Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold71
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: 5741892
ACGTcount: A:0.34, C:0.15, G:0.16, T:0.33
Warning! 121862 characters in sequence are not A, C, G, or T
File 12 of 33
Found at i:1802359 original size:16 final size:16
Alignment explanation
Indices: 1802340--1802370 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
1802330 TTATTTGAAC
1802340 TTAAAATGATTCAAAT
1 TTAAAATGATTCAAAT
1802356 TTAAAATGATTCAAA
1 TTAAAATGATTCAAA
1802371 CTCGAAATAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.52, C:0.06, G:0.06, T:0.35
Consensus pattern (16 bp):
TTAAAATGATTCAAAT
Found at i:1803706 original size:2 final size:2
Alignment explanation
Indices: 1803699--1803774 Score: 89
Period size: 2 Copynumber: 38.0 Consensus size: 2
1803689 CAAAATGTTA
* * *
1803699 AT AT AT AT AT AT AT AT AT AT GT GT AT AT AT AT AT AT AT GT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
* * * *
1803741 GT AT AT AT AT AT AT AT AT GT AT GT AT AT GT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1803775 CGAAACCACT
Statistics
Matches: 62, Mismatches: 12, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
2 62 1.00
ACGTcount: A:0.41, C:0.00, G:0.09, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1803725 original size:22 final size:22
Alignment explanation
Indices: 1803703--1803774 Score: 117
Period size: 22 Copynumber: 3.3 Consensus size: 22
1803693 ATGTTAATAT
* *
1803703 ATATATATATATATATGTGTAT
1 ATATATATATATGTATGTATAT
1803725 ATATATATATATGTATGTATAT
1 ATATATATATATGTATGTATAT
1803747 ATATATATATATGTATGTATAT
1 ATATATATATATGTATGTATAT
*
1803769 GTATAT
1 ATATAT
1803775 CGAAACCACT
Statistics
Matches: 47, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
22 47 1.00
ACGTcount: A:0.40, C:0.00, G:0.10, T:0.50
Consensus pattern (22 bp):
ATATATATATATGTATGTATAT
Found at i:1809024 original size:22 final size:22
Alignment explanation
Indices: 1808981--1809022 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
1808971 ATTCTCATCT
1808981 TATTTTAATTTATTTTATTTTA
1 TATTTTAATTTATTTTATTTTA
*
1809003 TATTTTTATTTA-TTTATTTT
1 TATTTTAATTTATTTTATTTT
1809023 TAAATAATAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 8 0.42
22 11 0.58
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (22 bp):
TATTTTAATTTATTTTATTTTA
Found at i:1809463 original size:12 final size:12
Alignment explanation
Indices: 1809446--1809470 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
1809436 TTATATACTT
1809446 AAATTATTATAA
1 AAATTATTATAA
1809458 AAATTATTATAA
1 AAATTATTATAA
1809470 A
1 A
1809471 TTTGTATAAA
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:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (12 bp):
AAATTATTATAA
Found at i:1809517 original size:26 final size:26
Alignment explanation
Indices: 1809481--1809534 Score: 74
Period size: 26 Copynumber: 2.1 Consensus size: 26
1809471 TTTGTATAAA
*
1809481 ATTTTATATGTTAATA-ATTTTTTTT
1 ATTTTATATGTTAATATATTTTTATT
*
1809506 ATTTATATATGTTTATATATTTTTATT
1 ATTT-TATATGTTAATATATTTTTATT
1809533 AT
1 AT
1809535 ATTCATGTTA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 4 0.16
26 11 0.44
27 10 0.40
ACGTcount: A:0.30, C:0.00, G:0.04, T:0.67
Consensus pattern (26 bp):
ATTTTATATGTTAATATATTTTTATT
Found at i:1810449 original size:19 final size:18
Alignment explanation
Indices: 1810425--1810463 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 18
1810415 TTAATAAATT
*
1810425 AAATAATATTACTTTATTA
1 AAATAAAATTA-TTTATTA
*
1810444 AAATAAAATTATTTTTTA
1 AAATAAAATTATTTATTA
1810462 AA
1 AA
1810464 TATTATTTGA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 8 0.44
19 10 0.56
ACGTcount: A:0.51, C:0.03, G:0.00, T:0.46
Consensus pattern (18 bp):
AAATAAAATTATTTATTA
Found at i:1810529 original size:13 final size:13
Alignment explanation
Indices: 1810511--1810564 Score: 56
Period size: 13 Copynumber: 4.1 Consensus size: 13
1810501 TTATTAGTTT
1810511 ATCTAATATATAA
1 ATCTAATATATAA
1810524 ATCTAATATATAA
1 ATCTAATATATAA
*
1810537 TACTTTAA-ATATAA
1 -A-TCTAATATATAA
* *
1810551 TTATAATATATAA
1 ATCTAATATATAA
1810564 A
1 A
1810565 AATAAAAAAT
Statistics
Matches: 34, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
12 4 0.12
13 19 0.56
14 7 0.21
15 4 0.12
ACGTcount: A:0.54, C:0.06, G:0.00, T:0.41
Consensus pattern (13 bp):
ATCTAATATATAA
Found at i:1810557 original size:6 final size:7
Alignment explanation
Indices: 1810514--1810563 Score: 52
Period size: 7 Copynumber: 7.4 Consensus size: 7
1810504 TTAGTTTATC
1810514 TAATATA
1 TAATATA
*
1810521 TAA-ATC
1 TAATATA
1810527 TAATATA
1 TAATATA
*
1810534 TAATACTT
1 TAATA-TA
1810542 TAA-ATA
1 TAATATA
1810548 TAAT-TA
1 TAATATA
1810554 TAATATA
1 TAATATA
1810561 TAA
1 TAA
1810564 AAATAAAAAA
Statistics
Matches: 35, Mismatches: 4, Indels: 8
0.74 0.09 0.17
Matches are distributed among these distances:
6 15 0.43
7 16 0.46
8 4 0.11
ACGTcount: A:0.54, C:0.04, G:0.00, T:0.42
Consensus pattern (7 bp):
TAATATA
Found at i:1811281 original size:16 final size:17
Alignment explanation
Indices: 1811239--1811281 Score: 52
Period size: 16 Copynumber: 2.6 Consensus size: 17
1811229 AGTCAACTTG
1811239 AATATAAAATTATAAAT
1 AATATAAAATTATAAAT
* * *
1811256 ATTTTAAAATT-TAATT
1 AATATAAAATTATAAAT
1811272 AATATAAAAT
1 AATATAAAAT
1811282 AATATTATTC
Statistics
Matches: 21, Mismatches: 5, Indels: 1
0.78 0.19 0.04
Matches are distributed among these distances:
16 12 0.57
17 9 0.43
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (17 bp):
AATATAAAATTATAAAT
Found at i:1811664 original size:9 final size:9
Alignment explanation
Indices: 1811641--1811733 Score: 54
Period size: 9 Copynumber: 10.7 Consensus size: 9
1811631 TCCCATCGGT
*
1811641 TATAATTTA
1 TATATTTTA
*
1811650 -ATATTTCA
1 TATATTTTA
1811658 TATA-TTTA
1 TATATTTTA
1811666 TATTATATTTA
1 TA-TAT-TTTA
1811677 TATATTTTA
1 TATATTTTA
*
1811686 TATA--AT-
1 TATATTTTA
*
1811692 TATATTTAA
1 TATATTTTA
*
1811701 TATATTATA
1 TATATTTTA
* *
1811710 TATTAATTAA
1 TA-TATTTTA
1811720 T-TATTTTA
1 TATATTTTA
1811728 TATATT
1 TATATT
1811734 ATTAATAGAA
Statistics
Matches: 62, Mismatches: 13, Indels: 18
0.67 0.14 0.19
Matches are distributed among these distances:
6 4 0.06
7 1 0.02
8 17 0.27
9 26 0.42
10 8 0.13
11 6 0.10
ACGTcount: A:0.40, C:0.01, G:0.00, T:0.59
Consensus pattern (9 bp):
TATATTTTA
Found at i:1811681 original size:28 final size:29
Alignment explanation
Indices: 1811640--1811735 Score: 94
Period size: 28 Copynumber: 3.3 Consensus size: 29
1811630 CTCCCATCGG
*
1811640 TTATAATTTA-ATATTTCATATATTTATA-
1 TTAT-ATTTATATATTTCATATAATTATAT
*
1811668 TTATATTTATATATTTTATATAATTATAT
1 TTATATTTATATATTTCATATAATTATAT
*
1811697 TTAATATATTATATA-TTAAT-TAATTAT-T
1 TT-ATAT-TTATATATTTCATATAATTATAT
1811725 TTATATATTAT
1 TTATAT-TTAT
1811736 TAATAGAATA
Statistics
Matches: 61, Mismatches: 3, Indels: 9
0.84 0.04 0.12
Matches are distributed among these distances:
27 14 0.23
28 23 0.38
29 9 0.15
30 8 0.13
31 7 0.11
ACGTcount: A:0.40, C:0.01, G:0.00, T:0.59
Consensus pattern (29 bp):
TTATATTTATATATTTCATATAATTATAT
Found at i:1811686 original size:15 final size:15
Alignment explanation
Indices: 1811640--1811733 Score: 51
Period size: 13 Copynumber: 6.6 Consensus size: 15
1811630 CTCCCATCGG
*
1811640 TTATA-ATTTAATAT
1 TTATATATTTTATAT
1811654 TTCATATA-TTTATA-
1 TT-ATATATTTTATAT
*
1811668 TTATAT-TTATATAT
1 TTATATATTTTATAT
*
1811682 TT-TATATAATTATAT
1 TTATATAT-TTTATAT
*
1811697 TTAATATATTATATAT
1 TT-ATATATTTTATAT
* *
1811713 TAAT-TA-ATTAT-T
1 TTATATATTTTATAT
1811725 TTATATATT
1 TTATATATT
1811734 ATTAATAGAA
Statistics
Matches: 59, Mismatches: 11, Indels: 20
0.66 0.12 0.22
Matches are distributed among these distances:
12 4 0.07
13 17 0.29
14 9 0.15
15 17 0.29
16 7 0.12
17 5 0.08
ACGTcount: A:0.39, C:0.01, G:0.00, T:0.60
Consensus pattern (15 bp):
TTATATATTTTATAT
Found at i:1811737 original size:15 final size:15
Alignment explanation
Indices: 1811651--1811737 Score: 62
Period size: 15 Copynumber: 6.1 Consensus size: 15
1811641 TATAATTTAA
*
1811651 TATTTCATATA-T-T
1 TATTTTATATATTAT
*
1811664 TATATTATAT-TTAT
1 TATTTTATATATTAT
1811678 ATATTTTATATAATTA-
1 -TATTTTATAT-ATTAT
*
1811694 TATTTAATATATTA-
1 TATTTTATATATTAT
* *
1811708 TATATTA-AT-TAAT
1 TATTTTATATATTAT
1811721 TATTTTATATATTAT
1 TATTTTATATATTAT
1811736 TA
1 TA
1811738 ATAGAATAAA
Statistics
Matches: 57, Mismatches: 9, Indels: 14
0.71 0.11 0.17
Matches are distributed among these distances:
12 2 0.04
13 17 0.30
14 12 0.21
15 23 0.40
17 3 0.05
ACGTcount: A:0.39, C:0.01, G:0.00, T:0.60
Consensus pattern (15 bp):
TATTTTATATATTAT
Found at i:1811955 original size:23 final size:23
Alignment explanation
Indices: 1811915--1811962 Score: 62
Period size: 23 Copynumber: 2.1 Consensus size: 23
1811905 ATTTATCATA
*
1811915 TTAATACTTTATATTATATAAAT
1 TTAATACTATATATTATATAAAT
*
1811938 TTAATA-TATATATATATATATAT
1 TTAATACTATATAT-TATATAAAT
1811961 TT
1 TT
1811963 TAATTTTCTC
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
22 6 0.27
23 16 0.73
ACGTcount: A:0.44, C:0.02, G:0.00, T:0.54
Consensus pattern (23 bp):
TTAATACTATATATTATATAAAT
Found at i:1813350 original size:16 final size:16
Alignment explanation
Indices: 1813329--1813384 Score: 53
Period size: 16 Copynumber: 3.5 Consensus size: 16
1813319 GTATTTAAGA
1813329 TATTATATATAAATTT
1 TATTATATATAAATTT
* *
1813345 TATTATGTTTATAA-TT
1 TATTATATATA-AATTT
1813361 TA-TATTATATAAATTT
1 TATTA-TATATAAATTT
*
1813377 TAATATAT
1 TATTATAT
1813385 TTATGTATTT
Statistics
Matches: 32, Mismatches: 4, Indels: 8
0.73 0.09 0.18
Matches are distributed among these distances:
15 4 0.12
16 24 0.75
17 4 0.12
ACGTcount: A:0.41, C:0.00, G:0.02, T:0.57
Consensus pattern (16 bp):
TATTATATATAAATTT
Found at i:1813447 original size:23 final size:22
Alignment explanation
Indices: 1813409--1813451 Score: 68
Period size: 23 Copynumber: 1.9 Consensus size: 22
1813399 CATGTTAGTG
1813409 TTATTTATTTTATGTTGTGTTT
1 TTATTTATTTTATGTTGTGTTT
*
1813431 TTATTTATTTTTGTGTTGTGT
1 TTATTTA-TTTTATGTTGTGT
1813452 GTGTATTGTG
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
22 7 0.37
23 12 0.63
ACGTcount: A:0.12, C:0.00, G:0.16, T:0.72
Consensus pattern (22 bp):
TTATTTATTTTATGTTGTGTTT
Found at i:1813458 original size:23 final size:21
Alignment explanation
Indices: 1813406--1813458 Score: 61
Period size: 23 Copynumber: 2.4 Consensus size: 21
1813396 TGTCATGTTA
1813406 GTGTTATTTATTTTATGTTGT
1 GTGTTATTTATTTTATGTTGT
* *
1813427 GTTTTTATTTATTTTTGTGTTGT
1 G-TGTTATTTA-TTTTATGTTGT
1813450 GTGTGTATT
1 GTGT-TATT
1813459 GTGTTTGAAA
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
21 1 0.04
22 10 0.38
23 15 0.58
ACGTcount: A:0.11, C:0.00, G:0.21, T:0.68
Consensus pattern (21 bp):
GTGTTATTTATTTTATGTTGT
Found at i:1814867 original size:16 final size:16
Alignment explanation
Indices: 1814846--1814891 Score: 57
Period size: 16 Copynumber: 3.2 Consensus size: 16
1814836 TTCAATCCAC
1814846 TTTGTTTTAATTAGAT
1 TTTGTTTTAATTAGAT
1814862 TTTGTTTT--TT---T
1 TTTGTTTTAATTAGAT
1814873 TTTGTTTTAATTAGAT
1 TTTGTTTTAATTAGAT
1814889 TTT
1 TTT
1814892 AATTGAAATT
Statistics
Matches: 25, Mismatches: 0, Indels: 10
0.71 0.00 0.29
Matches are distributed among these distances:
11 9 0.36
13 2 0.08
14 2 0.08
16 12 0.48
ACGTcount: A:0.17, C:0.00, G:0.11, T:0.72
Consensus pattern (16 bp):
TTTGTTTTAATTAGAT
Found at i:1818468 original size:20 final size:21
Alignment explanation
Indices: 1818433--1818473 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 21
1818423 TATCAATTAG
*
1818433 TTGAAATTAGTTTTTATTTAT
1 TTGAAATTAGTTTTTAGTTAT
*
1818454 TTGAGATTA-TTTTTAGTTAT
