCTTATAAATCAGAAAAAATATACACATAAAAACC
195 TAAATAAATTTCAAAAGTTAAATCACTAAATCTTAGAAACCAAAAAAAATATACACATAAAAACC
2130086 AAATAAGATTTGTTTATGTAGACG
260 AAATAAGATTTGTTTATGTAGACG
*
2130110 CTTAGATGGATAACTTATATTATTGAA-ATGTAAT-ATAATTTTAAATAATTTTATTCTATCAAT
1 CTTAGATGGATAACTTATATTATT-AACATGT-ATGATAATTTTAAATAATTTTATTATATCAAT
* * * *
2130173 TAT-TCAATTTTTAAAAATTTAAAATTTTACATTT-TTTCAAGTCTTTCAAAGTATATAAGTTTT
64 TATGT-AATTTTT-AAAATTTAAAACTTTACATTTATCT-AAATCTTTCAAAGTACATAAGTTTT
*
2130236 ATCTTAATTTAAACATG-AAAAACATATCACATACCTCACTTTTACCCATGTATATAAAATACAA
126 ATCTTAATTTAAACATGAAAAAACATATCACATACCTCACATTTACCCATGTATATAAAATACAA
** *
2130300 AATTTAAATAGTTTTTAAATA-TTAAATCACTAAATCTTAGAAACCATAAAAAAATATACA
191 AATTTAAATAAATTTCAAA-AGTTAAATCACTAAATCTTAGAAACCA-AAAAAAATATACA
2130360 TAGTCTTTAT
Statistics
Matches: 221, Mismatches: 22, Indels: 14
0.86 0.09 0.05
Matches are distributed among these distances:
283 82 0.37
284 79 0.36
285 60 0.27
ACGTcount: A:0.43, C:0.11, G:0.06, T:0.40
Consensus pattern (283 bp):
CTTAGATGGATAACTTATATTATTAACATGTATGATAATTTTAAATAATTTTATTATATCAATTA
TGTAATTTTTAAAATTTAAAACTTTACATTTATCTAAATCTTTCAAAGTACATAAGTTTTATCTT
AATTTAAACATGAAAAAACATATCACATACCTCACATTTACCCATGTATATAAAATACAAAATTT
AAATAAATTTCAAAAGTTAAATCACTAAATCTTAGAAACCAAAAAAAATATACACATAAAAACCA
AATAAGATTTGTTTATGTAGACG
Found at i:2135222 original size:18 final size:18
Alignment explanation
Indices: 2135199--2135236 Score: 76
Period size: 18 Copynumber: 2.1 Consensus size: 18
2135189 TTTTTTGCAC
2135199 ATGATCAACATAGCCCGT
1 ATGATCAACATAGCCCGT
2135217 ATGATCAACATAGCCCGT
1 ATGATCAACATAGCCCGT
2135235 AT
1 AT
2135237 ATGAATTTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.34, C:0.26, G:0.16, T:0.24
Consensus pattern (18 bp):
ATGATCAACATAGCCCGT
Found at i:2153025 original size:10 final size:10
Alignment explanation
Indices: 2153010--2153039 Score: 53
Period size: 10 Copynumber: 3.1 Consensus size: 10
2153000 ATTAATTTTT
2153010 TATATTTTAA
1 TATATTTTAA
2153020 TATATTTTAA
1 TATATTTTAA
2153030 T-TATTTTAA
1 TATATTTTAA
2153039 T
1 T
2153040 TGATAAAATA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
9 9 0.45
10 11 0.55
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (10 bp):
TATATTTTAA
Found at i:2153034 original size:9 final size:9
Alignment explanation
Indices: 2153001--2153040 Score: 50
Period size: 9 Copynumber: 4.7 Consensus size: 9
2152991 GCAAGTTTAA
2153001 TTAATT-TT
1 TTAATTATT
2153009 TT-A-TATT
1 TTAATTATT
2153016 TTAATATATT
1 TTAAT-TATT
2153026 TTAATTATT
1 TTAATTATT
2153035 TTAATT
1 TTAATT
2153041 GATAAAATAT
Statistics
Matches: 28, Mismatches: 0, Indels: 7
0.80 0.00 0.20
Matches are distributed among these distances:
6 1 0.04
7 5 0.18
8 3 0.11
9 10 0.36
10 9 0.32
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.68
Consensus pattern (9 bp):
TTAATTATT
Found at i:2162477 original size:3 final size:3
Alignment explanation
Indices: 2162462--2162508 Score: 67
Period size: 3 Copynumber: 15.7 Consensus size: 3
2162452 TGATTATGTC
* * *
2162462 GAT GAT GAG GAT GAT GAG GAT GAT GAT GAT GAT GAT GAT GAG GAT GA
1 GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GA
2162509 CGAGAATGAA
Statistics
Matches: 38, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
3 38 1.00
ACGTcount: A:0.34, C:0.00, G:0.40, T:0.26
Consensus pattern (3 bp):
GAT
Found at i:2167701 original size:36 final size:35
Alignment explanation
Indices: 2167661--2167754 Score: 134
Period size: 36 Copynumber: 2.6 Consensus size: 35
2167651 CCGCCGCACA
*
2167661 TCCACTACCTCATCCAGGTTACCCTGCTGCTGCATG
1 TCCACTACCTC-TCCAGGTTACCCTGCTGCTGCATC
* *
2167697 TCCACCACCTCCTCCTGGTTACCCTGCTGCTGCATC
1 TCCACTACCT-CTCCAGGTTACCCTGCTGCTGCATC
2167733 TCCACTACCTGCTCCAGGTTAC
1 TCCACTACCT-CTCCAGGTTAC
2167755 TTTCCTGCCG
Statistics
Matches: 51, Mismatches: 6, Indels: 2
0.86 0.10 0.03
Matches are distributed among these distances:
36 50 0.98
37 1 0.02
ACGTcount: A:0.15, C:0.43, G:0.15, T:0.28
Consensus pattern (35 bp):
TCCACTACCTCTCCAGGTTACCCTGCTGCTGCATC
Found at i:2168148 original size:160 final size:160
Alignment explanation
Indices: 2167973--2168288 Score: 587
Period size: 160 Copynumber: 2.0 Consensus size: 160
2167963 GTCATCGTTT
* *
2167973 GGCTAGTTTTCCCCTCAGTGATGTAATTATGGTTGTTGAAACATAGTATTTGAATTTTCTTTCAA
1 GGCTAGTTTTCCCCTCAGTGATGTAATTATGATTGTTGAAACATAGTAGTTGAATTTTCTTTCAA
*
2168038 TTTCTACCAGATTCAAATGTGATTAACATTAACAGTCATTTCTGGAACCATGGTATCGCCCTAAT
66 TTTCTACCAGAATCAAATGTGATTAACATTAACAGTCATTTCTGGAACCATGGTATCGCCCTAAT