1 TTGAAATTAGTTTTTAGTTAT
1818474 ATTTTTATTC
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 10 0.56
21 8 0.44
ACGTcount: A:0.27, C:0.00, G:0.12, T:0.61
Consensus pattern (21 bp):
TTGAAATTAGTTTTTAGTTAT
Found at i:1822347 original size:2 final size:2
Alignment explanation
Indices: 1822342--1822367 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
1822332 AAAGAAAGAA
1822342 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
1822368 TTGATTAGGT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
AG
Found at i:1828863 original size:36 final size:36
Alignment explanation
Indices: 1828822--1828902 Score: 119
Period size: 36 Copynumber: 2.2 Consensus size: 36
1828812 TAGGGACAAA
* *
1828822 GGTAGTGACTCAGCCT-GTTTTTGAGACTTAGATTGT
1 GGTAGTGACTCAG-CTAGGTTTTGAGACTTAGAATGT
*
1828858 GGTAGTGACTTAGCTAGGTTTTGAGACTTAGAATGT
1 GGTAGTGACTCAGCTAGGTTTTGAGACTTAGAATGT
1828894 GGTAGTGAC
1 GGTAGTGAC
1828903 AAATTTTGGT
Statistics
Matches: 41, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
35 2 0.05
36 39 0.95
ACGTcount: A:0.22, C:0.11, G:0.31, T:0.36
Consensus pattern (36 bp):
GGTAGTGACTCAGCTAGGTTTTGAGACTTAGAATGT
Found at i:1843377 original size:3 final size:3
Alignment explanation
Indices: 1843369--1843401 Score: 66
Period size: 3 Copynumber: 11.0 Consensus size: 3
1843359 GATAATGGCC
1843369 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1843402 GAAGAGAGAG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:1843411 original size:2 final size:2
Alignment explanation
Indices: 1843404--1843436 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
1843394 TAATAATAGA
1843404 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
1843437 CCCTTGCGTA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.00, G:0.48, T:0.00
Consensus pattern (2 bp):
AG
Found at i:1845641 original size:2 final size:2
Alignment explanation
Indices: 1845634--1845668 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
1845624 GTTTGTATGA
1845634 GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT G
1 GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT G
1845669 AGTGAGTGAG
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.00, C:0.00, G:0.51, T:0.49
Consensus pattern (2 bp):
GT
Found at i:1846497 original size:2 final size:2
Alignment explanation
Indices: 1846490--1846528 Score: 69
Period size: 2 Copynumber: 19.5 Consensus size: 2
1846480 AAATACAACA
*
1846490 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AC AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1846529 AAAAAAATAA
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.51, C:0.03, G:0.00, T:0.46
Consensus pattern (2 bp):
AT
Found at i:1851172 original size:15 final size:15
Alignment explanation
Indices: 1851140--1851168 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
1851130 ATTTATTATT
1851140 TTTAAATTAATTAAA
1 TTTAAATTAATTAAA
1851155 TTTAAA-TAATTAAA
1 TTTAAATTAATTAAA
1851169 ATTTTATTAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 8 0.57
15 6 0.43
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (15 bp):
TTTAAATTAATTAAA
Found at i:1851568 original size:20 final size:20
Alignment explanation
Indices: 1851545--1851582 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
1851535 TTCACAAGTA
1851545 AAATTAAAAAAATAATACGT
1 AAATTAAAAAAATAATACGT
1851565 AAATTAAAAAAATAATAC
1 AAATTAAAAAAATAATAC
1851583 ATTTTGATGA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.68, C:0.05, G:0.03, T:0.24
Consensus pattern (20 bp):
AAATTAAAAAAATAATACGT
Found at i:1853641 original size:2 final size:2
Alignment explanation
Indices: 1853629--1853663 Score: 63
Period size: 2 Copynumber: 18.0 Consensus size: 2
1853619 GAATTTGTAA
1853629 AT AT A- 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
1853664 CGAGCTAAAT
Statistics
Matches: 32, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 31 0.97
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:1854900 original size:39 final size:39
Alignment explanation
Indices: 1854857--1854937 Score: 144
Period size: 39 Copynumber: 2.1 Consensus size: 39
1854847 TAAATGGAGA
1854857 CTGTAACAGCTGATTATCCCCATAGGCATTCGACTGATG
1 CTGTAACAGCTGATTATCCCCATAGGCATTCGACTGATG
* *
1854896 CTGTAACTGCTGATTATCCCCATTGGCATTCGACTGATG
1 CTGTAACAGCTGATTATCCCCATAGGCATTCGACTGATG
1854935 CTG
1 CTG
1854938 CAACTGTTGA
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
39 40 1.00
ACGTcount: A:0.22, C:0.26, G:0.21, T:0.31
Consensus pattern (39 bp):
CTGTAACAGCTGATTATCCCCATAGGCATTCGACTGATG
Found at i:1854943 original size:39 final size:39
Alignment explanation
Indices: 1854865--1854948 Score: 141
Period size: 39 Copynumber: 2.2 Consensus size: 39
1854855 GACTGTAACA
*
1854865 GCTGATTATCCCCATAGGCATTCGACTGATGCTGTAACT
1 GCTGATTATCCCCATAGGCATTCGACTGATGCTGCAACT
*
1854904 GCTGATTATCCCCATTGGCATTCGACTGATGCTGCAACT
1 GCTGATTATCCCCATAGGCATTCGACTGATGCTGCAACT
*
1854943 GTTGAT
1 GCTGAT
1854949 CCATCAGGTT
Statistics
Matches: 42, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
39 42 1.00
ACGTcount: A:0.21, C:0.25, G:0.21, T:0.32
Consensus pattern (39 bp):
GCTGATTATCCCCATAGGCATTCGACTGATGCTGCAACT
Found at i:1854979 original size:39 final size:39
Alignment explanation
Indices: 1854936--1855050 Score: 158
Period size: 39 Copynumber: 2.9 Consensus size: 39
1854926 CGACTGATGC
*
1854936 TGCAACTGTTGATCCATCAGGTTTATATTTGATTGGTGT
1 TGCAACTGCTGATCCATCAGGTTTATATTTGATTGGTGT
* * * * *
1854975 TGCAATTGCCGATCAATCAGGTTTATATTAGATTGGGGT
1 TGCAACTGCTGATCCATCAGGTTTATATTTGATTGGTGT
* *
1855014 GGCAACTGCTGATCCATCAGGCTTATATTTGATTGGT
1 TGCAACTGCTGATCCATCAGGTTTATATTTGATTGGT
1855051 ATTCCAACGG
Statistics
Matches: 63, Mismatches: 13, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
39 63 1.00
ACGTcount: A:0.23, C:0.15, G:0.24, T:0.38
Consensus pattern (39 bp):
TGCAACTGCTGATCCATCAGGTTTATATTTGATTGGTGT
Found at i:1857377 original size:27 final size:28
Alignment explanation
Indices: 1857342--1857401 Score: 79
Period size: 28 Copynumber: 2.2 Consensus size: 28
1857332 TTGTCTATAT
*
1857342 TATTTTTTTCT-AATATAATTTTTAATA
1 TATTTTTTTATAAATATAATTTTTAATA
* *
1857369 TATTTTTTTATAAATTTAATTTTTAGTA
1 TATTTTTTTATAAATATAATTTTTAATA
1857397 T-TTTT
1 TATTTT
1857402 AACATTTTTT
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
27 14 0.48
28 15 0.52
ACGTcount: A:0.30, C:0.02, G:0.02, T:0.67
Consensus pattern (28 bp):
TATTTTTTTATAAATATAATTTTTAATA
Found at i:1857807 original size:17 final size:16
Alignment explanation
Indices: 1857771--1857822 Score: 72
Period size: 16 Copynumber: 3.3 Consensus size: 16
1857761 CCTAACTACG
*
1857771 TTTTAAATGAAATTAT
1 TTTTAAATTAAATTAT
1857787 TTTTAAATTAAATTAAT
1 TTTTAAATTAAATT-AT
1857804 TTTTAAATT-AATT-T
1 TTTTAAATTAAATTAT
1857818 TTTTA
1 TTTTA
1857823 TTTAAATTTT
Statistics
Matches: 34, Mismatches: 1, Indels: 4
0.87 0.03 0.10
Matches are distributed among these distances:
14 6 0.18
16 17 0.50
17 11 0.32
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.58
Consensus pattern (16 bp):
TTTTAAATTAAATTAT
Found at i:1857811 original size:12 final size:12
Alignment explanation
Indices: 1857794--1857819 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
1857784 TATTTTTAAA
1857794 TTAAATTAATTT
1 TTAAATTAATTT
1857806 TTAAATTAATTT
1 TTAAATTAATTT
1857818 TT
1 TT
1857820 TTATTTAAAT
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:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (12 bp):
TTAAATTAATTT
Found at i:1857816 original size:16 final size:15
Alignment explanation
Indices: 1857771--1857848 Score: 67
Period size: 16 Copynumber: 5.3 Consensus size: 15
1857761 CCTAACTACG
*
1857771 TTTTAAATGAAATTAT
1 TTTTAAAT-TAATTAT
1857787 TTTTAAATTAAATTAAT
1 TTTTAAATT-AATT-AT
1857804 TTTTAAATTAATT-T
1 TTTTAAATTAATTAT
*
1857818 TTTT-ATTTAA--AT
1 TTTTAAATTAATTAT
*
1857830 TTTTAATTTAA-TAT
1 TTTTAAATTAATTAT
1857844 TTTTA
1 TTTTA
1857849 TTTAAACTTA
Statistics
Matches: 55, Mismatches: 2, Indels: 12
0.80 0.03 0.17
Matches are distributed among these distances:
12 5 0.09
13 11 0.20
14 12 0.22
16 16 0.29
17 11 0.20
ACGTcount: A:0.38, C:0.00, G:0.01, T:0.60
Consensus pattern (15 bp):
TTTTAAATTAATTAT
Found at i:1857827 original size:13 final size:13
Alignment explanation
Indices: 1857811--1857853 Score: 59
Period size: 13 Copynumber: 3.3 Consensus size: 13
1857801 AATTTTTAAA
1857811 TTAATTTTTTTAT
1 TTAATTTTTTTAT
* *
1857824 TTAAATTTTTAAT
1 TTAATTTTTTTAT
*
1857837 TTAATATTTTTAT
1 TTAATTTTTTTAT
1857850 TTAA
1 TTAA
1857854 ACTTATATAA
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
13 25 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (13 bp):
TTAATTTTTTTAT
Found at i:1857840 original size:26 final size:26
Alignment explanation
Indices: 1857801--1857854 Score: 90
Period size: 26 Copynumber: 2.1 Consensus size: 26
1857791 AAATTAAATT
*
1857801 AATTTTTAAATTAATTTTTTTATTTA
1 AATTTTTAAATTAATATTTTTATTTA
*
1857827 AATTTTTAATTTAATATTTTTATTTA
1 AATTTTTAAATTAATATTTTTATTTA
1857853 AA
1 AA
1857855 CTTATATAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (26 bp):
AATTTTTAAATTAATATTTTTATTTA
Found at i:1857965 original size:15 final size:16
Alignment explanation
Indices: 1857945--1857980 Score: 56
Period size: 16 Copynumber: 2.3 Consensus size: 16
1857935 CACAAACACA
1857945 CAAAAA-AAATAAAAT
1 CAAAAACAAATAAAAT
*
1857960 CAAAAACAGATAAAAT
1 CAAAAACAAATAAAAT
1857976 CAAAA
1 CAAAA
1857981 TAAACTCCAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 6 0.32
16 13 0.68
ACGTcount: A:0.75, C:0.11, G:0.03, T:0.11
Consensus pattern (16 bp):
CAAAAACAAATAAAAT
Found at i:1859774 original size:75 final size:75
Alignment explanation
Indices: 1859628--1859776 Score: 183
Period size: 75 Copynumber: 2.0 Consensus size: 75
1859618 TTAATCAAAA
* * * * *
1859628 GAATTGTTTTCCTTTTATATTATTATTAATATATGTTATTTGAAGATATTTCCAAAAACTTTATT
1 GAATTGCTTGCCTTTTATATTATTATTAATATATATTATTTGAAGATATTTCAAAAAACTTTATA
*
1859693 TATATTAAAT
66 CATATTAAAT
* * * * *
1859703 GAATTGCTTGCCTTTTATATTATTATTAATATCTATTATTTG-ATATTTTTTAAAAAATTTTATA
1 GAATTGCTTGCCTTTTATATTATTATTAATATATATTATTTGAAGATATTTCAAAAAACTTTATA
1859767 CATTATTAAA
66 CA-TATTAAA
1859777 ATATTATAAA
Statistics
Matches: 62, Mismatches: 11, Indels: 2
0.83 0.15 0.03
Matches are distributed among these distances:
74 17 0.27
75 45 0.73
ACGTcount: A:0.35, C:0.07, G:0.06, T:0.52
Consensus pattern (75 bp):
GAATTGCTTGCCTTTTATATTATTATTAATATATATTATTTGAAGATATTTCAAAAAACTTTATA
CATATTAAAT
Found at i:1860269 original size:298 final size:303
Alignment explanation
Indices: 1859891--1861384 Score: 917
Period size: 312 Copynumber: 4.8 Consensus size: 303
1859881 GACAGGACTT
* *
1859891 ATCGGTCGACAAATAACTCAGCTTAATCAAATGCATTGCTTGCCTTTTATGTTATTATTAATATC
1 ATCGGTCGACAAATAACTAAGCTTAATCAAATGCATTGCTTGCCTTTTATATTATTATTAATATC
**
1859956 TGTCATTTGATGATATTTCCAAAAATTTTATATATATTAAATGAATTGTTTGTCATTTATTTATT
66 TGTCATTTGATGATATTTTAAAAAATTTTATATATATTAAATGAATTGTTT-TCATTTATTTATT
*
1860021 ATTAATATCTGTAATTTGATAATATTTTCAAAAATTTTATAAATTATTAAAATATTAAT-TTTA-
130 ATTAATATCTATAATTTGATAAT-TTTTCAAAAATTTTATAAATTATTAAAATATTAATATTTAT
* * *
1860084 T-A-A-A-TTTATTACTAAATTTATATAATATTTT-TTATTATTAAGTGATAATTTTT-GTAGAG
194 TAATATATTTTATTACTAAATTTAAAT-AT-TTTTATTATTATTAAATAATAATTTTTAGTA-AG
* * *
1860143 CCGATTTAGTTCATATTAGTAAAATCATATT-TA-C-AAT-TAGATCC
256 CCGATTTAGTTCAAATTAGTAAAACCATATTAGACCAAATGTAGATCC
* *
1860187 ATACAGGTCGGCAAATAACTAAGTTTAATCAAATGCATTGCTTGCCTTTTATATTATTATTAATA
1 AT-C-GGTCGACAAATAACTAAGCTTAATCAAATGCATTGCTTGCCTTTTATATTATTATTAATA
* * ** ** *
1860252 TTTGTCATTTCATGATATTTTTTAAAATTTTATATATATTTTAAATGAATT-ACTT-ACTT-TTT
64 TCTGTCATTTGATGATATTTTAAAAAATTTTATATATA--TTAAATGAATTGTTTTCATTTATTT