2168103 CATCATCCAAAATCCCATGACTTTGCTTTA
131 CATCATCCAAAATCCCATGACTTTGCTTTA
2168133 GGCTAGTTTTCCCCTCAGTGATGTAATTATGATTGTTGAAACATAGTAGTTGAATTTTCTTTCAA
1 GGCTAGTTTTCCCCTCAGTGATGTAATTATGATTGTTGAAACATAGTAGTTGAATTTTCTTTCAA
2168198 TTTCTACCAGAATCAAATGTGATTAACATTAACAGTCATTTCTGGAACCATGGTATCGCCCTAAT
66 TTTCTACCAGAATCAAATGTGATTAACATTAACAGTCATTTCTGGAACCATGGTATCGCCCTAAT
* *
2168263 CATCATCCAAAATCCCCTGGCTTTGC
131 CATCATCCAAAATCCCATGACTTTGC
2168289 ATTCATGATA
Statistics
Matches: 151, Mismatches: 5, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
160 151 1.00
ACGTcount: A:0.28, C:0.21, G:0.15, T:0.36
Consensus pattern (160 bp):
GGCTAGTTTTCCCCTCAGTGATGTAATTATGATTGTTGAAACATAGTAGTTGAATTTTCTTTCAA
TTTCTACCAGAATCAAATGTGATTAACATTAACAGTCATTTCTGGAACCATGGTATCGCCCTAAT
CATCATCCAAAATCCCATGACTTTGCTTTA
Found at i:2178233 original size:23 final size:23
Alignment explanation
Indices: 2178202--2178248 Score: 76
Period size: 23 Copynumber: 2.0 Consensus size: 23
2178192 TAGAAAGGAT
*
2178202 TTTATTTATTTTATTTTACATGA
1 TTTACTTATTTTATTTTACATGA
*
2178225 TTTACTTATTTTATTTTATATGA
1 TTTACTTATTTTATTTTACATGA
2178248 T
1 T
2178249 ATTTAGCTGT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.26, C:0.04, G:0.04, T:0.66
Consensus pattern (23 bp):
TTTACTTATTTTATTTTACATGA
Found at i:2187134 original size:61 final size:62
Alignment explanation
Indices: 2187060--2187179 Score: 224
Period size: 61 Copynumber: 2.0 Consensus size: 62
2187050 GGTATGTATG
*
2187060 TATACAAGGAAAAGAATTCTTCTAAAAAGGTATTTTATTTATTAAAGGA-AAAAAAAAAGAA
1 TATACAAGGAAAAGAATTCTTCTAAAAAGGTATATTATTTATTAAAGGACAAAAAAAAAGAA
2187121 TATACAAGGAAAAGAATTCTTCTAAAAAGGTATATTATTTATTAAAGGACAAAAAAAAA
1 TATACAAGGAAAAGAATTCTTCTAAAAAGGTATATTATTTATTAAAGGACAAAAAAAAA
2187180 AAAGGCATGA
Statistics
Matches: 57, Mismatches: 1, Indels: 1
0.97 0.02 0.02
Matches are distributed among these distances:
61 48 0.84
62 9 0.16
ACGTcount: A:0.54, C:0.06, G:0.12, T:0.28
Consensus pattern (62 bp):
TATACAAGGAAAAGAATTCTTCTAAAAAGGTATATTATTTATTAAAGGACAAAAAAAAAGAA
Found at i:2195557 original size:24 final size:23
Alignment explanation
Indices: 2195506--2195561 Score: 62
Period size: 22 Copynumber: 2.4 Consensus size: 23
2195496 TACACTTTTT
* *
2195506 TATTTAAAAATTTAGTTAAATGA
1 TATTTAAAAATTAAATTAAATGA
2195529 T-TTTAAAAATTAAATATCAAAT-A
1 TATTTAAAAATTAAAT-T-AAATGA
2195552 TATTTAAAAA
1 TATTTAAAAA
2195562 AATAAAATAG
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
22 12 0.43
23 4 0.14
24 12 0.43
ACGTcount: A:0.54, C:0.02, G:0.04, T:0.41
Consensus pattern (23 bp):
TATTTAAAAATTAAATTAAATGA
Found at i:2197974 original size:52 final size:51
Alignment explanation
Indices: 2197834--2197990 Score: 181
Period size: 52 Copynumber: 3.0 Consensus size: 51
2197824 TGGACAAGAA
* * * *
2197834 GACTTGTAAAAGAAGAATTCTAAGATAAAAAGGATTCTTAATAGGTAAGTTT
1 GACTTATAAGAGAAAAATTCTAAGA-GAAAAGGATTCTTAATAGGTAAGTTT
* * *
2197886 GACTTATAAGAGAATAATTCTAAAAAGAAATA-GATTCTTAATAGTTAAGTTT
1 GACTTATAAGAGAAAAATTCT-AAGAGAAA-AGGATTCTTAATAGGTAAGTTT
* * *
2197938 GACTTATAAGAGAAAAATTCTAAGAGAAGAGGGATTCTTAATGGGTAAATTT
1 GACTTATAAGAGAAAAATTCTAAGAGAA-AAGGATTCTTAATAGGTAAGTTT
2197990 G
1 G
2197991 TATGGTTAAG
Statistics
Matches: 89, Mismatches: 12, Indels: 8
0.82 0.11 0.07
Matches are distributed among these distances:
51 6 0.07
52 79 0.89
53 4 0.04
ACGTcount: A:0.44, C:0.06, G:0.19, T:0.31
Consensus pattern (51 bp):
GACTTATAAGAGAAAAATTCTAAGAGAAAAGGATTCTTAATAGGTAAGTTT
Found at i:2198514 original size:25 final size:26
Alignment explanation
Indices: 2198486--2198562 Score: 72
Period size: 25 Copynumber: 3.1 Consensus size: 26
2198476 CTGAAGGAGC
*
2198486 TGAAGGTTCGAA-ATGTGAGAAGAGT
1 TGAAGGTTCGAAGATGTGAAAAGAGT
* *
2198511 TGAAGATT-TAAGATGTGAAAAGAGT
1 TGAAGGTTCGAAGATGTGAAAAGAGT
* **
2198536 CGAAGGTTC-AAGACATG-AAAGAGT
1 TGAAGGTTCGAAGATGTGAAAAGAGT
2198560 TGA
1 TGA
2198563 CAGTTCAAGA
Statistics
Matches: 42, Mismatches: 8, Indels: 5
0.76 0.15 0.09
Matches are distributed among these distances:
24 11 0.26
25 31 0.74
ACGTcount: A:0.40, C:0.05, G:0.31, T:0.23
Consensus pattern (26 bp):
TGAAGGTTCGAAGATGTGAAAAGAGT
Found at i:2198836 original size:11 final size:11
Alignment explanation
Indices: 2198820--2198850 Score: 62
Period size: 11 Copynumber: 2.8 Consensus size: 11
2198810 AATCCCATAA
2198820 GAGATTTGTTT
1 GAGATTTGTTT
2198831 GAGATTTGTTT
1 GAGATTTGTTT
2198842 GAGATTTGT
1 GAGATTTGT
2198851 CAGATATTGC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 20 1.00
ACGTcount: A:0.19, C:0.00, G:0.29, T:0.52
Consensus pattern (11 bp):
GAGATTTGTTT
Found at i:2198966 original size:52 final size:52
Alignment explanation
Indices: 2198893--2199033 Score: 162
Period size: 52 Copynumber: 2.7 Consensus size: 52
2198883 AAAAAAAAAA
* *
2198893 AATTCTAAAA-GAAAGAGGATTCTTAATAGGTAAGTTTGACTTGCA-AGAGAAG
1 AATTATAAAAGGAAAGA-GATTCTTAATAGGTAAGTTTGACTTACAGA-AGAAG
* * *
2198945 AATTTTAAAAGGAAAGAGATTCTTAATAGGCAAGTTTGACTTACAGAAGAAT
1 AATTATAAAAGGAAAGAGATTCTTAATAGGTAAGTTTGACTTACAGAAGAAG
* * *
2198997 AATTATAAGAGGAAAGGGATTTTTAAT-GAGTAAGTTT
1 AATTATAAAAGGAAAGAGATTCTTAATAG-GTAAGTTT
2199034 ATATGGTTAT
Statistics
Matches: 77, Mismatches: 9, Indels: 6
0.84 0.10 0.07
Matches are distributed among these distances:
51 1 0.01
52 69 0.90
53 7 0.09
ACGTcount: A:0.43, C:0.06, G:0.22, T:0.30
Consensus pattern (52 bp):
AATTATAAAAGGAAAGAGATTCTTAATAGGTAAGTTTGACTTACAGAAGAAG
Found at i:2209364 original size:4 final size:4
Alignment explanation
Indices: 2209355--2209383 Score: 51
Period size: 4 Copynumber: 7.5 Consensus size: 4
2209345 ATAATTCGCT
2209355 CAAA CAAA CAAA CAAA CAAA CAAA -AAA CA
1 CAAA CAAA CAAA CAAA CAAA CAAA CAAA CA
2209384 GAAACAAAAG
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
3 3 0.12
4 21 0.88
ACGTcount: A:0.76, C:0.24, G:0.00, T:0.00
Consensus pattern (4 bp):
CAAA
Found at i:2213465 original size:16 final size:16
Alignment explanation
Indices: 2213444--2213480 Score: 67
Period size: 16 Copynumber: 2.4 Consensus size: 16
2213434 CTACAAAATT
2213444 GAAAAATATATATTTC
1 GAAAAATATATATTTC
2213460 GAAAAATATATATTTC
1 GAAAAATATATATTTC
2213476 -AAAAA
1 GAAAAA
2213481 ACTATTTGTG
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
15 5 0.24
16 16 0.76
ACGTcount: A:0.57, C:0.05, G:0.05, T:0.32
Consensus pattern (16 bp):
GAAAAATATATATTTC
Found at i:2217407 original size:50 final size:50
Alignment explanation
Indices: 2217332--2217428 Score: 185
Period size: 50 Copynumber: 1.9 Consensus size: 50
2217322 CGAATTGAGG
2217332 TCAAAACCAACCAAATTAAAGACACATAATCCACAAAAGAACATTCAAAC
1 TCAAAACCAACCAAATTAAAGACACATAATCCACAAAAGAACATTCAAAC
*
2217382 TCAAAACCAACCAAATTAAAGACACATAATCCGCAAAAGAACATTCA
1 TCAAAACCAACCAAATTAAAGACACATAATCCACAAAAGAACATTCA
2217429 TTTCTAAAAA
Statistics
Matches: 46, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
50 46 1.00
ACGTcount: A:0.55, C:0.26, G:0.05, T:0.14
Consensus pattern (50 bp):
TCAAAACCAACCAAATTAAAGACACATAATCCACAAAAGAACATTCAAAC
Found at i:2217596 original size:18 final size:18
Alignment explanation
Indices: 2217573--2217607 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
2217563 CCATAGCCAC
2217573 CTTCAC-CAATCACATTCT
1 CTTCACACAATC-CATTCT
2217591 CTTCACACAATCCATTC
1 CTTCACACAATCCATTC
2217608 GTAGCTAATT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 11 0.69
19 5 0.31
ACGTcount: A:0.29, C:0.40, G:0.00, T:0.31
Consensus pattern (18 bp):
CTTCACACAATCCATTCT
Found at i:2232533 original size:19 final size:19
Alignment explanation
Indices: 2232511--2232582 Score: 56
Period size: 20 Copynumber: 3.6 Consensus size: 19
2232501 ACAAATAATT
2232511 TTTAAATTATAATAAAATA
1 TTTAAATTATAATAAAATA
* *
2232530 TTTAATATAATATTTAAAAT-
1 TTTAA-ATTATA-ATAAAATA
* *
2232550 TTAAAAATTTATAATATAATA
1 TT-TAAA-TTATAATAAAATA
*
2232571 CTTAAATTATAA
1 TTTAAATTATAA
2232583 ATTTATTAAT
Statistics
Matches: 40, Mismatches: 8, Indels: 10
0.69 0.14 0.17
Matches are distributed among these distances:
19 11 0.28
20 16 0.40
21 13 0.32
ACGTcount: A:0.54, C:0.01, G:0.00, T:0.44
Consensus pattern (19 bp):
TTTAAATTATAATAAAATA
Found at i:2232584 original size:27 final size:30
Alignment explanation
Indices: 2232531--2232616 Score: 103
Period size: 27 Copynumber: 3.1 Consensus size: 30
2232521 AATAAAATAT
*
2232531 TTAATATAATATTTAAAATTTAAAAATTTA
1 TTAATATAATACTTAAAATTTAAAAATTTA
*
2232561 -TAATATAATACTT-AAA-TTATAAATTTA
1 TTAATATAATACTTAAAATTTAAAAATTTA
*
2232588 TTAAT-TAATAC--AATATTTAAAAATTTA
1 TTAATATAATACTTAAAATTTAAAAATTTA
2232615 TT
1 TT
2232617 TATGTATCAT
Statistics
Matches: 49, Mismatches: 4, Indels: 9
0.79 0.06 0.15
Matches are distributed among these distances:
26 2 0.04
27 28 0.57
28 7 0.14
29 12 0.24
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (30 bp):
TTAATATAATACTTAAAATTTAAAAATTTA
Found at i:2232695 original size:32 final size:31
Alignment explanation
Indices: 2232659--2232727 Score: 93
Period size: 32 Copynumber: 2.2 Consensus size: 31