* * *
1860314 A-TATTAATATTTATTATTTGATGAACTTTTT--AAAATTTTATATATTATTAAAATATTAAAAT
127 ATTATTAATATCTATAATTTGAT-AA-TTTTTCAAAAATTTTATAAATTATTAAAATATT--AAT
* *
1860376 ATTTATTTAATATATTTTATTATTAAATTTAAATATTTTTATTATTATTAAATAATAATTTTTAT
188 ATTTA-TTAATATATTTTATTACTAAATTTAAATATTTTTATTATTATTAAATAATAATTTTTAG
* * **
1860441 TAAGCCGATTTAGTTCAAATTAGTGAAACCTTATTAGACCTAAATGGGCTAGATTT
252 TAAGCCGATTTAGTTCAAATTAGTAAAACCATATTAGACC-AAAT--G-TAGATCC
* * * * *
1860497 ATCGGCCGACAAAATAACTCAA-CTTAATCAAATGAATTCCTTGCCTTTTATTTTATTACTAATA
1 ATCGGTCGAC-AAATAACT-AAGCTTAATCAAATGCATTGCTTGCCTTTTATATTATTATTAATA
* * * * * *
1860561 TCTGCCATTTGACGATATTTTAAAAAATTTTATGTATATTAAATG-ATAGTTTACCTTTTATATT
64 TCTGTCATTTGATGATATTTTAAAAAATTTTATATATATTAAATGAATTGTTT-TCATTTAT-TT
* * * ** *
1860625 ATTATTAATCTCTATCATTTAACCTTTTTTTTCAAAAATTTTATAGATTATTAAAATATTAAAAT
127 ATTATTAATATCTATAATTTGA--TAATTTTTCAAAAATTTTATAAATTATTAAAATATT--AAT
* * * * *
1860690 ATTAATTTTATATATTTTATTATTAAATTTAAATA-ATTT-TTATTATTAAATAATAATATTTA-
188 ATTTA-TTAATATATTTTATTACTAAATTTAAATATTTTTATTATTATTAAATAATAATTTTTAG
* * * * ** **
1860752 TCAAGTC-AGTTTAATTTAAATTAGTGAAACCTTATATATAGCTAGACCCATACGGGTCAGATTT
252 T-AAGCCGA-TTTAGTTCAAATTAGTAAAACC----ATAT---TAGA-CCA-A-ATGT-AGATCC
* * * ** * * * *
1860816 ATTGGGCTAGGCAAATAACTCGGTTTAATCAAATGGATTGCGTGTCTTTTATATTATTATTAATA
1 A-TCGG-TCGACAAATAACTAAGCTTAATCAAATGCATTGCTTGCCTTTTATATTATTATTAATA
* * * * * * *
1860881 TTTGTCA-ATGATGATATTTTCAAAAATTTTACATATATTAAATGAATTGCTTGCTTTTTATATT
64 TCTGTCATTTGATGATATTTTAAAAAATTTTATATATATTAAATGAATTGTTTTC-ATTTAT-TT
* * * * *
1860945 ATTATTAATAT-T-T--GTCGAT-A-TTTT-AAAAAATTTATACATTATTAAAACATTAAAAATA
127 ATTATTAATATCTATAATTTGATAATTTTTCAAAAATTTTATAAATTATTAAAATATT---AATA
* * * * *** *
1861003 TTAATTTTATATATTTTTATTAATATATTTAAATA-AAATATTTATTTTTAAATAATAATTTTTA
189 TTTA-TTAATATA-TTTTATTACTAAATTTAAATATTTTTA-TTATTATTAAATAATAATTTTTA
* * * * * * ** * * *
1861067 TTTAGACAATTCAATTCAAATTAGTGAAACATTATTTACGGTTAGAACCATACAAGTTA-AACTT
251 GTAAGCCGATTTAGTTCAAATTAGT-AAA-ACCA--TA---TTAG-ACCA-A-ATG-TAGATC-C
* * * * * * * * *
1861131 ATTTGGTTGGGCAAACAATTTAGCTTAATCAAAT---TTGCTTGCCTTTTTTATTACTGTTAATA
1 A-TCGG-TCGACAAATAACTAAGCTTAATCAAATGCATTGCTTGCCTTTTATATTATTATTAATA
* * * * * * ** *
1861193 TCTATCTTTTGGTAATATTTTCAAAAATTCTATATATATTAAATGAATTGCTTGCCTTTTATATT
64 TCTGTCATTTGATGATATTTTAAAAAATTTTATATATATTAAATGAATTG-TTTTC-ATT-TATT
* * * * * * * *
1861258 TATTATTGATATATGTCATTTGACAATATTTTTAAAAATTTTATACATTATTAAAATATTAAAAA
126 TATTATTAATATCTATAATTTGATAAT-TTTTCAAAAATTTTATAAATTATTAAAATATT-AATA
* *
1861323 TATTATTTTATATATTTTTATTACTAAATTT-AA-ATTCTT-TTATTATTAAATAATAATTTTTA
189 T-TTA-TTAATATA-TTTTATTACTAAATTTAAATATTTTTATTATTATTAAATAATAATTTTTA
1861385 TGGAGCTAAT
Statistics
Matches: 963, Mismatches: 151, Indels: 146
0.76 0.12 0.12
Matches are distributed among these distances:
294 25 0.03
295 18 0.02
296 15 0.02
297 9 0.01
298 90 0.09
299 2 0.00
300 12 0.01
301 5 0.01
302 52 0.05
303 20 0.02
304 1 0.00
306 5 0.01
307 8 0.01
308 5 0.01
309 79 0.08
310 10 0.01
311 29 0.03
312 117 0.12
313 62 0.06
314 84 0.09
315 82 0.09
316 12 0.01
317 1 0.00
318 28 0.03
319 49 0.05
320 86 0.09
321 32 0.03
322 25 0.03
ACGTcount: A:0.37, C:0.09, G:0.08, T:0.47
Consensus pattern (303 bp):
ATCGGTCGACAAATAACTAAGCTTAATCAAATGCATTGCTTGCCTTTTATATTATTATTAATATC
TGTCATTTGATGATATTTTAAAAAATTTTATATATATTAAATGAATTGTTTTCATTTATTTATTA
TTAATATCTATAATTTGATAATTTTTCAAAAATTTTATAAATTATTAAAATATTAATATTTATTA
ATATATTTTATTACTAAATTTAAATATTTTTATTATTATTAAATAATAATTTTTAGTAAGCCGAT
TTAGTTCAAATTAGTAAAACCATATTAGACCAAATGTAGATCC
Found at i:1860419 original size:19 final size:22
Alignment explanation
Indices: 1860380--1860422 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
1860370 TAAAATATTT
1860380 ATTTAATATATTTTATTATTAA
1 ATTTAATATATTTTATTATTAA
1860402 ATTTAA-ATATTTTTATTATTA
1 ATTTAATATA-TTTTATTATTA
1860423 TTAAATAATA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
21 3 0.15
22 17 0.85
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (22 bp):
ATTTAATATATTTTATTATTAA
Found at i:1860426 original size:19 final size:20
Alignment explanation
Indices: 1860348--1860442 Score: 70
Period size: 20 Copynumber: 4.6 Consensus size: 20
1860338 ACTTTTTAAA
1860348 ATTTTATATATTATTAAA-AT
1 ATTTTAT-TATTATTAAATAT
** * *
1860368 ATTAAAATATTTATTTAATAT
1 ATTTTATTA-TTATTAAATAT
1860389 ATTTTATTATTAAATTTAAATAT
1 ATTTTATTATT--A-TTAAATAT
1860412 -TTTTATTATTATTAAATAAT
1 ATTTTATTATTATTAAAT-AT
*
1860432 AATTT-TTATTA
1 ATTTTATTATTA
1860443 AGCCGATTTA
Statistics
Matches: 59, Mismatches: 9, Indels: 14
0.72 0.11 0.17
Matches are distributed among these distances:
19 8 0.14
20 22 0.37
21 11 0.19
22 11 0.19
23 7 0.12
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (20 bp):
ATTTTATTATTATTAAATAT
Found at i:1860601 original size:607 final size:617
Alignment explanation
Indices: 1859889--1861681 Score: 1424
Period size: 633 Copynumber: 2.9 Consensus size: 617
1859879 TGGACAGGAC
* * * * *
1859889 TTATCGGTCGACAAATAACTCAGCTTAATCAAATGCATTGCTTGCCTTTTATGTTATTATTAATA
1 TTATCGGCCGACAAATAACTCAACTTAATCAAATGAATTCCTTGCCTTTTATGTTATTACTAATA
* * * * **
1859954 TCTGTCATTTGATGATATTTCCAAAAATTTTATATATATTAAATGAATTGTTTGTCATTTAT-TT
66 TCTGCCATTTGACGATATTTCAAAAAATTTTATATATATTAAATG-ATAGTTTACCATTTATATT
* *
1860018 ATTATTAATATCTGTAATTTGA-TAATATTTTCAAAAATTTTATA-A-A-T-TATTAAAATATTA
130 ATTATTAATATCTATAATTTAACT-ATATTTTCAAAAATTTTATAGATATTATATTAAAATATTA
* * * * *
1860078 ATTTTATA-AATTTATTACTAAATTTATATAATATTTTTTATTATTAAGTGATAATTTTTGT-AG
194 ATTTTATATAATTTATTACTAAA-TT-TA-AATAATTTTTATTATTAAATAATAATATTTATCA-
* * * *
1860141 AGCC-GATTTAGTTCATATTAGT-AAA-ATCATATTTA-C-A-A-TTA-GATC-CA-TA-CAGG-
255 AGCCAG-TTTAATTCAAATTAGTGAAACATCATATATAGCTAGACATACGATCACATTATCAGGC
* *
1860194 TCGGCAAATAACTAAGTTTAATCAAATGCATTGCTTGCCTTTTATATTATTATTAATATTTGTCA
319 TAGGCAAATAACTAAGTTTAATCAAATGCATTGCGTGCCTTTTATATTATTATTAATATTTGTCA
* ** *
1860259 TTTCATGATATTTTTTAAAATTTTATATATATTTTAAATGAATTACTTACTTTTTATATTAATAT
384 -ATCATGATATTTTCAAAAATTTTACATATA--TTAAATGAATTACTTACTTTTTATATTAATA-
* * * * * *
1860324 TTATTATTTGAT-GA-ACTTTTTAAAATTTTATATATTATTAAAATATT-AAAATATTTATTTAA
445 TTAATATTTG-TCGATA-TTTTAAAAAATTTATACATTATTAAAACATTAAAAATATTAATTTAA
* ** * * *
1860386 TATA-TTTTATTATTAAATTTAAAT-ATTTTTATTATTATTAAATAATAATTTTTATTAAGCCGA
508 TATATTTTTATTAATAAATTTAAATAAAATAT-TTATTATTAAATAATAATTTTTATTAAGACAA
* * *
1860449 TTTAGTTCAAATTAGTGAAACCTTATTAGACCTAAATGGGCTAGAT
572 TTCAATTCAAATTAGTGAAACATTATTAGACCTAAATGGGCTAGAT
*
1860495 TTATCGGCCGACAAAATAACTCAACTTAATCAAATGAATTCCTTGCCTTTTATTTTATTACTAAT
1 TTATCGGCCGAC-AAATAACTCAACTTAATCAAATGAATTCCTTGCCTTTTATGTTATTACTAAT
* * *
1860560 ATCTGCCATTTGACGATATTTTAAAAAATTTTATGTATATTAAATGATAGTTTACCTTTTATATT
65 ATCTGCCATTTGACGATATTTCAAAAAATTTTATATATATTAAATGATAGTTTACCATTTATATT
* * * *
1860625 ATTATTAATCTCTATCATTTAACCTTTTTTTTCAAAAATTTTATAGATTATTAAAATATTAAAAT
130 ATTATTAATATCTATAATTTAA-CTATATTTTCAAAAATTTTATAGA-TATT---ATATTAAAAT
* *
1860690 ATTAATTTTATATATTTTATTATTAAATTTAAATAATTTTTATTATTAAATAATAATATTTATCA
190 ATTAATTTTATATAATTTATTACTAAATTTAAATAATTTTTATTATTAAATAATAATATTTATCA
* * * * * * **
1860755 AGTCAGTTTAATTTAAATTAGTGAAACCTTATATATAGCTAGACCCATACGGGTCAGATTTATTG
255 AGCCAGTTTAATTCAAATTAGTGAAACATCATATATAGCTAGA--CATAC-GATCACA-TTATCA
** * *
1860820 GGCTAGGCAAATAACTCGGTTTAATCAAATGGATTGCGTGTCTTTTATATTATTATTAATATTTG
316 GGCTAGGCAAATAACTAAGTTTAATCAAATGCATTGCGTGCCTTTTATATTATTATTAATATTTG
* * * *
1860885 TCAATGATGATATTTTCAAAAATTTTACATATATTAAATGAATTGCTTGCTTTTTATATTATTAT
381 TCAATCATGATATTTTCAAAAATTTTACATATATTAAATGAATTACTTACTTTTTATATTAATAT
*
1860950 TAATATTTGTCGATATTTTAAAAAATTTATACATTATTAAAACATTAAAAATATTAATTTTATAT
446 TAATATTTGTCGATATTTTAAAAAATTTATACATTATTAAAACATTAAAAATATTAATTTAATAT
* * *
1861015 ATTTTTATTAATATATTTAAATAAAATATTTATTTTTAAATAATAATTTTTATTTAGACAATTCA
511 ATTTTTATTAATAAATTTAAATAAAATATTTATTATTAAATAATAATTTTTATTAAGACAATTCA
* * *
1861080 ATTCAAATTAGTGAAACATTATTTACGGTTAGAACCATACAA---GTTAAAC
576 ATTCAAATTAGTGAAAC---A-TTA---TTAG-ACC-TA-AATGGGCTAGAT
* ** * * * * * * * * * **
1861129 TTATTTGGTTGGGCAAACAATTTAGCTTAATCAAAT---TTGCTTGCCTTTTTTATTACTGTTAA
1 TTA-TCGG-CCGACAAATAACTCAACTTAATCAAATGAATTCCTTGCCTTTTATGTTATTACTAA
** * *** * * * * *
1861191 TATCTATCTTTTGGTAATATTTTC-AAAAATTCTATATATATTAAATGAATTGCTTGCCTTTTAT
64 TATCTGCCATTTGACGATA-TTTCAAAAAATTTTATATATATTAAATG-ATAGTTTACCATTTAT
* * * * * * * *
1861255 ATTTATTATTGATATATGTCATTTGACAATATTTTTAAAAATTTTATACATTATTAAAATATTAA
127 A-TTATTATTAATATCTATAATTTAACTATATTTTCAAAAATTTTATAGA-TATT---ATATT-A
* *
1861320 AAATATT-ATTTTATATATTTTTATTACTAAATTTAAAT--TCTTTTATTATTAAATAATAATTT
186 AAATATTAATTTTATATA-ATTTATTACTAAATTTAAATAAT-TTTTATTATTAAATAATAATAT
** * * * * * *
1861382 TTATGGAGCTAATTCAATTCAAATTAGT-AAA-ATCTTATTTACAGCTAAACCCATACGGATCAG
249 TTATCAAGCCAGTTTAATTCAAATTAGTGAAACATC--ATATATAGCTAGA--CATAC-GATCA-
* ** *
1861445 CTTTATTGGGCTAGGCAAATAACTCAA-TTTAATCAAATG-ACTTGC-TAGTCTTTTATATTATT
308 CATTATCAGGCTAGGCAAATAACT-AAGTTTAATCAAATGCA-TTGCGT-GCCTTTTATATTATT
* * ** * * * * * *
1861507 ATTAATATTTGTCATTGACAATATTGCTT-GAAAA-TTTATATATATTAAATGAATTGCATGCCT
370 ATTAATATTTGTCAATCATGATATT--TTCAAAAATTTTACATATATTAAATGAATTACTTACTT
* *
1861570 TTTATATTATTATTAATGTCAGCCATTTGAT-GATATTTTCAAAAATTTTATACATTATTAAAAT
433 TTTATATTAATATTAA--T-----ATTTG-TCGATATTTT-AAAAAATTTATACATTATTAAAA-
* * *
1861634 AATAAAAAATAGTAATTTTAA-ATATTTTTATTAATAAATTTAAATAAA
488 CATTAAAAATATTAA-TTTAATATATTTTTATTAATAAATTTAAATAAA
1861682 TTTTGTCGAG
Statistics
Matches: 971, Mismatches: 144, Indels: 108
0.79 0.12 0.09
Matches are distributed among these distances:
606 23 0.02
607 108 0.11
608 18 0.02
609 2 0.00
611 1 0.00
612 1 0.00
614 43 0.04
615 7 0.01
616 30 0.03
617 13 0.01
618 1 0.00
619 1 0.00
622 2 0.00
624 4 0.00
625 39 0.04
626 46 0.05
627 67 0.07
628 30 0.03
629 59 0.06
631 4 0.00
632 60 0.06
633 240 0.25
634 61 0.06
635 27 0.03
636 4 0.00
637 2 0.00
640 13 0.01
641 23 0.02
642 38 0.04
643 4 0.00
ACGTcount: A:0.37, C:0.09, G:0.08, T:0.46
Consensus pattern (617 bp):
TTATCGGCCGACAAATAACTCAACTTAATCAAATGAATTCCTTGCCTTTTATGTTATTACTAATA
TCTGCCATTTGACGATATTTCAAAAAATTTTATATATATTAAATGATAGTTTACCATTTATATTA
TTATTAATATCTATAATTTAACTATATTTTCAAAAATTTTATAGATATTATATTAAAATATTAAT
TTTATATAATTTATTACTAAATTTAAATAATTTTTATTATTAAATAATAATATTTATCAAGCCAG
TTTAATTCAAATTAGTGAAACATCATATATAGCTAGACATACGATCACATTATCAGGCTAGGCAA
ATAACTAAGTTTAATCAAATGCATTGCGTGCCTTTTATATTATTATTAATATTTGTCAATCATGA
TATTTTCAAAAATTTTACATATATTAAATGAATTACTTACTTTTTATATTAATATTAATATTTGT
CGATATTTTAAAAAATTTATACATTATTAAAACATTAAAAATATTAATTTAATATATTTTTATTA
ATAAATTTAAATAAAATATTTATTATTAAATAATAATTTTTATTAAGACAATTCAATTCAAATTA
GTGAAACATTATTAGACCTAAATGGGCTAGAT
Found at i:1860744 original size:20 final size:22
Alignment explanation
Indices: 1860704--1860752 Score: 66
Period size: 23 Copynumber: 2.3 Consensus size: 22
1860694 ATTTTATATA
1860704 TTTTATTATTAAATTTAAATAAT
1 TTTTATTATTAAA-TTAAATAAT
1860727 TTTTATTATTAAA-T-AATAAT
1 TTTTATTATTAAATTAAATAAT
*
1860747 ATTTAT
1 TTTTAT
1860753 CAAGTCAGTT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
20 11 0.44
21 1 0.04
23 13 0.52
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (22 bp):
TTTTATTATTAAATTAAATAAT
Found at i:1861003 original size:320 final size:315
Alignment explanation
Indices: 1860196--1862058 Score: 1165
Period size: 320 Copynumber: 5.9 Consensus size: 315
1860186 CATACAGGTC
* *
1860196 GGCAAATAACTAAGTTTAATCAAATGCATTGCTTGCCTTTTATATTATTATTAATATTTGTCATT
1 GGCAAATAACTCAGTTTAATCAAATGGATTGCTTGCCTTTTATATTATTATTAATATTTGTCA-T
* ** * *
1860261 TCATGATATTTTTTAAAATTTTATATATATTTTAAATGAATTACTT-AC--TT-T-TTA-TATTA
65 TGATGATATTTTCAAAAATTTTATATATA--TTAAATGAATTGCTTGCCTTTTATATTATTATTA
* * * ** * * * *