2232649 ATATTTGAGG
2232659 TAAATATCATATTAAATAATAAATTTATAATT
1 TAAATATCATATTAAATAATAAATTT-TAATT
* * **
2232691 TAAATATTATATTAAATATTTTATTTTAATT
1 TAAATATCATATTAAATAATAAATTTTAATT
2232722 TAAATA
1 TAAATA
2232728 CTATTTATAT
Statistics
Matches: 33, Mismatches: 4, Indels: 1
0.87 0.11 0.03
Matches are distributed among these distances:
31 11 0.33
32 22 0.67
ACGTcount: A:0.49, C:0.01, G:0.00, T:0.49
Consensus pattern (31 bp):
TAAATATCATATTAAATAATAAATTTTAATT
Found at i:2254355 original size:23 final size:24
Alignment explanation
Indices: 2254323--2254368 Score: 69
Period size: 23 Copynumber: 2.0 Consensus size: 24
2254313 TAATATTTTA
2254323 TTTTATATATTATTTT-AATATAAT
1 TTTTATATATT-TTTTAAATATAAT
2254347 TTTTA-ATATTTTTTAAATATAA
1 TTTTATATATTTTTTAAATATAA
2254369 AATAATTATT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
22 4 0.19
23 12 0.57
24 5 0.24
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (24 bp):
TTTTATATATTTTTTAAATATAAT
Found at i:2265870 original size:17 final size:18
Alignment explanation
Indices: 2265843--2265876 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
2265833 ATATTTTATT
*
2265843 TTTTAATTATTTTTTAAC
1 TTTTAATTATTTATTAAC
2265861 TTTTAA-TATTTATTAA
1 TTTTAATTATTTATTAA
2265877 AAAATATATA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 9 0.60
18 6 0.40
ACGTcount: A:0.32, C:0.03, G:0.00, T:0.65
Consensus pattern (18 bp):
TTTTAATTATTTATTAAC
Found at i:2266343 original size:29 final size:29
Alignment explanation
Indices: 2266278--2266343 Score: 71
Period size: 29 Copynumber: 2.3 Consensus size: 29
2266268 TTTTTATTTT
* *
2266278 ATTTTTAAGTGTATAAATTTATATTTAAA
1 ATTTTAAAATGTATAAATTTATATTTAAA
***
2266307 AAACTAAAATGTAT-AATTTATATTTTAAA
1 ATTTTAAAATGTATAAATTTATA-TTTAAA
2266336 ATTTTAAA
1 ATTTTAAA
2266344 TAATATTAGT
Statistics
Matches: 28, Mismatches: 8, Indels: 2
0.74 0.21 0.05
Matches are distributed among these distances:
28 8 0.29
29 20 0.71
ACGTcount: A:0.47, C:0.02, G:0.05, T:0.47
Consensus pattern (29 bp):
ATTTTAAAATGTATAAATTTATATTTAAA
Found at i:2266344 original size:28 final size:29
Alignment explanation
Indices: 2266280--2266344 Score: 78
Period size: 28 Copynumber: 2.3 Consensus size: 29
2266270 TTTATTTTAT
*
2266280 TTTTAAGTGTATAAATTTATATTTAAAAA
1 TTTTAAATGTATAAATTTATATTTAAAAA
** * *
2266309 ACTAAAATGTAT-AATTTATATTTTAAAA
1 TTTTAAATGTATAAATTTATATTTAAAAA
2266337 TTTTAAAT
1 TTTTAAAT
2266345 AATATTAGTT
Statistics
Matches: 28, Mismatches: 8, Indels: 1
0.76 0.22 0.03
Matches are distributed among these distances:
28 20 0.71
29 8 0.29
ACGTcount: A:0.46, C:0.02, G:0.05, T:0.48
Consensus pattern (29 bp):
TTTTAAATGTATAAATTTATATTTAAAAA
Found at i:2267589 original size:12 final size:11
Alignment explanation
Indices: 2267561--2267593 Score: 50
Period size: 10 Copynumber: 3.0 Consensus size: 11
2267551 GAACACCATT
2267561 TTTAAAATTTA
1 TTTAAAATTTA
2267572 -TTAAAATATTA
1 TTTAAAAT-TTA
2267583 TTTAAAATTTA
1 TTTAAAATTTA
2267594 CTCTTATAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
10 7 0.35
11 6 0.30
12 7 0.35
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (11 bp):
TTTAAAATTTA
Found at i:2268173 original size:20 final size:20
Alignment explanation
Indices: 2268144--2268185 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 20
2268134 ATAAATTTTA
* *
2268144 AAATTTTAAATGTATTATTT
1 AAATTATAAATGTATTAATT
*
2268164 AAATTATAAATTTATTAATT
1 AAATTATAAATGTATTAATT
2268184 AA
1 AA
2268186 TTTAATATTT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (20 bp):
AAATTATAAATGTATTAATT
Found at i:2269782 original size:28 final size:27
Alignment explanation
Indices: 2269750--2269836 Score: 86
Period size: 28 Copynumber: 3.0 Consensus size: 27
2269740 TGTTATGAAT
2269750 ATTTATTAAATTATAATAAAATATTTAA
1 ATTTA-TAAATTATAATAAAATATTTAA
* * *
2269778 ATTTATAATTTTTTAATATAATATTTAA
1 ATTTATAA-ATTATAATAAAATATTTAA
2269806 A-TTATAAATTTATTAATAATATATATTTAA
1 ATTTATAAA-TTA-TAATAA-A-ATATTTAA
2269836 A
1 A
2269837 AATTATATAT
Statistics
Matches: 48, Mismatches: 6, Indels: 8
0.77 0.10 0.13
Matches are distributed among these distances:
27 11 0.23
28 27 0.56
29 1 0.02
30 9 0.19
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (27 bp):
ATTTATAAATTATAATAAAATATTTAA
Found at i:2269920 original size:21 final size:21
Alignment explanation
Indices: 2269896--2269939 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 21
2269886 TGATAACATA
2269896 TTAATTAATAAAATTAAAATT
1 TTAATTAATAAAATTAAAATT
* * *