1860320 ATATTTATTATTTGATGAACTTTTTAAAATT-TTATATATTATTAAAATATTAAAATATTTATTT
128 ATATTTGTCATTTTAAAAAATTTAT-ACATTATTATACATTA-TAAAATATTAAAATA-TTATTT
* * *
1860384 AATATATTTTATTATTAAATTTAAATATTTTTATTATTATTAAATAATAATTTTTATTAAGCCGA
190 TATATATTTTATTATTAAATTTAAATA-ATTT-TTATTATTAAATAATAATTTTTATTAAG-CAA
* * * * * *
1860449 TTTAGTTCAAATTAGTGAAACCTTA-TTAGACCTA-A---AT--GGG-CTAGATTTA-TCGGC-C
252 TTCAATTCAAATTAGTGAAACCTTATTTACAGCTAGACCCATACGGGTC-AGATTTATTGGGCTA
* ** * * * * * *
1860504 GACAAAATAACTCAACTTAATCAAATGAATTCCTTGCCTTTTATTTTATTACTAATATCTGCCAT
1 GGC-AAATAACTCAGTTTAATCAAATGGATTGCTTGCCTTTTATATTATTATTAATATTTGTCA-
* * * * * *
1860569 TTGACGATATTTTAAAAAATTTTATGTATATTAAATG-ATAGTTTACCTTTTATATTATTATTAA
64 TTGATGATATTTTCAAAAATTTTATATATATTAAATGAATTGCTTGCCTTTTATATTATTATTAA
* * * **** * * *
1860633 TCTCTATCA-TTTAACCTTTTTTTTCAAAAATT-TTATAGATTATTAAAATATTAAAATATTAAT
129 TATTTGTCATTTTAA---AAAATTT-ATACATTATTATACATTA-TAAAATATTAAAATATT-AT
* * *
1860696 TTTATATATTTTATTATTAAATTTAAATAATTTTTATTATTAAATAATAATATTTATCAAGTCAG
188 TTTATATATTTTATTATTAAATTTAAATAATTTTTATTATTAAATAATAATTTTTATTAAG-CAA
* * * *
1860761 TTTAATTTAAATTAGTGAAACCTTATATATAGCTAGACCCATACGGGTCAGATTTATTGGGCTA
252 TTCAATTCAAATTAGTGAAACCTTATTTACAGCTAGACCCATACGGGTCAGATTTATTGGGCTA
* * * *
1860825 GGCAAATAACTCGGTTTAATCAAATGGATTGCGTGTCTTTTATATTATTATTAATATTTGTCAAT
1 GGCAAATAACTCAGTTTAATCAAATGGATTGCTTGCCTTTTATATTATTATTAATATTTGTCATT
* *
1860890 GATGATATTTTCAAAAATTTTACATATATTAAATGAATTGCTTGCTTTTTATATTATTATTAATA
66 GATGATATTTTCAAAAATTTTATATATATTAAATGAATTGCTTGCCTTTTATATTATTATTAATA
* *
1860955 TTTGTCGATATTTTAAAAAATTTATACATTATTAAAACATTA-AAAATATT---A-ATT-TTATA
131 TTTGTC---ATTTTAAAAAATTTATACATTATT-ATACATTATAAAATATTAAAATATTATTTTA
* * * * *
1861014 TAT-TTTTATTAATATATTTAAATAAAATATTTATTTTTAAATAATAATTTTTATTTAGACAATT
192 TATATTTTATTATTAAATTTAAAT--AATTTTTATTATTAAATAATAATTTTTATTAAG-CAATT
* * * * ** * * * * * *
1861078 CAATTCAAATTAGTGAAACATTATTTACGGTTAGAACCATACAAGTTAAACTTATTTGGTTG
254 CAATTCAAATTAGTGAAACCTTATTTACAGCTAGACCCATACGGGTCAGATTTATTGGGCTA
* * * * * * * * * *
1861140 GGCAAACAATTTAGCTTAATCAAAT---TTGCTTGCCTTTTTTATTACTGTTAATATCTATCTTT
1 GGCAAATAACTCAGTTTAATCAAATGGATTGCTTGCCTTTTATATTATTATTAATATTTGTC-AT
* * * *
1861202 TGGTAATATTTTCAAAAATTCTATATATATTAAATGAATTGCTTGCCTTTTATATTTATTATTGA
65 TGATGATATTTTCAAAAATTTTATATATATTAAATGAATTGCTTGCCTTTTATA-TTATTATTAA
* * ** * *
1861267 TATATGTCATTTGACAATATTTTTAAAAATT-TTATACATTATTAAAATATTAAAAATATTATTT
129 TATTTGTCATTTTA-AA-AAATTTATACATTATTATACATTA-TAAAATATT-AAAATATTATTT
* **
1861331 TATATATTTTTATTACTAAATTTAAAT--TCTTTTATTATTAAATAATAATTTTTATGGAGCTAA
190 TATATA-TTTTATTATTAAATTTAAATAAT-TTTTATTATTAAATAATAATTTTTATTAAGC-AA
* * * * *
1861394 TTCAATTCAAATTAGTAAAATCTTATTTACAGCTAAACCCATACGGATCAGCTTTATTGGGCTA
252 TTCAATTCAAATTAGTGAAACCTTATTTACAGCTAGACCCATACGGGTCAGATTTATTGGGCTA
* * *
1861458 GGCAAATAACTCAATTTAATCAAAT-GACTTGCTAGTCTTTTATATTATTATTAATATTTGTCAT
1 GGCAAATAACTCAGTTTAATCAAATGGA-TTGCTTGCCTTTTATATTATTATTAATATTTGTCAT
** * *
1861522 TGACAATATTGCTT-GAAAA-TTTATATATATTAAATGAATTGCATGCCTTTTATATTATTATTA
65 TGATGATATT--TTCAAAAATTTTATATATATTAAATGAATTGCTTGCCTTTTATATTATTATTA
* ** * * * * * * * * **
1861585 ATGTCAGCCATTTGATGATATTTTCAAAAATT-TTATACATTATTAAAATAATAAAA-A--ATAG
128 ATATTTGTCATTTTA-AAAAATTT-ATACATTATTATACATTA-TAAAATATTAAAATATTATTT
* * * * * * ** *
1861646 TA-AT-TTTAAATATT---TTT-ATTAA---TAAAT-TTAAAT-A-AA-TTTTGTCGAGTCAGTT
190 TATATATTTTATTATTAAATTTAAATAATTTTTATTATTAAATAATAATTTTTATTAAG-CAATT
* * * * * * * * * * * * *
1861698 TAGTGCAAATTAATAAAACCTTATTTATAGCTAAACCTATGCGAGCCAAACTTATTGGGCT-
254 CAATTCAAATTAGTGAAACCTTATTTACAGCTAGACCCATACGGGTCAGATTTATTGGGCTA
** * * * *
1861759 GAAAAATAA-TCCAGCTTAATCAAATGAATTGCTTGCCTTTGATATTGTTATTAATATTTGTCAT
1 GGCAAATAACT-CAGTTTAATCAAATGGATTGCTTGCCTTTTATATTATTATTAATATTTGTCA-
* * *
1861823 TTGATGATATTTTCAAAAATTTTATATATATATTAAGTGAATTGCTTGTCTTTTTTATTATTATT
64 TTGATGATATTTTCAAAAA-TTT-TATATATATTAAATGAATTGCTTGCCTTTTATATTATTATT
* * * * ** * * * *
1861888 AATATCTATCATTTGATGATATTTTTAAAGATT-TTATAAATTATTAAAATATTAAAAATAATAA
127 AATATTTGTCATTT--TAAAAAATTTATACATTATTATACATTA-TAAAATATT-AAAAT-ATTA
* * * * * * * *
1861952 TTTTATATGTTTTTGTTACTAAATTTAAATATATTTTTTTGTTATTTAGTAATAATTCTTATTGA
187 TTTTATAT-ATTTTATTATTAAATTTAAATA-A--TTTTTATTATTAAATAATAATTTTTATTAA
* * * * * *
1862017 GTCAATTCAGTTTAAATTAGTAAAACCATATTCACAACTAGA
248 G-CAATTCAATTCAAATTAGTGAAACCTTATTTACAGCTAGA
1862059 TCTATGTTCT
Statistics
Matches: 1207, Mismatches: 261, Indels: 156
0.74 0.16 0.10
Matches are distributed among these distances:
300 3 0.00
301 54 0.04
302 68 0.06
303 5 0.00
304 72 0.06
305 14 0.01
306 7 0.01
307 9 0.01
308 4 0.00
309 86 0.07
310 3 0.00
311 18 0.01
312 106 0.09
313 95 0.08
314 89 0.07
315 105 0.09
316 6 0.00
317 8 0.01
318 106 0.09
319 95 0.08
320 137 0.11
321 56 0.05
322 10 0.01
323 5 0.00
324 6 0.00
325 2 0.00
326 38 0.03
ACGTcount: A:0.37, C:0.09, G:0.08, T:0.46
Consensus pattern (315 bp):
GGCAAATAACTCAGTTTAATCAAATGGATTGCTTGCCTTTTATATTATTATTAATATTTGTCATT
GATGATATTTTCAAAAATTTTATATATATTAAATGAATTGCTTGCCTTTTATATTATTATTAATA
TTTGTCATTTTAAAAAATTTATACATTATTATACATTATAAAATATTAAAATATTATTTTATATA
TTTTATTATTAAATTTAAATAATTTTTATTATTAAATAATAATTTTTATTAAGCAATTCAATTCA
AATTAGTGAAACCTTATTTACAGCTAGACCCATACGGGTCAGATTTATTGGGCTA
Found at i:1861054 original size:19 final size:20
Alignment explanation
Indices: 1861030--1861069 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
1861020 TATTAATATA
1861030 TTTAAATAA-AATATTTATT
1 TTTAAATAATAATATTTATT
*
1861049 TTTAAATAATAATTTTTATT
1 TTTAAATAATAATATTTATT
1861069 T
1 T
1861070 AGACAATTCA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 9 0.47
20 10 0.53
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.57
Consensus pattern (20 bp):
TTTAAATAATAATATTTATT
Found at i:1861368 original size:633 final size:621
Alignment explanation
Indices: 1860196--1861681 Score: 1627
Period size: 633 Copynumber: 2.3 Consensus size: 621
1860186 CATACAGGTC
* * *
1860196 GGCAAATAACTAAGTTTAATCAAATGCATTGCTTGCCTTTTATATTATTATTAATATTTGTCATT
1 GGCAAATAACTCAGTTTAATCAAATGGATTGC-TGTCTTTTATATTATTATTAATATTTGTCA-T
* * * * *
1860261 TCATGATATTTTTTAAAATTTTATATATATTTTAAATGAATTACTTACTTTTTATATTAATATTT
64 TGATGATA-TTTTAAAAATTTTATATATA--TTAAATGAATTGCTTGCTTTTTATATTATTA-TT
* * * * * *
1860326 ATTATTTGATGA-ACTTTTTAAAATTTTATATATTATTAAAATATT-AAAATATTTATTTAATAT
125 AATATTTGATGATA-TTTTAAAAATTTTATACATTATTAAAAAATTAAAAATATTAATTTTATAT
* ** * * * *
1860389 A-TTTTATTATTAAATTTAAAT-ATTTTTATTATTATTAAATAATAATTTTTATTAAGCCGATTT
189 ATTTTTATTAATAAATTTAAATAAAATATATTATTATTAAATAATAATTTTTATTAAGACAATTC
* * * *
1860452 AGTTCAAATTAGTGAAACCTTATTAGACCTAAATGGGCTAGATTTATCGGCCGACAAAATAACTC
254 AATTCAAATTAGTGAAACCTTATTAGACCTAAA--GGCTAAACTTATCGGCCGACAAAACAACTC
* * *
1860517 AACTTAATCAAATGAATTCCTTGCCTTTTATTTTATTACTAATATCTGCCATTTGACGATATTTT
317 AACTTAATCAAAT--ATTCCTTGCCTTTTATTTTACTACTAATATCTACCATTTGACAATATTTT
* * * * *
1860582 AAAAAATTTTATGTATATTAAATGATAGTTTACCTTTTATATTATTATTAATCTCTATCATTTAA
380 AAAAAATTCTATATATATTAAATGATAGCTTACCTTTTATATTATTATTAATATATATCATTTAA
** * *
1860647 CCTTTTTTTTCAAAAATTTTATAGATTATTAAAATATTAAAATATTAATTTTATATATTTTATTA
445 CAATATTTTTCAAAAATTTTATACATTATTAAAATATTAAAATATTAATTTTATATATTTTATTA
* * * *
1860712 TTAAATTTAAATAATTTTTATTATTAAATAATAATATTTATCAAG-TCAGTTTAATTTAAATTAG
510 CTAAATTTAAAT-ATTTTTATTATTAAATAATAATATTTATCAAGCT-AATTCAATTCAAATTAG
* * * *
1860776 TGAAACCTTATATATAGCTAGACCCATACGGGTCAGATTTATTGGGCTA
573 TAAAACCTTATATACAGCTAAACCCATACGGATCAGATTTATTGGGCTA
* *
1860825 GGCAAATAACTCGGTTTAATCAAATGGATTGCGTGTCTTTTATATTATTATTAATATTTGTCAAT
1 GGCAAATAACTCAGTTTAATCAAATGGATTGC-TGTCTTTTATATTATTATTAATATTTGTCATT
*
1860890 GATGATATTTTCAAAAATTTTACATATATTAAATGAATTGCTTGCTTTTTATATTATTATTAATA
65 GATGATATTTT-AAAAATTTTATATATATTAAATGAATTGCTTGCTTTTTATATTATTATTAATA
* *
1860955 TTTG-TCGATATTTTAAAAAATTTATACATTATTAAAACATTAAAAATATTAATTTTATATATTT
129 TTTGAT-GATATTTTAAAAATTTTATACATTATTAAAAAATTAAAAATATTAATTTTATATATTT
* * *
1861019 TTATTAATATATTTAAATAAAATAT-TTATTTTTAAATAATAATTTTTATTTAGACAATTCAATT
193 TTATTAATAAATTTAAATAAAATATATTATTATTAAATAATAATTTTTATTAAGACAATTCAATT
* * * ** *
1861083 CAAATTAGTGAAACATTATTTACGGTTAGAACCATACAA-GTTAAACTTATTTGGTTGGGC-AAA
258 CAAATTAGTGAAAC----CTTA---TTAG-ACC-TA-AAGGCTAAACTTA-TCGG-CCGACAAAA
* * * * ** * * **
1861146 CAATTTAGCTTAATCAAAT-TTGCTTGCCTTTT-TTATTACTGTTAATATCTATCTTTTGGTAAT
311 CAACTCAACTTAATCAAATATTCCTTGCCTTTTATT-TTACTACTAATATCTACCATTTGACAAT
* * * * *
1861209 ATTTTCAAAAATTCTATATATATTAAATGAATTGCTTGCCTTTTATATTTATTATTGATATATGT
375 ATTTTAAAAAATTCTATATATATTAAATG-ATAGCTTACCTTTTATA-TTATTATTAATATATAT
*
1861274 CATTTGACAATATTTTT-AAAAATTTTATACATTATTAAAATATTAAAAATATT-ATTTTATATA
438 CATTTAACAATATTTTTCAAAAATTTTATACATTATTAAAATATT-AAAATATTAATTTTATATA
* **
1861337 TTTTTATTACTAAATTTAAAT-TCTTTTATTATTAAATAATAATTTTTATGGAGCTAATTCAATT
502 -TTTTATTACTAAATTTAAATAT-TTTTATTATTAAATAATAATATTTATCAAGCTAATTCAATT
* * *
1861401 CAAATTAGTAAAATCTTATTTACAGCTAAACCCATACGGATCAGCTTTATTGGGCTA
565 CAAATTAGTAAAACCTTATATACAGCTAAACCCATACGGATCAGATTTATTGGGCTA
*
1861458 GGCAAATAACTCAATTTAATCAAAT-GACTTGCTAGTCTTTTATATTATTATTAATATTTGTCAT
1 GGCAAATAACTCAGTTTAATCAAATGGA-TTGCT-GTCTTTTATATTATTATTAATATTTGTCAT
** * * *
1861522 TGACAATATTGCTTGAAAA-TTTATATATATTAAATGAATTGCATGCCTTTTATATTATTATTAA
64 TGATGATATT--TTAAAAATTTTATATATATTAAATGAATTGCTTGCTTTTTATATTATTATTAA
* *
1861586 TGTCAGCCATTTGATGATATTTTCAAAAATTTTATACATTATTAAAATAATAAAAAATAGTAATT
127 --T-----ATTTGATGATATTTT-AAAAATTTTATACATTATTAAAA-AATTAAAAATATTAATT
*
1861651 TTAAATATTTTTATTAATAAATTTAAATAAA
183 TTATATATTTTTATTAATAAATTTAAATAAA
1861682 TTTTGTCGAG
Statistics
Matches: 722, Mismatches: 96, Indels: 65
0.82 0.11 0.07
Matches are distributed among these distances:
624 1 0.00
625 38 0.05
626 46 0.06
627 69 0.10
628 24 0.03
629 58 0.08
631 5 0.01
632 61 0.08
633 239 0.33
634 69 0.10
635 27 0.04
636 4 0.01
637 2 0.00
640 13 0.02
641 23 0.03
642 43 0.06
ACGTcount: A:0.37, C:0.09, G:0.08, T:0.46
Consensus pattern (621 bp):
GGCAAATAACTCAGTTTAATCAAATGGATTGCTGTCTTTTATATTATTATTAATATTTGTCATTG
ATGATATTTTAAAAATTTTATATATATTAAATGAATTGCTTGCTTTTTATATTATTATTAATATT
TGATGATATTTTAAAAATTTTATACATTATTAAAAAATTAAAAATATTAATTTTATATATTTTTA
TTAATAAATTTAAATAAAATATATTATTATTAAATAATAATTTTTATTAAGACAATTCAATTCAA
ATTAGTGAAACCTTATTAGACCTAAAGGCTAAACTTATCGGCCGACAAAACAACTCAACTTAATC
AAATATTCCTTGCCTTTTATTTTACTACTAATATCTACCATTTGACAATATTTTAAAAAATTCTA
TATATATTAAATGATAGCTTACCTTTTATATTATTATTAATATATATCATTTAACAATATTTTTC
AAAAATTTTATACATTATTAAAATATTAAAATATTAATTTTATATATTTTATTACTAAATTTAAA
TATTTTTATTATTAAATAATAATATTTATCAAGCTAATTCAATTCAAATTAGTAAAACCTTATAT
ACAGCTAAACCCATACGGATCAGATTTATTGGGCTA
Found at i:1861887 original size:77 final size:76
Alignment explanation
Indices: 1861783--1861934 Score: 214
Period size: 77 Copynumber: 2.0 Consensus size: 76
1861773 CTTAATCAAA
* * *
1861783 TGAATTGCTTGCCTTTGATATTGTTATTAATATTTGTCATTTGATGATATTTTCAAAAATTTTAT
1 TGAATTGCTTGCCTTTGATATTATTATTAATATCTATCATTTGATGATATTTTCAAAAATTTTAT
*
1861848 ATATATATTAAG
66 AAAT-TATTAAG
* ** * *
1861860 TGAATTGCTTGTCTTTTTTATTATTATTAATATCTATCATTTGATGATATTTTTAAAGATTTTAT
1 TGAATTGCTTGCCTTTGATATTATTATTAATATCTATCATTTGATGATATTTTCAAAAATTTTAT
1861925 AAATTATTAA
66 AAATTATTAA
1861935 AATATTAAAA
Statistics
Matches: 66, Mismatches: 9, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
76 6 0.09
77 60 0.91
ACGTcount: A:0.32, C:0.06, G:0.10, T:0.53
Consensus pattern (76 bp):
TGAATTGCTTGCCTTTGATATTATTATTAATATCTATCATTTGATGATATTTTCAAAAATTTTAT
AAATTATTAAG
Found at i:1864406 original size:17 final size:17
Alignment explanation
Indices: 1864384--1864432 Score: 53
Period size: 17 Copynumber: 2.8 Consensus size: 17
1864374 ATAATTTAAA
* *
1864384 ATTTTTTATTGTATTTC
1 ATTTTTTATTGCATTAC
* *
1864401 ATTTTTATTTTGCATTAG
1 ATTTTT-TATTGCATTAC
1864419 ATTTTTTATTGCAT
1 ATTTTTTATTGCAT
1864433 ATAATATTCT
Statistics
Matches: 26, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
17 13 0.50
18 13 0.50
ACGTcount: A:0.20, C:0.06, G:0.08, T:0.65
Consensus pattern (17 bp):
ATTTTTTATTGCATTAC
Found at i:1864422 original size:18 final size:18
Alignment explanation
Indices: 1864401--1864454 Score: 51
Period size: 18 Copynumber: 3.0 Consensus size: 18
1864391 ATTGTATTTC
1864401 ATTTTTATTTTGCATTAG
1 ATTTTTATTTTGCATTAG
*
1864419 ATTTTT-TATTGCATATA-
1 ATTTTTATTTTGCAT-TAG
1864436 ATATTCTTATTTTG-ATTAG
1 AT-TT-TTATTTTGCATTAG
1864455 TTTATAAAGT
Statistics
Matches: 29, Mismatches: 2, Indels: 9
0.73 0.05 0.22
Matches are distributed among these distances:
17 9 0.31
18 12 0.41
19 4 0.14
20 4 0.14
ACGTcount: A:0.26, C:0.06, G:0.09, T:0.59
Consensus pattern (18 bp):
ATTTTTATTTTGCATTAG
Found at i:1864886 original size:41 final size:41
Alignment explanation
Indices: 1864829--1864923 Score: 118
Period size: 41 Copynumber: 2.3 Consensus size: 41
1864819 TATTACACGT
* * * *
1864829 TTATGACATAAAAATTTCGTGTCATAAATATGTCAACACAA
1 TTATGACACAAAAATTTCATGTCATAAACATATCAACACAA
* * *
1864870 TTATGACACGAAAATTTCATGTCATAAACATATCGACACGA
1 TTATGACACAAAAATTTCATGTCATAAACATATCAACACAA
*
1864911 TTATGACATAAAA
1 TTATGACACAAAA
1864924 CACAATTACA
Statistics
Matches: 45, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
41 45 1.00
ACGTcount: A:0.44, C:0.16, G:0.11, T:0.29
Consensus pattern (41 bp):
TTATGACACAAAAATTTCATGTCATAAACATATCAACACAA
Found at i:1865708 original size:24 final size:24
Alignment explanation
Indices: 1865673--1865718 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
1865663 ATATTTAAAA
* *
1865673 TTAAAATATTAAATATTTTTTATT
1 TTAAAATATTAAAAAGTTTTTATT
*
1865697 TTAAAATTTTAAAAAGTTTTTA
1 TTAAAATATTAAAAAGTTTTTA
1865719 ACTAAAATCA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.54
Consensus pattern (24 bp):
TTAAAATATTAAAAAGTTTTTATT
Found at i:1866951 original size:20 final size:20
Alignment explanation
Indices: 1866926--1866963 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
1866916 ATAATTAAAT
1866926 TTAAATAAAAATTTTTATTA
1 TTAAATAAAAATTTTTATTA
*
1866946 TTAAATAATAATTTTTAT
1 TTAAATAAAAATTTTTAT
1866964 ACATTCGGTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (20 bp):
TTAAATAAAAATTTTTATTA
Found at i:1868127 original size:197 final size:199
Alignment explanation
Indices: 1867846--1868246 Score: 743
Period size: 197 Copynumber: 2.0 Consensus size: 199
1867836 AAAAATATTA
* * *
1867846 ATTTTATATATTTTTCTAATTAAAATTAAATAAAATTATTTTATTATTGAATAATAATTCTTGTC
1 ATTTTATATATATTTCTAACTAAAATTAAATAAAATTATTTTATTATTGAATAATAATTCTTATC
*
1867911 AAGTTAGTTAAATGTCAATTTATCAAAATCTTA-TTAAAACCTAATCAATATTGATTGGACCTAT
66 AAGTTAGTTAAATGTCAATTTATCAAAATCTTATTTAAAACCTAATCAATATTGATTGAACCTAT
1867975 AACGTGAC-ATAGATAATGAATAAATAGGACTTAACATCATTTCAATTGCCATTACTAAAGTAAT
131 AACGTGACTATAGATAATGAATAAATAGGACTTAACATCATTTCAATTGCCATTACTAAAGTAAT
1868039 TAGT
196 TAGT
1868043 ATTTTATATATATTTCTAACTAAAATTAAATAAAATTATTTTATTATTGAATAATAATTCTTATC
1 ATTTTATATATATTTCTAACTAAAATTAAATAAAATTATTTTATTATTGAATAATAATTCTTATC
1868108 AAGTTAGTTAAATGTCAATTTATCAAAATCTTATTTAAAACCTAATCAATATTGATTGAACCTAT
66 AAGTTAGTTAAATGTCAATTTATCAAAATCTTATTTAAAACCTAATCAATATTGATTGAACCTAT
*
1868173 AACGTGACTATAGATAATGAATAAATAGGAGTTAACATCATTTCAATTGCCATTACTAAAGTAAT
131 AACGTGACTATAGATAATGAATAAATAGGACTTAACATCATTTCAATTGCCATTACTAAAGTAAT
1868238 TAGT
196 TAGT
1868242 ATTTT
1 ATTTT
1868247 TTACATTAAA
Statistics
Matches: 197, Mismatches: 5, Indels: 2
0.97 0.02 0.01
Matches are distributed among these distances:
197 95 0.48
198 38 0.19
199 64 0.32
ACGTcount: A:0.41, C:0.10, G:0.08, T:0.40
Consensus pattern (199 bp):
ATTTTATATATATTTCTAACTAAAATTAAATAAAATTATTTTATTATTGAATAATAATTCTTATC
AAGTTAGTTAAATGTCAATTTATCAAAATCTTATTTAAAACCTAATCAATATTGATTGAACCTAT
AACGTGACTATAGATAATGAATAAATAGGACTTAACATCATTTCAATTGCCATTACTAAAGTAAT
TAGT
Found at i:1869599 original size:23 final size:23
Alignment explanation
Indices: 1869573--1869619 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 23
1869563 TTAAAATTTT
* *
1869573 AATTTTATAAATTTTTATAATTA
1 AATTTAATAAAATTTTATAATTA
*
1869596 AATTTAATAAAATTTTATTATTA
1 AATTTAATAAAATTTTATAATTA
1869619 A
1 A
1869620 GTAATAATTA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (23 bp):
AATTTAATAAAATTTTATAATTA
Found at i:1870649 original size:20 final size:20
Alignment explanation
Indices: 1870626--1870674 Score: 62
Period size: 20 Copynumber: 2.5 Consensus size: 20
1870616 TTTTAAAATA
*
1870626 TTAAAAATAATAATTTTTAT
1 TTAAAAATAATAATTTTTAC
* *
1870646 TTAAAACTATTAATTTTTAC
1 TTAAAAATAATAATTTTTAC
*
1870666 TTAATAATA
1 TTAAAAATA
1870675 TAAAAAATTT
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.47, C:0.04, G:0.00, T:0.49
Consensus pattern (20 bp):
TTAAAAATAATAATTTTTAC
Found at i:1871071 original size:23 final size:25
Alignment explanation
Indices: 1871045--1871096 Score: 60
Period size: 23 Copynumber: 2.2 Consensus size: 25
1871035 ATTTATAAAA
1871045 TTATTAAATT-AA-TT-AATATATTT
1 TTATTAAATTAAATTTAAATA-ATTT
1871068 TTA-T-AATTAAATTTAAATAATTT
1 TTATTAAATTAAATTTAAATAATTT
1871091 TTATTA
1 TTATTA
1871097 TAAATAATAA
Statistics
Matches: 24, Mismatches: 0, Indels: 8
0.75 0.00 0.25
Matches are distributed among these distances:
21 4 0.17
22 3 0.12
23 12 0.50
24 5 0.21
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (25 bp):
TTATTAAATTAAATTTAAATAATTT
Found at i:1871345 original size:11 final size:11
Alignment explanation
Indices: 1871329--1871358 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
1871319 TAGAGCATTT
1871329 TAATTAAAATA
1 TAATTAAAATA
1871340 TAATTAAAATA
1 TAATTAAAATA
*
1871351 TAAATAAA
1 TAATTAAA
1871359 TTATCAAAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (11 bp):
TAATTAAAATA
Found at i:1872408 original size:29 final size:30
Alignment explanation
Indices: 1872363--1872419 Score: 82
Period size: 29 Copynumber: 1.9 Consensus size: 30
1872353 TTATAAAGTC
1872363 AAAATAGTAATAATTTAATTAA-TTATTTGA
1 AAAATAGTAATAATTTAA-TAATTTATTTGA
*
1872393 AAAATA-TAATATTTTAATAATTTATTT
1 AAAATAGTAATAATTTAATAATTTATTT
1872420 ATATTTTAAT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
28 3 0.12
29 16 0.64
30 6 0.24
ACGTcount: A:0.49, C:0.00, G:0.04, T:0.47
Consensus pattern (30 bp):
AAAATAGTAATAATTTAATAATTTATTTGA
Found at i:1872658 original size:3 final size:3
Alignment explanation
Indices: 1872650--1872698 Score: 82
Period size: 3 Copynumber: 16.3 Consensus size: 3
1872640 TACTTGTCCT
1872650 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TATA TTA TT-
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T-TA TTA TTA
1872695 TTA T
1 TTA T
1872699 CGATATTTTC
Statistics
Matches: 44, Mismatches: 0, Indels: 4
0.92 0.00 0.08
Matches are distributed among these distances:
2 2 0.05
3 39 0.89
4 3 0.07
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:1872704 original size:16 final size:16
Alignment explanation
Indices: 1872657--1872704 Score: 55
Period size: 15 Copynumber: 3.1 Consensus size: 16
1872647 CCTTTATTAT
*
1872657 TATTATTATTATTAT-
1 TATTATTATTATGATA
*
1872672 TATTATTATTATTATA
1 TATTATTATTATGATA
1872688 TATTATT-TTATCGATA
1 TATTATTATTAT-GATA
1872704 T
1 T
1872705 TTTCAAAACT
Statistics
Matches: 30, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
15 19 0.63
16 11 0.37
ACGTcount: A:0.33, C:0.02, G:0.02, T:0.62
Consensus pattern (16 bp):
TATTATTATTATGATA
Found at i:1874557 original size:28 final size:28
Alignment explanation
Indices: 1874503--1874557 Score: 67
Period size: 28 Copynumber: 2.0 Consensus size: 28
1874493 TAACATTATT
* *
1874503 TAAATATAAAAATATTAATTTTTATAAG
1 TAAATAAAAAAATATTAATTTTAATAAG
*
1874531 TAAATAAAAAAAT-TTCATTATTAATAA
1 TAAATAAAAAAATATTAATT-TTAATAA
1874558 TTATTTTTGT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
27 5 0.22
28 18 0.78
ACGTcount: A:0.56, C:0.02, G:0.02, T:0.40
Consensus pattern (28 bp):
TAAATAAAAAAATATTAATTTTAATAAG
Found at i:1880266 original size:28 final size:25
Alignment explanation
Indices: 1880228--1880284 Score: 69
Period size: 25 Copynumber: 2.2 Consensus size: 25
1880218 ATAAGATTAT
1880228 TTAAATATAAAAAATATTATTTTTATAA
1 TTAAATATAAAAAA-A--ATTTTTATAA
* *
1880256 TTAAATTTAAATAAAATTTTTATAA
1 TTAAATATAAAAAAAATTTTTATAA
1880281 TTAA
1 TTAA
1880285 GTGATAATTT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
25 14 0.52
27 1 0.04
28 12 0.44
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (25 bp):
TTAAATATAAAAAAAATTTTTATAA
Found at i:1880979 original size:18 final size:18
Alignment explanation
Indices: 1880942--1880979 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
1880932 ATATTATTAA
* *
1880942 AAATATTAATTTTTATTT
1 AAATATTAATTGTTACTT
1880960 AAATATTAATTGTTACTT
1 AAATATTAATTGTTACTT
1880978 AA
1 AA
1880980 TAATAATAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.42, C:0.03, G:0.03, T:0.53
Consensus pattern (18 bp):
AAATATTAATTGTTACTT
Found at i:1881411 original size:22 final size:23
Alignment explanation
Indices: 1881386--1881428 Score: 61
Period size: 22 Copynumber: 1.9 Consensus size: 23
1881376 AAGATTATTA
* *
1881386 AATTAATTTTATAT-ATTTTTAT
1 AATTAAATTTAAATAATTTTTAT
1881408 AATTAAATTTAAATAATTTTT
1 AATTAAATTTAAATAATTTTT
1881429 GTTATGAAAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 12 0.67
23 6 0.33
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (23 bp):
AATTAAATTTAAATAATTTTTAT
Found at i:1881760 original size:24 final size:25
Alignment explanation
Indices: 1881733--1881786 Score: 67
Period size: 24 Copynumber: 2.2 Consensus size: 25
1881723 ATTTATAAAA
* *
1881733 TTATTAATTTAATTT-TATATATTT
1 TTATTAATTAAATTTAAATATATTT
*
1881757 TTA-TAATTAAATTTAAATATTTTT
1 TTATTAATTAAATTTAAATATATTT
1881781 TTATTA
1 TTATTA
1881787 TGAAGTAAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
23 10 0.40
24 13 0.52
25 2 0.08
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (25 bp):
TTATTAATTAAATTTAAATATATTT
Found at i:1882014 original size:355 final size:354
Alignment explanation
Indices: 1881362--1882118 Score: 814
Period size: 355 Copynumber: 2.1 Consensus size: 354
1881352 TTGAAAGTTT
*
1881362 ATTTTATTATTTATAAGATTATTAAATTAATTTTATATATTTTTATAATTAAATTTAAATAATTT
1 ATTTTATTATTTATAAAATTATTAAATTAATTTTATATATTTTTATAATTAAATTTAAATAATTT
* * * ** * *
1881427 TTGTTATGAAATAATAATTTTTGTTGAGTCCATTCAATCCAAATTTGTGAAAACTTTATCCAAAG
66 TTATTATGAAATAAAAATTCTTGTCAAGTCCATTCAATCCAAATTTATGAAAACCTTATCCAAAG
* *** *
1881492 CTTAACTATACTAACTAAAACTATCAAACAAGACAAAAAAACTACCTTTGTTAAATGAAATGCAT
131 CTTAACTATACTAACTAAAACCATCAAACAAGACAAAAAAACTACCTCACTCAAATGAAATGCAT
* *
1881557 ACATTTTATGGTATTATTAACATCGGCCATTTGTCAATATTGCAAAAAAATTCAAATATTTTAAT
196 ACATTTTATAGTATTATTAACATCGGCCATTTGTCAATATTGCAAAAAAATTCAAATATTTTAAA
*
1881622 TAATAGGACATCCACTTCTTCTATGATAAAGAATAATAAGTTTT-TAGAAAATAAGAAAAAA-AA
261 TAATAGGACATCCACTTCTTCTATGATAAAAAATAATAAGTTTTCTA-AAAATAA-AAAAAATAA
1881685 GT-AAAAGAAAAAAAATTAGTTCGAAACTTC
324 GTGAAAAGAAAAAAAATTAGTTCGAAACTTC
* *
1881715 ATTTTATTATTTATAAAATTATTAATTTAATTTTATATATTTTTATAATTAAATTTAAATATTTT
1 ATTTTATTATTTATAAAATTATTAAATTAATTTTATATATTTTTATAATTAAATTTAAATA-ATT
* * * * *
1881780 TTTATTATGAAGTAAAAATTCTTGTCAAG-CTAGTTTAATTCAAATTTATGAAAACCTTATCTAA
65 TTTATTATGAAATAAAAATTCTTGTCAAGTCCA-TTCAATCCAAATTTATGAAAACCTTATCCAA
* * * * * * * **
1881844 CGCTTGACTCGTATTGACTGAAACCATCAAACCAGA-TGAAAAACATGA-CTCACTCAAATGAAA
129 AGCTTAACT-ATACTAACTAAAACCATCAAACAAGACAAAAAAAC-T-ACCTCACTCAAATGAAA
* * * * * * * * *
1881907 TGCTTGCGTTTTATATTATTATTAATATC-TCTTATTTGTCAATATTTCAAAAAATTTCAAATAT