2269917 TTAATTTATTATATTAAAATT
1 TTAATTAATAAAATTAAAATT
2269938 TT
1 TT
2269940 TATGTTTAAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (21 bp):
TTAATTAATAAAATTAAAATT
Found at i:2272036 original size:33 final size:33
Alignment explanation
Indices: 2271989--2272139 Score: 155
Period size: 33 Copynumber: 4.7 Consensus size: 33
2271979 CCAGAGAAGA
* *
2271989 AGGAGGAGCCAAAGAAGGAAGAACCCAAGAAAG
1 AGGAGGAGCAAAAGAAAGAAGAACCCAAGAAAG
* * *
2272022 AGGAGGAACAAAAGAAAGAAGAGCCCAAGAAGG
1 AGGAGGAGCAAAAGAAAGAAGAACCCAAGAAAG
* * * * * *
2272055 AAGAAGAGCAGAAGAAAGAAGAGCCTAAGAAGG
1 AGGAGGAGCAAAAGAAAGAAGAACCCAAGAAAG
* *
2272088 AAGAGGAGCAGAAGAAAGAAGAACCCAAGAAAG
1 AGGAGGAGCAAAAGAAAGAAGAACCCAAGAAAG
*
2272121 AGGA--AG-AGAAGAAAGAAGA
1 AGGAGGAGCAAAAGAAAGAAGA
2272140 GGAGAAAAAG
Statistics
Matches: 103, Mismatches: 15, Indels: 3
0.85 0.12 0.02
Matches are distributed among these distances:
30 13 0.13
31 2 0.02
33 88 0.85
ACGTcount: A:0.56, C:0.11, G:0.33, T:0.01
Consensus pattern (33 bp):
AGGAGGAGCAAAAGAAAGAAGAACCCAAGAAAG
Found at i:2272057 original size:15 final size:15
Alignment explanation
Indices: 2271985--2272092 Score: 63
Period size: 15 Copynumber: 6.8 Consensus size: 15
2271975 GGAGCCAGAG
*
2271985 AAGAAGGAGGAGCCA
1 AAGAAGGAAGAGCCA
*
2272000 AAGAAGGAAGAACCCA
1 AAGAAGGAAG-AGCCA
* * * *
2272016 AGAAAGAGGAGGAACAA
1 A-AGA-AGGAAGAGCCA
* *
2272033 AAGAAAGAAGAGCCC
1 AAGAAGGAAGAGCCA
*
2272048 AAGAAGGAAGAAGAGCA
1 AAGAAGGAAG-AG-CCA
* *
2272065 GAAGAAAGAAGAGCCT
1 -AAGAAGGAAGAGCCA
2272081 AAGAAGGAAGAG
1 AAGAAGGAAGAG
2272093 GAGCAGAAGA
Statistics
Matches: 68, Mismatches: 19, Indels: 12
0.69 0.19 0.12
Matches are distributed among these distances:
15 35 0.51
16 10 0.15
17 9 0.13
18 14 0.21
ACGTcount: A:0.55, C:0.11, G:0.33, T:0.01
Consensus pattern (15 bp):
AAGAAGGAAGAGCCA
Found at i:2272058 original size:18 final size:18
Alignment explanation
Indices: 2272037--2272128 Score: 79
Period size: 18 Copynumber: 5.4 Consensus size: 18
2272027 GAACAAAAGA
2272037 AAGAAGAGCCCAAGAAGG
1 AAGAAGAGCCCAAGAAGG
*
2272055 AAGAAGAG--C-AGAAGA
1 AAGAAGAGCCCAAGAAGG
*
2272070 AAGAAGAGCCTAAGAAGG
1 AAGAAGAGCCCAAGAAGG
* *
2272088 AAGAGGAG--C-AGAAGA
1 AAGAAGAGCCCAAGAAGG
* *
2272103 AAGAAGAACCCAAGAAAG
1 AAGAAGAGCCCAAGAAGG
*
2272121 AGGAAGAG
1 AAGAAGAG
2272129 AAGAAAGAAG
Statistics
Matches: 56, Mismatches: 12, Indels: 12
0.70 0.15 0.15
Matches are distributed among these distances:
15 24 0.43
16 1 0.02
17 1 0.02
18 30 0.54
ACGTcount: A:0.54, C:0.11, G:0.34, T:0.01
Consensus pattern (18 bp):
AAGAAGAGCCCAAGAAGG
Found at i:2272100 original size:15 final size:15
Alignment explanation
Indices: 2272033--2272149 Score: 85
Period size: 15 Copynumber: 7.5 Consensus size: 15
2272023 GGAGGAACAA
2272033 AAGAAAGAAGAGCCCAAG
1 AAGAAAGAAGAG--C-AG
*
2272051 AAGGAAGAAGAGCAG
1 AAGAAAGAAGAGCAG
2272066 AAGAAAGAAGAGCCTAAG
1 AAGAAAGAAGAG-C--AG
* *
2272084 AAGGAAGAGGAGCAG
1 AAGAAAGAAGAGCAG
* **
2272099 AAGAAAGAAGAACCC
1 AAGAAAGAAGAGCAG
*
2272114 AAGAAAGAGGAAG-AG
1 AAGAAAGAAG-AGCAG
*
2272129 AAGAAAGAAGAGGAG
1 AAGAAAGAAGAGCAG
2272144 AA-AAAG
1 AAGAAAG
2272150 CCACAGCCAC
Statistics
Matches: 80, Mismatches: 14, Indels: 14
0.74 0.13 0.13
Matches are distributed among these distances:
14 6 0.08
15 47 0.59
16 3 0.04
17 1 0.01
18 23 0.29
ACGTcount: A:0.57, C:0.09, G:0.33, T:0.01
Consensus pattern (15 bp):
AAGAAAGAAGAGCAG
Found at i:2273852 original size:4 final size:4
Alignment explanation
Indices: 2273843--2273881 Score: 51
Period size: 4 Copynumber: 9.5 Consensus size: 4
2273833 AATACTTTAA
* *
2273843 AAAT AAAT AAAAT AACT AACT AAAT AAAT AAAT AAAT AA
1 AAAT AAAT -AAAT AAAT AAAT AAAT AAAT AAAT AAAT AA
2273882 CAAGTACCAA
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
4 28 0.88
5 4 0.12
ACGTcount: A:0.72, C:0.05, G:0.00, T:0.23
Consensus pattern (4 bp):
AAAT
Found at i:2274992 original size:87 final size:85
Alignment explanation
Indices: 2274898--2275180 Score: 263
Period size: 87 Copynumber: 3.3 Consensus size: 85
2274888 AGGCTCCACA
* * **
2274898 ACTTTTAAGAAATAAATAAAGCTTTTTTGAGCAGAGACTCAATGACTTTTAAAAAGTAAATAAAA
1 ACTTTTAA-AAATAAATAAAGCTTTTTTAAACAGAG-CTCAATGACTTTTAAAAAGTAAATAAGG
* *
2274963 CTCTTTTAAACAGAAGCTCAAT
64 CTCATCTAAACAGAAGCTCAAT
* * * * *
2274985 AATTTTAAAAAATAAAT--AG-TCTTTTTAAATAAAAGCTCAATGACTTTAAAAAAGTAAATAGG
1 ACTTTT-AAAAATAAATAAAGCT-TTTTTAAA-CAGAGCTCAATGACTTTTAAAAAGTAAATAAG
* *
2275047 GTTCCTCTAAACA-AAGGCTCAAT
63 GCTCATCTAAACAGAA-GCTCAAT
* * *