191 TGCATACATTTTATAGTATTATTAACATCGGC-CATTTGTCAATATTGCAAAAAAATTCAAATAT
** * *
1881971 TTTAAATGGTAGGACATCTACTT-TGT-TAGTGATAAAAAATAATAATTTTTCTAAAAATAAAAA
255 TTTAAATAATAGGACATCCACTTCT-TCTA-TGATAAAAAATAATAAGTTTTCTAAAAATAAAAA
* * * * *
1882034 AAATAAGTGAAAAAAAGAAGCAAAATGA-TCCGAAAGTCC
318 AAATAAGTGAAAAGAA-AA--AAAATTAGTTCGAAACTTC
* * ** * * *
1882073 ATTTTGTTATTCATATGATTGTTAAATTAATTTTATGTATGTTTAT
1 ATTTTATTATTTATAAAATTATTAAATTAATTTTATATATTTTTAT
1882119 GATAGGGATT
Statistics
Matches: 332, Mismatches: 58, Indels: 23
0.80 0.14 0.06
Matches are distributed among these distances:
353 61 0.18
354 74 0.22
355 134 0.40
356 9 0.03
357 2 0.01
358 46 0.14
359 6 0.02
ACGTcount: A:0.42, C:0.10, G:0.09, T:0.39
Consensus pattern (354 bp):
ATTTTATTATTTATAAAATTATTAAATTAATTTTATATATTTTTATAATTAAATTTAAATAATTT
TTATTATGAAATAAAAATTCTTGTCAAGTCCATTCAATCCAAATTTATGAAAACCTTATCCAAAG
CTTAACTATACTAACTAAAACCATCAAACAAGACAAAAAAACTACCTCACTCAAATGAAATGCAT
ACATTTTATAGTATTATTAACATCGGCCATTTGTCAATATTGCAAAAAAATTCAAATATTTTAAA
TAATAGGACATCCACTTCTTCTATGATAAAAAATAATAAGTTTTCTAAAAATAAAAAAAATAAGT
GAAAAGAAAAAAAATTAGTTCGAAACTTC
Found at i:1884545 original size:54 final size:52
Alignment explanation
Indices: 1884462--1884661 Score: 161
Period size: 54 Copynumber: 3.7 Consensus size: 52
1884452 ATGATTGTAG
* * * *
1884462 GCTAGTTCCAACTAATTGGCCCATTTCAAGAGTTAAGCCTAATAATATCGATAA
1 GCTAGTTTCGACTAATT-ACCCATTTCAAGAGTTAAGCCTAATGAT-TCGATAA
* * * * *
1884516 ACTAGTTTCGACTAATTCATCCATTTCAAGTGTTAAG-CTCAATGATTCCGGTAG
1 GCTAGTTTCGACTAATT-ACCCATTTCAAGAGTTAAGCCT-AATGATT-CGATAA
* * * * *
1884570 GCTAGTTTTGGCTAATTAGCCTATTTCAAGAGTTAAGCCCAATGTTGTCAGA-AA
1 GCTAGTTTCGACTAATTA-CCCATTTCAAGAGTTAAGCCTAATGAT-TC-GATAA
* *
1884624 GCTAGTTTCGACTAATTGACCCATTTTAAGAATTAAGC
1 GCTAGTTTCGACTAATT-ACCCATTTCAAGAGTTAAGC
1884662 TTTGTCGCAA
Statistics
Matches: 114, Mismatches: 25, Indels: 14
0.75 0.16 0.09
Matches are distributed among these distances:
53 4 0.04
54 106 0.93
55 4 0.04
ACGTcount: A:0.31, C:0.19, G:0.17, T:0.33
Consensus pattern (52 bp):
GCTAGTTTCGACTAATTACCCATTTCAAGAGTTAAGCCTAATGATTCGATAA
Found at i:1888002 original size:13 final size:13
Alignment explanation
Indices: 1887984--1888008 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1887974 ATTACTCAAA
1887984 TGTATCGATACAT
1 TGTATCGATACAT
1887997 TGTATCGATACA
1 TGTATCGATACA
1888009 CTGATCTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1896435 original size:27 final size:27
Alignment explanation
Indices: 1896405--1896769 Score: 271
Period size: 27 Copynumber: 12.0 Consensus size: 27
1896395 CACTCTTTTT
*
1896405 CCCTTTTAAGCCCACAACTCCGTGGCA
1 CCCTTTTAAGTCCACAACTCCGTGGCA
*
1896432 CCCTTTTAAGCCCACAACTCCGTGGCA
1 CCCTTTTAAGTCCACAACTCCGTGGCA
*
1896459 CCTTTCTCTTTTAAGTCCACAACTCCGTGGTA
1 -C---C-CTTTTAAGTCCACAACTCCGTGGCA
1896491 CCTTGTTCCTTTTAAGTCCACAACTCCGTGGCA
1 -C-----CCTTTTAAGTCCACAACTCCGTGGCA
* *
1896524 CCCTTTTAAGCCCACAACTCTGTGGCA
1 CCCTTTTAAGTCCACAACTCCGTGGCA
*
1896551 CCCTTTTAAGCCCACAACTCCGTGGCA
1 CCCTTTTAAGTCCACAACTCCGTGGCA
* *
1896578 CCTTTCTTTTTTAAGTCCAAAACTCCGTGGTA
1 CC---C--TTTTAAGTCCACAACTCCGTGGCA
*
1896610 CCTTGTTCCTTTTAAGTCCACAACTCCGTTGCA
1 -C-----CCTTTTAAGTCCACAACTCCGTGGCA
1896643 TTCTTTTTCCTTTTAAGTCCACAACTCCGTGGCA
1 --C-----CCTTTTAAGTCCACAACTCCGTGGCA
*
1896677 CCCTTTTAAGTCCACACCTCCGTGGCA
1 CCCTTTTAAGTCCACAACTCCGTGGCA
1896704 TCTTTTTCCTTTTAAGTCCACAACTCCGTGGCA
1 -C-----CCTTTTAAGTCCACAACTCCGTGGCA
1896737 CCTTGTTCCTTTTAAGTCCACAACTCCGTGGCA
1 -C-----CCTTTTAAGTCCACAACTCCGTGGCA
1896770 TCTTTCTCCT
Statistics
Matches: 293, Mismatches: 20, Indels: 44
0.82 0.06 0.12
Matches are distributed among these distances:
27 104 0.35
28 2 0.01
30 1 0.00
31 1 0.00
32 48 0.16
33 102 0.35
34 33 0.11
35 1 0.00
38 1 0.00
ACGTcount: A:0.20, C:0.34, G:0.14, T:0.32
Consensus pattern (27 bp):
CCCTTTTAAGTCCACAACTCCGTGGCA
Found at i:1896508 original size:33 final size:32
Alignment explanation
Indices: 1896347--1896807 Score: 462
Period size: 33 Copynumber: 14.6 Consensus size: 32
1896337 TTTTCAAAGC
*
1896347 CCACAACTCCGTGGCACCTTTTTCTTTCTAAAGT
1 CCACAACTCCGTGGCACCTTTTCCTTT-T-AAGT
* *
1896381 CCACAACTGCGTGGCACTCTTTTTCCCTTTTAAGC
1 CCACAACTCCGTGGCAC-C-TTTT-CCTTTTAAGT
*
1896416 CCACAACTCCGTGGCA-C----CCTTTTAAGC
1 CCACAACTCCGTGGCACCTTTTCCTTTTAAGT
1896443 CCACAACTCCGTGGCACC-TTTCTCTTTTAAGT
1 CCACAACTCCGTGGCACCTTTTC-CTTTTAAGT
*
1896475 CCACAACTCCGTGGTACCTTGTTCCTTTTAAGT
1 CCACAACTCCGTGGCACCTT-TTCCTTTTAAGT
*
1896508 CCACAACTCCGTGGCA-C----CCTTTTAAGC
1 CCACAACTCCGTGGCACCTTTTCCTTTTAAGT
* *
1896535 CCACAACTCTGTGGCA-C----CCTTTTAAGC
1 CCACAACTCCGTGGCACCTTTTCCTTTTAAGT
*
1896562 CCACAACTCCGTGGCACC-TTTCTTTTTTAAGT
1 CCACAACTCCGTGGCACCTTTTC-CTTTTAAGT
* *
1896594 CCAAAACTCCGTGGTACCTTGTTCCTTTTAAGT
1 CCACAACTCCGTGGCACCTT-TTCCTTTTAAGT
* *
1896627 CCACAACTCCGTTGCATTCTTTTTCCTTTTAAGT
1 CCACAACTCCGTGGCA--CCTTTTCCTTTTAAGT
1896661 CCACAACTCCGTGGCA-C----CCTTTTAAGT
1 CCACAACTCCGTGGCACCTTTTCCTTTTAAGT
* *
1896688 CCACACCTCCGTGGCATCTTTTTCCTTTTAAGT
1 CCACAACTCCGTGGCA-CCTTTTCCTTTTAAGT
1896721 CCACAACTCCGTGGCACCTTGTTCCTTTTAAGT
1 CCACAACTCCGTGGCACCTT-TTCCTTTTAAGT
* *
1896754 CCACAACTCCGTGGCATCTTTCTCCTTTTAAGC
1 CCACAACTCCGTGGCACCTTT-TCCTTTTAAGT
* *
1896787 CCACAAGTCAGTGGCAACCTT
1 CCACAACTCCGTGGC-ACCTT
1896808 CAAAAGCACA
Statistics
Matches: 369, Mismatches: 30, Indels: 56
0.81 0.07 0.12
Matches are distributed among these distances:
27 101 0.27
28 2 0.01
31 2 0.01
32 53 0.14
33 127 0.34
34 53 0.14
35 22 0.06
36 5 0.01
37 4 0.01
ACGTcount: A:0.20, C:0.34, G:0.14, T:0.33
Consensus pattern (32 bp):
CCACAACTCCGTGGCACCTTTTCCTTTTAAGT
Found at i:1896616 original size:119 final size:120
Alignment explanation
Indices: 1896404--1896807 Score: 569
Period size: 119 Copynumber: 3.3 Consensus size: 120
1896394 GCACTCTTTT
*
1896404 TCCCTTTTAAGCCCACAACTCCGTGGCACCCTTTTAAGCCCACAACTCCGTGGCACCTTTCTCTT
1 TCCCTTTTAAGCCCACAACTCCGTGGCACCCTTTTAAGCCCACAACTCCGTGGCACCTTTCTTTT
1896469 TTAAGTCCACAACTCCGTGGTACCTTGTTCCTTTTAAGTCCACAACTCCGTGGCA
66 TTAAGTCCACAACTCCGTGGTACCTTGTTCCTTTTAAGTCCACAACTCCGTGGCA
*
1896524 -CCCTTTTAAGCCCACAACTCTGTGGCACCCTTTTAAGCCCACAACTCCGTGGCACCTTTCTTTT
1 TCCCTTTTAAGCCCACAACTCCGTGGCACCCTTTTAAGCCCACAACTCCGTGGCACCTTTCTTTT
* *
1896588 TTAAGTCCAAAACTCCGTGGTACCTTGTTCCTTTTAAGTCCACAACTCCGTTGCA
66 TTAAGTCCACAACTCCGTGGTACCTTGTTCCTTTTAAGTCCACAACTCCGTGGCA
* * * *
1896643 TTCTTTTTCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACACCTCCGTGGCATCTT
1 -TC-----CCTTTTAAGCCCACAACTCCGTGGCACCCTTTTAAGCCCACAACTCCGTGGCACCTT
*
1896708 T-TTCCTTTTAAGTCCACAACTCCGTGGCACCTTGTTCCTTTTAAGTCCACAACTCCGTGGCA
60 TCTT--TTTTAAGTCCACAACTCCGTGGTACCTTGTTCCTTTTAAGTCCACAACTCCGTGGCA
* * *
1896770 TCTTTCTCCTTTTAAGCCCACAAGTCAGTGGCAACCTT
1 ----TC-CCTTTTAAGCCCACAACTCCGTGGCACCCTT
1896808 CAAAAGCACA
Statistics
Matches: 256, Mismatches: 16, Indels: 18
0.88 0.06 0.06
Matches are distributed among these distances:
119 115 0.45
121 1 0.00
125 2 0.01
126 81 0.32
127 54 0.21
130 3 0.01
ACGTcount: A:0.20, C:0.34, G:0.14, T:0.33
Consensus pattern (120 bp):
TCCCTTTTAAGCCCACAACTCCGTGGCACCCTTTTAAGCCCACAACTCCGTGGCACCTTTCTTTT
TTAAGTCCACAACTCCGTGGTACCTTGTTCCTTTTAAGTCCACAACTCCGTGGCA
Found at i:1896691 original size:213 final size:213
Alignment explanation
Indices: 1896343--1896738 Score: 547
Period size: 213 Copynumber: 1.8 Consensus size: 213
1896333 TATCTTTTCA
* * *
1896343 AAGCCCACAACTCCGTGGCACCTTTTTCTTTCTAAAGTCCACAACTGCGTGGCACTCTTTTTCCC
1 AAGCCCACAACTCCGTGGCACCTTTTTCTTTCTAAAGTCCAAAACTCCGTGGCACTCTTGTTCCC
1896408 TTTTAAGCCCACAACTCCGTGGCACCCTTTTAAGCCCACAACTCCGTGGCACCTTTCTCTTTTAA
66 TTTTAAGCCCACAACTCCGTGGCACCCTTTTAAGCCCACAACTCCGTGGCACC--TCTCTTTTAA
*
1896473 GTCCACAACTCCGTGGTACCTTGTTCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGCCCA
129 GTCCACAACTCCGTGGCACCTTGTTCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGCCCA
1896538 CAACTCTGTGGCACCCTTTT
194 CAACTCTGTGGCACCCTTTT
*
1896558 AAGCCCACAACTCCGTGGCACCTTTCTT-TTT-T-AAGTCCAAAACTCCGTGGTAC-CTTGTT-C
1 AAGCCCACAACTCCGTGGCACCTTT-TTCTTTCTAAAGTCCAAAACTCCGTGGCACTCTTGTTCC
* * *
1896618 CTTTTAAGTCCACAACTCCGTTGCATTCTTTTTCCTTTTAAGTCCACAACTCCGTGGCA-C-C-C
65 CTTTTAAGCCCACAACTCCGTGGCA--C-----CCTTTTAAGCCCACAACTCCGTGGCACCTCTC
* * *
1896680 TTTTAAGTCCACACCTCCGTGGCATCTTTTTCCTTTTAAGTCCACAACTCCGTGGCACC
123 TTTTAAGTCCACAACTCCGTGGCACCTTGTTCCTTTTAAGTCCACAACTCCGTGGCACC
1896739 TTGTTCCTTT
Statistics
Matches: 162, Mismatches: 11, Indels: 18
0.85 0.06 0.09
Matches are distributed among these distances:
211 24 0.15
212 5 0.03
213 75 0.46
214 2 0.01
215 28 0.17
216 2 0.01
217 1 0.01
218 25 0.15
ACGTcount: A:0.20, C:0.34, G:0.14, T:0.32
Consensus pattern (213 bp):
AAGCCCACAACTCCGTGGCACCTTTTTCTTTCTAAAGTCCAAAACTCCGTGGCACTCTTGTTCCC
TTTTAAGCCCACAACTCCGTGGCACCCTTTTAAGCCCACAACTCCGTGGCACCTCTCTTTTAAGT
CCACAACTCCGTGGCACCTTGTTCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGCCCACA
ACTCTGTGGCACCCTTTT
Found at i:1896716 original size:94 final size:95
Alignment explanation
Indices: 1896347--1896769 Score: 352
Period size: 92 Copynumber: 4.5 Consensus size: 95
1896337 TTTTCAAAGC
* * *
1896347 CCACAACTCCGTGGCACCTT-TTTCTTTCTAAAGTCCACAACTGCGTGGCACTCTTTTTCCCTTT
1 CCACAACTCCGTGGCACCTTGTTCCTTT-T-AAGTCCACAACTCCGTGGCAC-C----T-CTTTT
* * *
1896411 TAAGCCCACAACTCCGTGGCA-C-----CCTTTTAAGC
58 TAAGTCCAAAACTCCGTGGCACCTTGTTCCTTTTAAGT
* *
1896443 CCACAACTCCGTGGCACC-T-TTCTCTTTTAAGTCCACAACTCCGTGGTACCTTGTTCCTTTTAA
1 CCACAACTCCGTGGCACCTTGTTC-CTTTTAAGTCCACAACTCCGTGGCACC----TCTTTTTAA
* *
1896506 GTCCACAACTCCGTGGCA-C-----CCTTTTAAGC
61 GTCCAAAACTCCGTGGCACCTTGTTCCTTTTAAGT
* *
1896535 CCACAACTCTGTGGCA-C-----CCTTTTAAGCCCACAACTCCGTGGCACCTTTCTTTTTTAAGT
1 CCACAACTCCGTGGCACCTTGTTCCTTTTAAGTCCACAACTCCGTGGCACC--TC-TTTTTAAGT
*
1896594 CCAAAACTCCGTGGTACCTTGTTCCTTTTAAGT
63 CCAAAACTCCGTGGCACCTTGTTCCTTTTAAGT
* * *
1896627 CCACAACTCCGTTGCATTCTTTTTCCTTTTAAGTCCACAACTCCGTGGCACC-C-TTTTAAGTCC
1 CCACAACTCCGTGGCA-CCTTGTTCCTTTTAAGTCCACAACTCCGTGGCACCTCTTTTTAAGTCC
* * * *
1896690 ACACCTCCGTGGCATCTTTTTCCTTTTAAGT
65 AAAACTCCGTGGCACCTTGTTCCTTTTAAGT
1896721 CCACAACTCCGTGGCACCTTGTTCCTTTTAAGTCCACAACTCCGTGGCA
1 CCACAACTCCGTGGCACCTTGTTCCTTTTAAGTCCACAACTCCGTGGCA
1896770 TCTTTCTCCT
Statistics
Matches: 288, Mismatches: 24, Indels: 33
0.83 0.07 0.10
Matches are distributed among these distances:
85 3 0.01
86 22 0.08
87 26 0.09
88 1 0.00
91 1 0.00
92 74 0.26
93 36 0.12
94 71 0.25
95 4 0.01
96 23 0.08
99 27 0.09
ACGTcount: A:0.20, C:0.34, G:0.14, T:0.33
Consensus pattern (95 bp):
CCACAACTCCGTGGCACCTTGTTCCTTTTAAGTCCACAACTCCGTGGCACCTCTTTTTAAGTCCA
AAACTCCGTGGCACCTTGTTCCTTTTAAGT
Found at i:1896928 original size:49 final size:49
Alignment explanation
Indices: 1896871--1897290 Score: 474
Period size: 49 Copynumber: 8.9 Consensus size: 49
1896861 AGTCTTCTTC
*
1896871 TAAGTCCAATATCGCTGGCCTTGAATCAACATATTGGCACCTTCACCTT
1 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCACCTT
* *
1896920 TAAGTCCAATATCGCTAGCCTTGAATCAGCATATTGGCACCTT-ATCTT
1 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCACCTT
* * * * *
1896968 TAAGACCAATGTTGTTGGCCTTGAATCAGCACATTGG------CACCTT
1 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCACCTT
* *
1897011 TAAGTCCAATATCGCTGGCCTTGAATTAACATATTGGCACCTTCACCTT
1 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCACCTT
* * **
1897060 TAAGTCTAATATCGCTGGCCTTGAATCATCATATTGGCACCTT-GTCTT
1 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCACCTT
* * * * *
1897108 TAAGACCAATGTTGCTGACCTTGAATCAGCACATTGGCA----CA--TT
1 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCACCTT
* *
1897151 TAAGTCCACTATTGCTGGCCTTGAATCAGCATATTGGCACCTTCACCTT
1 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCACCTT
* **
1897200 TAAGTCTAATATCGCTGGCCTTGAATCAGCATATTGGCACCTT-GTCTT
1 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCACCTT
* * * * *
1897248 TAAGACCAATGTTGCTGGCCTTGAATCAACACATTGGCACCTT
1 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTT
1897291 TAAGTCCTGT
Statistics
Matches: 311, Mismatches: 46, Indels: 29
0.81 0.12 0.08
Matches are distributed among these distances:
43 70 0.23
47 2 0.01
48 110 0.35
49 129 0.41
ACGTcount: A:0.26, C:0.25, G:0.17, T:0.32
Consensus pattern (49 bp):
TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCACCTT
Found at i:1897044 original size:91 final size:91
Alignment explanation
Indices: 1896914--1897297 Score: 418
Period size: 91 Copynumber: 4.1 Consensus size: 91
1896904 TTGGCACCTT
* *
1896914 CACCTTTAAGTCCAATATCGCTAGCCTTGAATCAGCATATTGGCACCTTATCTTTAAGACCAATG
1 CACCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTATCTTTAAGACCAATA
*
1896979 TTGTTGGCCTTGAATCAGCACATTGG
66 TTGCTGGCCTTGAATCAGCACATTGG
* * * * *
1897005 CACCTTTAAGTCCAATATCGCTGGCCTTGAATTAACATATTGGCACCTTCACCTTTAAGTCTAAT
1 CACCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTT-ATCTTTAAGACCAAT
* * *
1897070 ATCGCTGGCCTTGAATCATCATATTGG
65 ATTGCTGGCCTTGAATCAGCACATTGG
* * * * * *
1897097 CACCTTGTCTTTAAGACCAATGTTGCTGACCTTGAATCAGCACATTGGCA-C--A--TTTAAGTC
1 CA-C----CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTATCTTTAAGAC
* *
1897157 CACTATTGCTGGCCTTGAATCAGCATATTGG
61 CAATATTGCTGGCCTTGAATCAGCACATTGG
* *
1897188 CACCTTCACCTTTAAGTCTAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTGTCTTTAAGA
1 ------CACCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTATCTTTAAGA
* *
1897253 CCAATGTTGCTGGCCTTGAATCAACACATTGG
60 CCAATATTGCTGGCCTTGAATCAGCACATTGG
1897285 CACCTTTAAGTCC
1 CACCTTTAAGTCC
1897298 TGTCGCGATG
Statistics
Matches: 241, Mismatches: 35, Indels: 34
0.78 0.11 0.11
Matches are distributed among these distances:
91 93 0.39
92 72 0.30
93 3 0.01
96 2 0.01
97 71 0.29
ACGTcount: A:0.26, C:0.25, G:0.17, T:0.32
Consensus pattern (91 bp):
CACCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTATCTTTAAGACCAATA
TTGCTGGCCTTGAATCAGCACATTGG
Found at i:1897130 original size:140 final size:140
Alignment explanation
Indices: 1896871--1897297 Score: 746
Period size: 140 Copynumber: 3.0 Consensus size: 140
1896861 AGTCTTCTTC
*
1896871 TAAGTCCAATATCGCTGGCCTTGAATCAACATATTGGCACCTTCACCTTTAAGTCCAATATCGCT
1 TAAGTCCAATATCGCTGGCCTTGAATCAACATATTGGCACCTTCACCTTTAAGTCTAATATCGCT
* * *
1896936 AGCCTTGAATCAGCATATTGGCACCTTATCTTTAAGACCAATGTTGTTGGCCTTGAATCAGCACA
66 GGCCTTGAATCAGCATATTGGCACCTTGTCTTTAAGACCAATGTTGCTGGCCTTGAATCAGCACA
1897001 TTGGCACCTT
131 TTGGCACCTT
*
1897011 TAAGTCCAATATCGCTGGCCTTGAATTAACATATTGGCACCTTCACCTTTAAGTCTAATATCGCT
1 TAAGTCCAATATCGCTGGCCTTGAATCAACATATTGGCACCTTCACCTTTAAGTCTAATATCGCT
* *
1897076 GGCCTTGAATCATCATATTGGCACCTTGTCTTTAAGACCAATGTTGCTGACCTTGAATCAGCACA
66 GGCCTTGAATCAGCATATTGGCACCTTGTCTTTAAGACCAATGTTGCTGGCCTTGAATCAGCACA
*
1897141 TTGGCACATT
131 TTGGCACCTT
* * *
1897151 TAAGTCCACTATTGCTGGCCTTGAATCAGCATATTGGCACCTTCACCTTTAAGTCTAATATCGCT
1 TAAGTCCAATATCGCTGGCCTTGAATCAACATATTGGCACCTTCACCTTTAAGTCTAATATCGCT
*
1897216 GGCCTTGAATCAGCATATTGGCACCTTGTCTTTAAGACCAATGTTGCTGGCCTTGAATCAACACA
66 GGCCTTGAATCAGCATATTGGCACCTTGTCTTTAAGACCAATGTTGCTGGCCTTGAATCAGCACA
1897281 TTGGCACCTT
131 TTGGCACCTT
1897291 TAAGTCC
1 TAAGTCC
1897298 TGTCGCGATG
Statistics
Matches: 271, Mismatches: 16, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
140 271 1.00
ACGTcount: A:0.26, C:0.25, G:0.17, T:0.32
Consensus pattern (140 bp):
TAAGTCCAATATCGCTGGCCTTGAATCAACATATTGGCACCTTCACCTTTAAGTCTAATATCGCT
GGCCTTGAATCAGCATATTGGCACCTTGTCTTTAAGACCAATGTTGCTGGCCTTGAATCAGCACA
TTGGCACCTT
Found at i:1898466 original size:28 final size:28
Alignment explanation
Indices: 1898426--1898495 Score: 88
Period size: 28 Copynumber: 2.5 Consensus size: 28
1898416 AATAAAGCCA
**
1898426 GGGTTGGAGTATCCCCTCGGA-AGTAACG
1 GGGTTGGAGTATCCCCGAGGAGA-TAACG
*
1898454 GGGTTGGAGTATCCCCGATGAGATAACG
1 GGGTTGGAGTATCCCCGAGGAGATAACG
*
1898482 AGGTTGGAGTATCC
1 GGGTTGGAGTATCC
1898496 TTGATTGTGA
Statistics
Matches: 37, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
28 36 0.97
29 1 0.03
ACGTcount: A:0.23, C:0.19, G:0.36, T:0.23
Consensus pattern (28 bp):
GGGTTGGAGTATCCCCGAGGAGATAACG
Found at i:1898638 original size:55 final size:52
Alignment explanation
Indices: 1898484--1898663 Score: 211
Period size: 55 Copynumber: 3.4 Consensus size: 52
1898474 AGATAACGAG
** * *
1898484 GTTGGAGTATCCTTGATTGTGAAAAATTGGTATTATTGGAAATAAAATCGGA
1 GTTGGAGTATCCCCGATTGTGAAAAATTGGTGTTTTTGGAAATAAAATCGGA
* * * *
1898536 GTTGGAGTATCCCTGATTAAAG-GAAAAATTGGTG-TTTTGAAAATAAAACCGGG
1 GTTGGAGTATCCCCGATT---GTGAAAAATTGGTGTTTTTGGAAATAAAATCGGA
*
1898589 GTTGGAGTATCCCCGATTGTGAAAATTTGGTGTTGTTTTTGGAAATAAAATCGGA
1 GTTGGAGTATCCCCGATTGTGAAAAATT-G-G-TGTTTTTGGAAATAAAATCGGA
1898644 GTTGGAGTATCCCCGATTGT
1 GTTGGAGTATCCCCGATTGT
1898664 CGAGAATTGA
Statistics
Matches: 109, Mismatches: 11, Indels: 13
0.82 0.08 0.10
Matches are distributed among these distances:
50 1 0.01
51 7 0.06
52 18 0.17
53 33 0.30
54 13 0.12
55 37 0.34
ACGTcount: A:0.31, C:0.09, G:0.27, T:0.33
Consensus pattern (52 bp):
GTTGGAGTATCCCCGATTGTGAAAAATTGGTGTTTTTGGAAATAAAATCGGA
Found at i:1901038 original size:13 final size:13
Alignment explanation
Indices: 1901020--1901045 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1901010 ACAAAGATCC
1901020 ATGTATCGATACA
1 ATGTATCGATACA
1901033 ATGTATCGATACA
1 ATGTATCGATACA
1901046 CAGAAAAATA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:1901060 original size:33 final size:33
Alignment explanation
Indices: 1900999--1901065 Score: 89
Period size: 33 Copynumber: 2.0 Consensus size: 33
1900989 AAAATTTTCA
*** *
1900999 AATGTATCGATACAAAGATCCATGTATCGATAC
1 AATGTATCGATACAAAGAAAAATATATCGATAC
*
1901032 AATGTATCGATACACAGAAAAATATATCGATAC
1 AATGTATCGATACAAAGAAAAATATATCGATAC
1901065 A
1 A
1901066 TTTCCTTGGC
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
33 29 1.00
ACGTcount: A:0.45, C:0.16, G:0.13, T:0.25
Consensus pattern (33 bp):
AATGTATCGATACAAAGAAAAATATATCGATAC
Found at i:1901109 original size:19 final size:18
Alignment explanation
Indices: 1901085--1901152 Score: 83
Period size: 19 Copynumber: 3.9 Consensus size: 18
1901075 CAGTAGCTAA
1901085 TTATGTATCGATACAATAC
1 TTATGTATCGATACAA-AC
1901104 TTATGTATCGATAC--A-
1 TTATGTATCGATACAAAC
1901119 -T-TGTATCGATACAAAAC
1 TTATGTATCGATAC-AAAC
1901136 TTATGTATCGATACAAA
1 TTATGTATCGATACAAA
1901153 TCGTTGAATT
Statistics
Matches: 43, Mismatches: 0, Indels: 13
0.77 0.00 0.23
Matches are distributed among these distances:
13 11 0.26
14 1 0.02
16 2 0.05
18 4 0.09
19 25 0.58
ACGTcount: A:0.38, C:0.15, G:0.12, T:0.35
Consensus pattern (18 bp):
TTATGTATCGATACAAAC
Found at i:1901125 original size:13 final size:13
Alignment explanation
Indices: 1901107--1901131 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1901097 ACAATACTTA
1901107 TGTATCGATACAT
1 TGTATCGATACAT
1901120 TGTATCGATACA
1 TGTATCGATACA
1901132 AAACTTATGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1901129 original size:32 final size:32
Alignment explanation
Indices: 1901088--1901150 Score: 117
Period size: 32 Copynumber: 2.0 Consensus size: 32
1901078 TAGCTAATTA
*
1901088 TGTATCGATACAATACTTATGTATCGATACAT
1 TGTATCGATACAAAACTTATGTATCGATACAT
1901120 TGTATCGATACAAAACTTATGTATCGATACA
1 TGTATCGATACAAAACTTATGTATCGATACA
1901151 AATCGTTGAA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.37, C:0.16, G:0.13, T:0.35
Consensus pattern (32 bp):
TGTATCGATACAAAACTTATGTATCGATACAT
Found at i:1902030 original size:55 final size:55
Alignment explanation
Indices: 1901946--1903132 Score: 1391
Period size: 55 Copynumber: 20.9 Consensus size: 55
1901936 AAAGTGTATT
* *
1901946 CTGCTCTTTGAGGACT-AAAAAGTGCCACCAACTCGTGTGGGCTTTGAAAGGCATC
1 CTGCTCTTTGAGGACTGGAAAA-TGCCACCAACTTGTGTGGGCTTTGAAAGGCATC
* * **
1902001 CTGCTCTTTGAGGACT-GAAAGGTGCCACCAACTTGTGTGGACTTT-AAGAGGTGTC
1 CTGCTCTTTGAGGACTGGAAA-ATGCCACCAACTTGTGTGGGCTTTGAA-AGGCATC
* **
1902056 CTGCTCTTTAAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGTGTC
1 CTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGCATC
* **
1902111 CTGCTCTTTGAGGACTGGGAAATGCCACCAACTTGTGTGGGCTTTGAAAGGTGTC
1 CTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGCATC
* *
1902166 CTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAGAGGCGTC
1 CTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGCATC
* *
1902221 CTGCTCTTTGAGGACTGAAAAATGCCACCAACTTGTGTGGGCTTTGAAAAGAAAAAGTATC
1 CTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTG-AAAG-----GCATC
** * * * *
1902282 CTGCTCTTTGAGGACT-GAAGGTGACACCAACTTGGGTGGACTTTAAAAGGCATC
1 CTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGCATC
* *
1902336 CTGCTCTTTGAGGATTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGAAAAGGCGTC
1 CTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTT----G-AAAGGCATC
*
1902396 CTGCTCTTTGGGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAAGAAAAAGCATC
1 CTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTG-AAAG-----GCATC
** * *
1902457 CTGCTCTTTGAGGACT-GAAGGTGCCACCAACTTGGGTGGGCTTTAAAAGGCATC
1 CTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGCATC
* *
1902511 CTGCTCTTTGAGGATTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGAAAAAGCGTC
1 CTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAG-----GCATC
*
1902571 CTGCTCTTTGGGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAAGAAAAAGCATC
1 CTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTG-AAAG-----GCATC
** * * *
1902632 CTGCTCTTTGAGGACT-GAAGGTGCCACCAACTTGGGTGGGCTTTAAAAGACATC
1 CTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGCATC
* * **
1902686 CTGCTCTTTGAGGATTGGAAAATGCCACCAACTTGTATGGGCTTTGAAAGAAAAGGTGTC
1 CTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTT----G-AAAGGCATC
* * * *
1902746 CTGCTCTTTAAGGACTGGGAAGTGCCACCAACTTGTGTGGGCTTTAAAAAGAAAAAGCATC
1 CTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTT-----G-AAAGGCATC
*
1902807 CTGCTCTTTGAGGACTAGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGCATC
1 CTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGCATC
* *
1902862 CTGCTCTTTGAGGATTGGAAAATGCCACCAACTTATGTGGGCTTTGAAAGGCATC
1 CTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGCATC
* **
1902917 CTGCTCTTTGAGGATTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGTGTC
1 CTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGCATC
* * **
1902972 CTGCTCTTTGGGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTT-AAGAGGTGTC
1 CTGCTCTTTGAGGACTGGAAA-ATGCCACCAACTTGTGTGGGCTTTGAA-AGGCATC
* **
1903027 CTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAGAGGTGTC
1 CTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGCATC
*
1903082 CTGCTCTTTGAGGACTGAAAAATGCCACCAACTTGTGTGGGCTTTGAAAGG
1 CTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGG
1903133 AGAAGGCATC
Statistics
Matches: 999, Mismatches: 94, Indels: 78
0.85 0.08 0.07
Matches are distributed among these distances:
54 66 0.07
55 565 0.57
56 21 0.02
59 12 0.01
60 217 0.22
61 118 0.12
ACGTcount: A:0.25, C:0.20, G:0.28, T:0.27
Consensus pattern (55 bp):
CTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGCATC
Found at i:1902159 original size:27 final size:27
Alignment explanation
Indices: 1902075--1902159 Score: 66
Period size: 27 Copynumber: 3.1 Consensus size: 27
1902065 AAGGACTGGA
1902075 AAATGCCACCAACTTGTGTGGGCTTTG
1 AAATGCCACCAACTTGTGTGGGCTTTG
** * * * **
1902102 AAAGGTGTCCTGC-TCTT-TGAGGACTGGG
1 AAA--TG-CCACCAACTTGTGTGGGCTTTG
1902130 AAATGCCACCAACTTGTGTGGGCTTTG
1 AAATGCCACCAACTTGTGTGGGCTTTG
1902157 AAA
1 AAA
1902160 GGTGTCCTGC
Statistics