2275070 GACTTTTAAAAAGTAAATAAAGCTTCTCTAAACAGAGGCTC-ATGACTTTTGAAAAGTAAATAAG
1 -ACTTTTAAAAA-TAAATAAAGCTTTTTTAAACAGA-GCTCAATGACTTTTAAAAAGTAAATAAG
*
2275134 GCTCATCTAAACAGAGGCTCACA-
63 GCTCATCTAAACAGAAGCTCA-AT
*
2275157 ACTTTTGCAAAATAAATAAAGCTT
1 ACTTTT-AAAAATAAATAAAGCTT
2275181 CTCGACAATT
Statistics
Matches: 159, Mismatches: 24, Indels: 27
0.76 0.11 0.13
Matches are distributed among these distances:
84 3 0.02
85 53 0.33
86 31 0.19
87 55 0.35
88 16 0.10
89 1 0.01
ACGTcount: A:0.45, C:0.14, G:0.12, T:0.29
Consensus pattern (85 bp):
ACTTTTAAAAATAAATAAAGCTTTTTTAAACAGAGCTCAATGACTTTTAAAAAGTAAATAAGGCT
CATCTAAACAGAAGCTCAAT
Found at i:2275118 original size:43 final size:44
Alignment explanation
Indices: 2274898--2275183 Score: 236
Period size: 44 Copynumber: 6.6 Consensus size: 44
2274888 AGGCTCCACA
* * * * *
2274898 ACTTTTAAGAAA-TAAATAAAGCTTTTTTGAGCAGAGACTCAATG
1 ACTTTTAA-AAAGTAAATAAAGCTTCTCTAAACAGAGGCTCAATG
* * *
2274942 ACTTTTAAAAAGTAAATAAAAC-TCTTTTAAACAGAAGCTCAAT-
1 ACTTTTAAAAAGTAAATAAAGCTTC-TCTAAACAGAGGCTCAATG
* * * * * *
2274985 AATTTTAAAAAATAAAT--AGTCTT-TTTAAATAAAAGCTCAATG
1 ACTTTTAAAAAGTAAATAAAG-CTTCTCTAAACAGAGGCTCAATG
* * * *
2275027 ACTTTAAAAAAGTAAAT-AGGGTTCCTCTAAACAAAGGCTCAATG
1 ACTTTTAAAAAGTAAATAAAGCTT-CTCTAAACAGAGGCTCAATG
2275071 ACTTTTAAAAAGTAAATAAAGCTTCTCTAAACAGAGGCTC-ATG
1 ACTTTTAAAAAGTAAATAAAGCTTCTCTAAACAGAGGCTCAATG
* *
2275114 ACTTTTGAAAAGTAAATAAGGC-TCATCTAAACAGAGGCTCACA--
1 ACTTTTAAAAAGTAAATAAAGCTTC-TCTAAACAGAGGCTCA-ATG
*
2275157 ACTTTTGCAAAA-TAAATAAAGCTTCTC
1 ACTTTT-AAAAAGTAAATAAAGCTTCTC
2275184 GACAATTATG
Statistics
Matches: 201, Mismatches: 27, Indels: 29
0.78 0.11 0.11
Matches are distributed among these distances:
41 17 0.08
42 19 0.09
43 76 0.38
44 84 0.42
45 5 0.02
ACGTcount: A:0.44, C:0.14, G:0.12, T:0.29
Consensus pattern (44 bp):
ACTTTTAAAAAGTAAATAAAGCTTCTCTAAACAGAGGCTCAATG
Found at i:2275510 original size:33 final size:32
Alignment explanation
Indices: 2275464--2275532 Score: 86
Period size: 33 Copynumber: 2.1 Consensus size: 32
2275454 TCCTAAATTC
* *
2275464 ATGCACTAGACATTCT-TAAATGCAATGCATGGT
1 ATGCACTAAACATT-TAAAAATGCAATG-ATGGT
*
2275497 ATGCACTAAACATTTAAAAATGCAATGATGTT
1 ATGCACTAAACATTTAAAAATGCAATGATGGT
2275529 ATGC
1 ATGC
2275533 CAATGTCAAG
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
32 9 0.28
33 23 0.72
ACGTcount: A:0.38, C:0.16, G:0.16, T:0.30
Consensus pattern (32 bp):
ATGCACTAAACATTTAAAAATGCAATGATGGT
Found at i:2276552 original size:15 final size:14
Alignment explanation
Indices: 2276534--2276605 Score: 56
Period size: 15 Copynumber: 4.6 Consensus size: 14
2276524 CTACTTTTAT
2276534 ATTTTATATTTTTTC
1 ATTTT-TATTTTTTC
2276549 ATTTTT-TTCATTTTC
1 ATTTTTATT--TTTTC
*
2276564 ATTATTTTATTTTTATT
1 A-T-TTTTATTTTT-TC
2276581 ATTTTTATTTTTTTC
1 ATTTTTA-TTTTTTC
2276596 ATTTATTATT
1 ATTT-TTATT
2276606 GATATCTTTT
Statistics
Matches: 47, Mismatches: 2, Indels: 16
0.72 0.03 0.25
Matches are distributed among these distances:
13 2 0.04
14 1 0.02
15 23 0.49
16 13 0.28
17 6 0.13
18 2 0.04
ACGTcount: A:0.19, C:0.06, G:0.00, T:0.75
Consensus pattern (14 bp):
ATTTTTATTTTTTC
Found at i:2276616 original size:38 final size:39
Alignment explanation
Indices: 2276530--2276616 Score: 103
Period size: 38 Copynumber: 2.3 Consensus size: 39
2276520 TTCTCTACTT
2276530 TTATA-TTTTATATTTTTTCATTTTTTTCATTTTCATTA
1 TTATATTTTTATATTTTTTCATTTTTTTCATTTTCATTA
*
2276568 TTTTATTTTTAT-TATTTTT-ATTTTTTTCA-TTT-ATTA
1 TTATATTTTTATAT-TTTTTCATTTTTTTCATTTTCATTA
2276604 TTGATATCTTTTA
1 TT-ATAT-TTTTA
2276617 CACATCAGTC
Statistics
Matches: 43, Mismatches: 2, Indels: 8
0.81 0.04 0.15
Matches are distributed among these distances:
36 6 0.14
37 6 0.14
38 20 0.47
39 11 0.26
ACGTcount: A:0.21, C:0.06, G:0.01, T:0.72
Consensus pattern (39 bp):
TTATATTTTTATATTTTTTCATTTTTTTCATTTTCATTA
Found at i:2282563 original size:6 final size:6
Alignment explanation
Indices: 2282552--2282583 Score: 50
Period size: 6 Copynumber: 5.7 Consensus size: 6
2282542 TTCCTTGAAA
2282552 TTTATT TTTATT TTTA-T TTTA-T TTTATT TTTA
1 TTTATT TTTATT TTTATT TTTATT TTTATT TTTA
2282584 AATGTTTCAC
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
5 10 0.40
6 15 0.60
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (6 bp):
TTTATT
Found at i:2282576 original size:16 final size:17
Alignment explanation
Indices: 2282552--2282583 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
2282542 TTCCTTGAAA
2282552 TTTATTTTTATTTTTAT
1 TTTATTTTTATTTTTAT
2282569 TTTA-TTTTATTTTTA
1 TTTATTTTTATTTTTA
2282584 AATGTTTCAC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 11 0.73
17 4 0.27
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (17 bp):
TTTATTTTTATTTTTAT
Found at i:2282630 original size:13 final size:13
Alignment explanation
Indices: 2282612--2282645 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
2282602 TCTATTTAAA
2282612 AAATTTTTTTTAT
1 AAATTTTTTTTAT
* *
2282625 AAATTTTATTTCT
1 AAATTTTTTTTAT
2282638 AAATTTTT
1 AAATTTTT
2282646 CATTATTTGG
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.32, C:0.03, G:0.00, T:0.65
Consensus pattern (13 bp):
AAATTTTTTTTAT
Found at i:2283046 original size:174 final size:177
Alignment explanation
Indices: 2282735--2283124 Score: 456
Period size: 174 Copynumber: 2.2 Consensus size: 177
2282725 TTTTTTTAAG
* * *
2282735 TTTCATTTAAATTCTTCCACCATTTGGGATAAATTTAAAGAAATTTCTTATCTAGAGATTTCTTA
1 TTTCATTTAAATTATTTCACCATTTGGGATAAATTTAAAGAAATTTCTTATCTAGACATTTCTTA
* * * * *
2282800 GAAAATTTATCATTTGAAATTTCTAAGACTCTCATCCTTAAATAATTGTCAAATATTTTCAATCA
66 GAAAATTTACCATTTGAAATTTCTAAGAATCTCATCATTAAATAATTATCAAATAATTTCAA-CA
2282865 AAAATTTTTTTA-TTTAGAAAAGAA-TA-CAATTATGT-TTATT-AAAA
130 AAAATTTTTTTATTTTAGAAAAGAATTATCAATTAT-TATTATTGAAAA
* * *
2282909 TTTCATTTAAATTATTTCACTATTTGGGATAATTTTAGAGAAATTTCTTA-CTGAGACATTTCTT
1 TTTCATTTAAATTATTTCACCATTTGGGATAAATTTAAAGAAATTTCTTATCT-AGACATTTCTT
* ** **
2282973 AGAAAATTTACCATTTGAAATTTCTAAGAATCTCTTCATTGGATAATTAAT-ATTTAATTTCAA-
65 AGAAAATTTACCATTTGAAATTTCTAAGAATCTCATCATTAAATAATT-ATCAAATAATTTCAAC
*** * *
2283036 AATTAAATTTTTTTATTTTTTTAAATAATTATTAATTATTATTATTGAAAA
129 AA--AAATTTTTTTATTTTAGAAAAGAATTATCAATTATTATTATTGAAAA
* *
2283087 TTTC-TCTAAATTATTTCACCATTTGGGACAAATTTAAA
1 TTTCATTTAAATTATTTCACCATTTGGGATAAATTTAAA
2283125 AAAAAAATTT
Statistics
Matches: 181, Mismatches: 26, Indels: 15
0.82 0.12 0.07
Matches are distributed among these distances:
172 2 0.01
173 2 0.01
174 117 0.65
175 9 0.05
176 3 0.02
177 40 0.22
178 8 0.04
ACGTcount: A:0.37, C:0.10, G:0.07, T:0.45
Consensus pattern (177 bp):
TTTCATTTAAATTATTTCACCATTTGGGATAAATTTAAAGAAATTTCTTATCTAGACATTTCTTA
GAAAATTTACCATTTGAAATTTCTAAGAATCTCATCATTAAATAATTATCAAATAATTTCAACAA
AAATTTTTTTATTTTAGAAAAGAATTATCAATTATTATTATTGAAAA
Found at i:2283306 original size:9 final size:10
Alignment explanation
Indices: 2283279--2283319 Score: 52
Period size: 9 Copynumber: 4.4 Consensus size: 10
2283269 AAATACTTTA
*
2283279 AAAAT-AAAG
1 AAAATAAAAT
2283288 AAAATAAAAT
1 AAAATAAAAT
2283298 AAAAT-AAAT
1 AAAATAAAAT
2283307 -AAATAAAAT
1 AAAATAAAAT
2283316 AAAA
1 AAAA
2283320 AACACCAAAT
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
8 4 0.14
9 13 0.46
10 11 0.39
ACGTcount: A:0.80, C:0.00, G:0.02, T:0.17
Consensus pattern (10 bp):
AAAATAAAAT
Found at i:2283308 original size:4 final size:5
Alignment explanation
Indices: 2283279--2283319 Score: 52
Period size: 5 Copynumber: 8.8 Consensus size: 5
2283269 AAATACTTTA
*
2283279 AAAAT -AAAG AAAAT AAAAT AAAAT -AAAT -AAAT AAAAT AAAA
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAAA
2283320 AACACCAAAT
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
4 11 0.34
5 21 0.66
ACGTcount: A:0.80, C:0.00, G:0.02, T:0.17
Consensus pattern (5 bp):
AAAAT
Found at i:2283589 original size:20 final size:19
Alignment explanation
Indices: 2283564--2283605 Score: 66
Period size: 20 Copynumber: 2.2 Consensus size: 19
2283554 TTATATTTTT
2283564 TCTCCTCTTCTCTCTCTCTC
1 TCTCCTCTTCTCT-TCTCTC
*
2283584 TCTCCTCTTCTCTTTTCTC
1 TCTCCTCTTCTCTTCTCTC
2283603 TCT
1 TCT
2283606 AAAAATTGAT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
19 8 0.38
20 13 0.62
ACGTcount: A:0.00, C:0.45, G:0.00, T:0.55
Consensus pattern (19 bp):
TCTCCTCTTCTCTTCTCTC
Found at i:2283945 original size:23 final size:24
Alignment explanation
Indices: 2283899--2283946 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
2283889 TCCTTTGCAT
*
2283899 TTTTTTCTTTGATCTATCTTTGTG
1 TTTTTTCTTTGATCTATCTGTGTG
* *
2283923 TTTTTTCTTTGCT-TTTCTGTGTG
1 TTTTTTCTTTGATCTATCTGTGTG
2283946 T
1 T
2283947 CCCTTTGTTG
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
23 9 0.43
24 12 0.57
ACGTcount: A:0.04, C:0.12, G:0.15, T:0.69
Consensus pattern (24 bp):
TTTTTTCTTTGATCTATCTGTGTG
Found at i:2284813 original size:120 final size:119
Alignment explanation
Indices: 2284556--2284843 Score: 447
Period size: 120 Copynumber: 2.4 Consensus size: 119
2284546 TTTTTTAGGG
*
2284556 AAAATTGATACTTTCAACTTTTCCCCAAAAATA--TTTTTTGAAAATTTCGATTTTCAAGGAAAA
1 AAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTTG-AAATTTTGATTTTCAAGGAAAA
* *
2284619 TTGATACTTTCAACTTTTCCTCAAAAACCCTTTTTTTGAAAATTTATTTCTAAGG
65 TTGATACTTTCAACTTTTCCCCAAAAACCCTTTTTTTGAAAATTTATTTCTAAGA
2284674 AAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTTGAAATTTTGATTTTCAAGGAAAAT
1 AAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTTGAAATTTTGATTTTCAAGGAAAAT
*** *
2284739 TGATACTTTCAACTTTTCCCCAAAAATATTTTTTTTTTG-AAATTTATTTCTGAGA
66 TGATACTTTCAACTTTTCCCC-AAAA-ACCCTTTTTTTGAAAATTTATTTCTAAGA
*
2284794 AAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTTTGGAATTTT
1 AAAATTGATACTTTCAACTTTTCCCCAAAAATA-TTTTTTTTGAAATTTT
2284844 TTATTTTTAT
Statistics
Matches: 157, Mismatches: 8, Indels: 7
0.91 0.05 0.04
Matches are distributed among these distances:
118 33 0.21
119 42 0.27
120 58 0.37
121 24 0.15
ACGTcount: A:0.34, C:0.15, G:0.07, T:0.44
Consensus pattern (119 bp):
AAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTTGAAATTTTGATTTTCAAGGAAAAT
TGATACTTTCAACTTTTCCCCAAAAACCCTTTTTTTGAAAATTTATTTCTAAGA
Found at i:2284842 original size:59 final size:59
Alignment explanation
Indices: 2284554--2284834 Score: 394
Period size: 59 Copynumber: 4.7 Consensus size: 59
2284544 TTTTTTTTAG
2284554 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATA--TTTTTTGAAAATTTCGATTTTCAA
1 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTTG-AAATTT-GATTTTCAA
* ***
2284613 GGAAAATTGATACTTTCAACTTTTCCTCAAAAACCCTTTTTTTGAAAATTT-A-TTTCTAA
1 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTTG-AAATTTGATTTTC-AA
2284672 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTTGAAATTTTGATTTTCAA
1 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTTGAAA-TTTGATTTTCAA
*
2284732 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTTTTGAAATTT-A-TTTCTGA
1 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATA--TTTTTTTTGAAATTTGATTTTC-AA
*
2284792 GAAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTT
1 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTT
2284835 TGGAATTTTT
Statistics
Matches: 204, Mismatches: 9, Indels: 19
0.88 0.04 0.08
Matches are distributed among these distances:
58 15 0.07
59 82 0.40
60 74 0.36
61 21 0.10
62 12 0.06
ACGTcount: A:0.34, C:0.15, G:0.07, T:0.44
Consensus pattern (59 bp):
GGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTTGAAATTTGATTTTCAA
Found at i:2285427 original size:31 final size:31
Alignment explanation
Indices: 2285389--2285459 Score: 88
Period size: 31 Copynumber: 2.3 Consensus size: 31
2285379 ACTGGGTAGG
* ** * *
2285389 TCGCCGGAAACTTCAAGGTTGGTCGGAATTT
1 TCGCCGGAAAATTCAAACTTCGTCGGAAATT
*
2285420 TCGCCGGAAAATTCAAACTTCGTTGGAAATT
1 TCGCCGGAAAATTCAAACTTCGTCGGAAATT
2285451 TCGCCGGAA
1 TCGCCGGAA
2285460 TCTGGAAATG
Statistics
Matches: 34, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
31 34 1.00
ACGTcount: A:0.27, C:0.21, G:0.25, T:0.27
Consensus pattern (31 bp):
TCGCCGGAAAATTCAAACTTCGTCGGAAATT
Found at i:2285954 original size:18 final size:19
Alignment explanation
Indices: 2285915--2285960 Score: 58
Period size: 18 Copynumber: 2.4 Consensus size: 19
2285905 ATACATATAT
*
2285915 AAAATAATAATAAAATAATA
1 AAAATAA-ATTAAAATAATA
*
2285935 AAATTAAATTAAAA-AATA
1 AAAATAAATTAAAATAATA
2285953 AAAATAAA
1 AAAATAAA
2285961 ATGAAAAGAA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
18 11 0.48
19 6 0.26
20 6 0.26
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (19 bp):
AAAATAAATTAAAATAATA
Found at i:2285956 original size:19 final size:19
Alignment explanation
Indices: 2285913--2285967 Score: 60
Period size: 19 Copynumber: 2.9 Consensus size: 19
2285903 ATATACATAT
2285913 ATAAAATAATAA-TAAAATA
1 ATAAAATAA-AATTAAAATA
*
2285932 ATAAAATTAAATTAAAA-A
1 ATAAAATAAAATTAAAATA
*
2285950 ATAAAAATAAAATGAAAA
1 AT-AAAATAAAATTAAAA
2285968 GAAAAGAAAG
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
18 5 0.16
19 26 0.84
ACGTcount: A:0.75, C:0.00, G:0.02, T:0.24
Consensus pattern (19 bp):
ATAAAATAAAATTAAAATA
Found at i:2287786 original size:14 final size:14
Alignment explanation
Indices: 2287767--2287794 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
2287757 TTTGTTTTAT
2287767 GAAAAATCATTTTC
1 GAAAAATCATTTTC
2287781 GAAAAATCATTTTC
1 GAAAAATCATTTTC
2287795 ACATTTTTAA
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:0.43, C:0.14, G:0.07, T:0.36
Consensus pattern (14 bp):
GAAAAATCATTTTC
Done.