Matches: 39, Mismatches: 14, Indels: 10
0.62 0.22 0.16
Matches are distributed among these distances:
25 3 0.08
26 5 0.13
27 13 0.33
28 10 0.26
29 5 0.13
30 3 0.08
ACGTcount: A:0.24, C:0.20, G:0.28, T:0.28
Consensus pattern (27 bp):
AAATGCCACCAACTTGTGTGGGCTTTG
Found at i:1902460 original size:175 final size:173
Alignment explanation
Indices: 1901946--1903159 Score: 1661
Period size: 175 Copynumber: 7.1 Consensus size: 173
1901936 AAAGTGTATT
* * * *
1901946 CTGCTCTTTGAGGACTAAAAAGTGCCACCAACTCGTGTGGGCTTTGAAAGGCATCCTGCTCTTTG
1 CTGCTCTTTGAGGACT-GAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGCATCCTGCTCTTTG
* * * * *
1902011 AGGACT-GAAAGGTGCCACCAACTTGTGTGGACTTT-AAG--AGGTGTCCTGCTCTTTAAGGACT
65 AGGATTGGAAA-ATGCCACCAACTTGTGTGGGCTTTGAAGAAAGGCGTCCTGCTCTTTGAGGACT
**
1902072 GGAAAATGCCACCAACTTGTGTGGGCTTTG-AAAG-----GTGTC
129 GGAAAATGCCACCAACTTGTGTGGGCTTTGAAAAGAAAAAGCATC
* * **
1902111 CTGCTCTTTGAGGACTGGGAA-ATGCCACCAACTTGTGTGGGCTTTGAAAGGTGTCCTGCTCTTT
1 CTGCTCTTTGAGGACT--GAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGCATCCTGCTCTTT
*
1902175 GAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTG-AG--AGGCGTCCTGCTCTTTGAGGACT
64 GAGGATTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAGAAAGGCGTCCTGCTCTTTGAGGACT
* *
1902237 GAAAAATGCCACCAACTTGTGTGGGCTTTGAAAAGAAAAAGTATC
129 GGAAAATGCCACCAACTTGTGTGGGCTTTGAAAAGAAAAAGCATC
* * *
1902282 CTGCTCTTTGAGGACTGAAGGTGACACCAACTTGGGTGGACTTTAAAAGGCATCCTGCTCTTTGA
1 CTGCTCTTTGAGGACTGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGCATCCTGCTCTTTGA
*
1902347 GGATTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGAAAAGGCGTCCTGCTCTTTGGGGACT
66 GGATTGGAAAATGCCACCAACTTGTGTGGGCTTTG-AAG-AAAGGCGTCCTGCTCTTTGAGGACT
1902412 GGAAAATGCCACCAACTTGTGTGGGCTTTGAAAAGAAAAAGCATC
129 GGAAAATGCCACCAACTTGTGTGGGCTTTGAAAAGAAAAAGCATC
*
1902457 CTGCTCTTTGAGGACTGAAGGTGCCACCAACTTGGGTGGGCTTTAAAAGGCATCCTGCTCTTTGA
1 CTGCTCTTTGAGGACTGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGCATCCTGCTCTTTGA
* *
1902522 GGATTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGAAAAAGCGTCCTGCTCTTTGGGGACT
66 GGATTGGAAAATGCCACCAACTTGTGTGGGCTTTG-AAG-AAAGGCGTCCTGCTCTTTGAGGACT
1902587 GGAAAATGCCACCAACTTGTGTGGGCTTTGAAAAGAAAAAGCATC
129 GGAAAATGCCACCAACTTGTGTGGGCTTTGAAAAGAAAAAGCATC
* *
1902632 CTGCTCTTTGAGGACTGAAGGTGCCACCAACTTGGGTGGGCTTTAAAAGACATCCTGCTCTTTGA
1 CTGCTCTTTGAGGACTGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGCATCCTGCTCTTTGA
* * *
1902697 GGATTGGAAAATGCCACCAACTTGTATGGGCTTTGAAAGAAAAGGTGTCCTGCTCTTTAAGGACT
66 GGATTGGAAAATGCCACCAACTTGTGTGGGCTTTG-AAG-AAAGGCGTCCTGCTCTTTGAGGACT
* * *
1902762 GGGAAGTGCCACCAACTTGTGTGGGCTTTAAAAAGAAAAAGCATC
129 GGAAAATGCCACCAACTTGTGTGGGCTTTGAAAAGAAAAAGCATC
** *
1902807 CTGCTCTTTGAGGACTAGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGCATCCTGCTCTTTG
1 CTGCTCTTTGAGGACT-GAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGCATCCTGCTCTTTG
* * *
1902872 AGGATTGGAAAATGCCACCAACTTATGTGGGCTTT---GAAAGGCATCCTGCTCTTTGAGGATTG
65 AGGATTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAGAAAGGCGTCCTGCTCTTTGAGGACTG
**
1902934 GAAAATGCCACCAACTTGTGTGGGCTTTG-AAAG-----GTGTC
130 GAAAATGCCACCAACTTGTGTGGGCTTTGAAAAGAAAAAGCATC
* * **
1902972 CTGCTCTTTGGGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAGAGGTGTCCTGCTCTTTG
1 CTGCTCTTTGAGGACTG-AAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGCATCCTGCTCTTTG
* *
1903037 AGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTG-AG--AGGTGTCCTGCTCTTTGAGGACTG
65 AGGATTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAGAAAGGCGTCCTGCTCTTTGAGGACTG
* * * *
1903099 AAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGAGAAGGCATC
130 GAAAATGCCACCAACTTGTGTGGGCTTTGAAAAGAAAAAGCATC
* *
1903143 ATGCTTTTTGAGGACTG
1 CTGCTCTTTGAGGACTG
1903160 GGAAGGGCTA
Statistics
Matches: 954, Mismatches: 70, Indels: 44
0.89 0.07 0.04
Matches are distributed among these distances:
164 1 0.00
165 277 0.29
166 13 0.01
167 1 0.00
169 3 0.00
170 76 0.08
171 85 0.09
172 3 0.00
175 419 0.44
176 76 0.08
ACGTcount: A:0.25, C:0.20, G:0.28, T:0.27
Consensus pattern (173 bp):
CTGCTCTTTGAGGACTGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGCATCCTGCTCTTTGA
GGATTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAGAAAGGCGTCCTGCTCTTTGAGGACTGG
AAAATGCCACCAACTTGTGTGGGCTTTGAAAAGAAAAAGCATC
Found at i:1902855 original size:28 final size:27
Alignment explanation
Indices: 1902824--1902965 Score: 71
Period size: 28 Copynumber: 5.1 Consensus size: 27
1902814 TTGAGGACTA
1902824 GAAAATGCCACCAACTTGTGTGGGCTTT
1 GAAAATGCCACCAACTT-TGTGGGCTTT
* ** * *
1902852 G-AAA-GGCATCCTGCTCTT-TGAGGATTG
1 GAAAATGCCA-CCAACT-TTGTG-GGCTTT
1902879 GAAAATGCCACCAACTTATGTGGGCTTT
1 GAAAATGCCACCAACTT-TGTGGGCTTT
* ** * *
1902907 G-AAA-GGCATCCTGCTCTT-TGAGGATTG
1 GAAAATGCCA-CCAACT-TTGTG-GGCTTT
1902934 GAAAATGCCACCAACTTGTGTGGGCTTT
1 GAAAATGCCACCAACTT-TGTGGGCTTT
1902962 GAAA
1 GAAA
1902966 GGTGTCCTGC
Statistics
Matches: 80, Mismatches: 20, Indels: 28
0.62 0.16 0.22
Matches are distributed among these distances:
26 10 0.12
27 28 0.35
28 32 0.40
29 10 0.12
ACGTcount: A:0.26, C:0.20, G:0.26, T:0.28
Consensus pattern (27 bp):
GAAAATGCCACCAACTTTGTGGGCTTT
Found at i:1902882 original size:27 final size:27
Alignment explanation
Indices: 1902852--1902937 Score: 70
Period size: 27 Copynumber: 3.1 Consensus size: 27
1902842 TGTGGGCTTT
1902852 GAAAGGCATCCTGCTCTTTGAGGATTG
1 GAAAGGCATCCTGCTCTTTGAGGATTG
* ** * *
1902879 GAAAATGCCA-CCAACT-TATGTG-GGCTTT
1 G-AAA-GGCATCCTGCTCT-T-TGAGGATTG
1902907 GAAAGGCATCCTGCTCTTTGAGGATTG
1 GAAAGGCATCCTGCTCTTTGAGGATTG
1902934 GAAA
1 GAAA
1902938 ATGCCACCAA
Statistics
Matches: 42, Mismatches: 10, Indels: 14
0.64 0.15 0.21
Matches are distributed among these distances:
26 5 0.12
27 18 0.43
28 14 0.33
29 5 0.12
ACGTcount: A:0.27, C:0.19, G:0.27, T:0.28
Consensus pattern (27 bp):
GAAAGGCATCCTGCTCTTTGAGGATTG
Found at i:1907198 original size:136 final size:136
Alignment explanation
Indices: 1906886--1908057 Score: 1693
Period size: 136 Copynumber: 8.5 Consensus size: 136
1906876 GTCTACAAGT
* * * * *
1906886 CCAATATCGTTGGCCTTGAATCAGCATATTGGCACCTT-GTCTTTAAGACCAATGTTGCTAGCCT
1 CCAATATCGCTGGCCTTGAATCAGCATATTGGCA-CTTCATCTTTAAGACCAATGTCGTTGGCCT
* * * * *
1906950 TGAATCAGCACATTGGCACCTTTAAGTCTAATATCGCTGGCCTTGAATCAGCATATTGGCA-CCT
65 TGAATCAACACATTGGCA----TAAGCCCAATGTCGCTGGCCTTGAATCAGCACATTGGCATCCT
*
1907014 CGTCTTTAAGA
126 CATCTTTAAGA
* *
1907025 CCAATGTTGCTGGCCTTGAATCAGCATATTGGCACTTCATCTTTAAGACCAATGTCGTTGGCCTT
1 CCAATATCGCTGGCCTTGAATCAGCATATTGGCACTTCATCTTTAAGACCAATGTCGTTGGCCTT
*
1907090 GAATCAACACATTGGCATAAACCCAATGTCGCTGGCCTTGAATCAGCACATTGGCATCCTCATCT
66 GAATCAACACATTGGCATAAGCCCAATGTCGCTGGCCTTGAATCAGCACATTGGCATCCTCATCT
1907155 TTAAGA
131 TTAAGA
* * *
1907161 CCAATGTTGCTGGCCTTGAATCAGCATATTGGCACTTCATCTTTAAGACCAATGTCGTTGGCGTT
1 CCAATATCGCTGGCCTTGAATCAGCATATTGGCACTTCATCTTTAAGACCAATGTCGTTGGCCTT
*
1907226 GAATCAACACATTGGCATAAACCCAATGTCGCTGGCCTTGAATCAGCACATTGGCATCCTCATCT
66 GAATCAACACATTGGCATAAGCCCAATGTCGCTGGCCTTGAATCAGCACATTGGCATCCTCATCT
1907291 TTAAGA
131 TTAAGA
* *
1907297 CCAATGTTGCTGGCCTTGAATCAGCATATTGGCACTTCATCTTTAAGACCAATGTCGTTGGCCTT
1 CCAATATCGCTGGCCTTGAATCAGCATATTGGCACTTCATCTTTAAGACCAATGTCGTTGGCCTT
1907362 GAATCAACACATTGGCATAAGCCCAATGTCGCTGGCCTTGAATCAGCACATTGGCATCCTCATCT
66 GAATCAACACATTGGCATAAGCCCAATGTCGCTGGCCTTGAATCAGCACATTGGCATCCTCATCT
*
1907427 TTAAGT
131 TTAAGA
** *
1907433 CCGGTATCGCTAGCCTTGAATCAGCATATTGGCACTTCATCTTTAAGACCAATGTCGTTGGCCTT
1 CCAATATCGCTGGCCTTGAATCAGCATATTGGCACTTCATCTTTAAGACCAATGTCGTTGGCCTT
1907498 GAATCAACACATTGGCATAAGCCCAATGTCGCTGGCCTTGAATCAGCACATTGGCATCCTCATCT
66 GAATCAACACATTGGCATAAGCCCAATGTCGCTGGCCTTGAATCAGCACATTGGCATCCTCATCT
1907563 TTAAGA
131 TTAAGA
* * **
1907569 CCAATGTTGCAAGCCTTGAATCAGCATATTGGCACTTCATCTTTAAGACCAATGTCGTTGGCCTT
1 CCAATATCGCTGGCCTTGAATCAGCATATTGGCACTTCATCTTTAAGACCAATGTCGTTGGCCTT
1907634 GAATCAACACATTGGCATAAGCCCAATGTCGCTGGCCTTGAATCAGCACATTGGCATCCTCATCT
66 GAATCAACACATTGGCATAAGCCCAATGTCGCTGGCCTTGAATCAGCACATTGGCATCCTCATCT
*
1907699 TTAAGT
131 TTAAGA
** *
1907705 CCGGTATCGCTAGCCTTGAATCAGCATATTGGCACTTCATCTTTAAGACCAATGTCGTTGGCCTT
1 CCAATATCGCTGGCCTTGAATCAGCATATTGGCACTTCATCTTTAAGACCAATGTCGTTGGCCTT
1907770 GAATCAACACATTGGCATAAGCCCAATGTCGCTGGCCTTGAATCAGCACATTGGCATCCTCATCT
66 GAATCAACACATTGGCATAAGCCCAATGTCGCTGGCCTTGAATCAGCACATTGGCATCCTCATCT
1907835 TTAAGA
131 TTAAGA
* * * * **
1907841 CCAATATCGTTGGCCTTGAATCAACATATTAGCACCCTCATCTTTAAGACCAATGTCGCCGGCCT
1 CCAATATCGCTGGCCTTGAATCAGCATATTGGCA-CTTCATCTTTAAGACCAATGTCGTTGGCCT
* ** *
1907906 TGAATCAGCACATTGGCACCTTCATCTTTAAAACCAATGTCGCTAGCCTTGAATCAGCACATTGG
65 TGAATCAACACATTGG------CA----TAAGCCCAATGTCGCTGGCCTTGAATCAGCACATTGG
*
1907971 CA-CCTTCATCTTTAAGT
120 CATCC-TCATCTTTAAGA
* * * * * *
1907988 CCAATATCGTTGGCCTTGCATCAGCATATTGGCATCTTTAACATTCCTAAGCCCAATGTCGCTGG
1 CCAATATCGCTGGCCTTGAATCAGCATATTGGCA-CTTCATC-TT--TAAGACCAATGTCGTTGG
1908053 CCTTG
62 CCTTG
1908058 TCTCAGTACA
Statistics
Matches: 957, Mismatches: 59, Indels: 23
0.92 0.06 0.02
Matches are distributed among these distances:
135 34 0.04
136 699 0.73
137 42 0.04
138 3 0.00
139 70 0.07
143 2 0.00
146 2 0.00
147 82 0.09
148 2 0.00
150 21 0.02
ACGTcount: A:0.26, C:0.26, G:0.18, T:0.30
Consensus pattern (136 bp):
CCAATATCGCTGGCCTTGAATCAGCATATTGGCACTTCATCTTTAAGACCAATGTCGTTGGCCTT
GAATCAACACATTGGCATAAGCCCAATGTCGCTGGCCTTGAATCAGCACATTGGCATCCTCATCT
TTAAGA
Found at i:1907961 original size:98 final size:98
Alignment explanation
Indices: 1907787--1908023 Score: 323
Period size: 98 Copynumber: 2.4 Consensus size: 98
1907777 CACATTGGCA
* * *
1907787 TAAGCCCAATGTCGCTGGCCTTGAATCAGCACATTGGCATCCTCATCTTTAAGACCAATATCGTT
1 TAAGACCAATGTCGCTGGCCTTGAATCAGCACATTGGCATCCTCATCTTTAAAACCAATATCGCT
* *
1907852 GGCCTTGAATCAACATATTAGCACCCTCATCTT
66 AGCCTTGAATCAACACATTAGCACCCTCATCTT
* *
1907885 TAAGACCAATGTCGCCGGCCTTGAATCAGCACATTGGCA-CCTTCATCTTTAAAACCAATGTCGC
1 TAAGACCAATGTCGCTGGCCTTGAATCAGCACATTGGCATCC-TCATCTTTAAAACCAATATCGC
* * *
1907949 TAGCCTTGAATCAGCACATTGGCACCTTCATCTT
65 TAGCCTTGAATCAACACATTAGCACCCTCATCTT
* * * * *
1907983 TAAGTCCAATATCGTTGGCCTTGCATCAGCATATTGGCATC
1 TAAGACCAATGTCGCTGGCCTTGAATCAGCACATTGGCATC
1908024 TTTAACATTC
Statistics
Matches: 121, Mismatches: 16, Indels: 3
0.86 0.11 0.02
Matches are distributed among these distances:
97 2 0.02
98 118 0.98
99 1 0.01
ACGTcount: A:0.26, C:0.28, G:0.16, T:0.29
Consensus pattern (98 bp):
TAAGACCAATGTCGCTGGCCTTGAATCAGCACATTGGCATCCTCATCTTTAAAACCAATATCGCT
AGCCTTGAATCAACACATTAGCACCCTCATCTT
Found at i:1908071 original size:52 final size:48
Alignment explanation
Indices: 1907787--1908079 Score: 199
Period size: 49 Copynumber: 5.9 Consensus size: 48
1907777 CACATTGGCA
* * * *
1907787 TAAGCCCAATGTCGCTGGCCTTGAATCAGCACATTGGCATCCTCATCTT
1 TAAGCCCAATGTCGCTGGCCTTG-CTCAGCACATTGGCATCTTTAACTT
* * * * * * * * * * *
1907836 TAAGACCAATATCGTTGGCCTTGAATCAACATATTAGCACCCTCATCTT
1 TAAGCCCAATGTCGCTGGCCTTG-CTCAGCACATTGGCATCTTTAACTT
* * * * * *
1907885 TAAGACCAATGTCGCCGGCCTTGAATCAGCACATTGGCACCTTCATCTT
1 TAAGCCCAATGTCGCTGGCCTTG-CTCAGCACATTGGCATCTTTAACTT
** * * * * *
1907934 TAAAACCAATGTCGCTAGCCTTGAATCAGCACATTGGCACCTTCATCTT
1 TAAGCCCAATGTCGCTGGCCTTG-CTCAGCACATTGGCATCTTTAACTT
* * * *
1907983 TAAGTCCAATATCGTTGGCCTTGCATCAGCATATTGGCATCTTTAACATT
1 TAAGCCCAATGTCGCTGGCCTTGC-TCAGCACATTGGCATCTTTAAC-TT
*
1908033 CCTAAGCCCAATGTCGCTGGCCTTGTCTCAGTACATTGGCAATCTTT
1 --TAAGCCCAATGTCGCTGGCCTTG-CTCAGCACATTGGC-ATCTTT
1908080 TTCAAGTCTA
Statistics
Matches: 206, Mismatches: 32, Indels: 8
0.84 0.13 0.03
Matches are distributed among these distances:
49 166 0.81
50 2 0.01
52 31 0.15
53 7 0.03
ACGTcount: A:0.25, C:0.28, G:0.16, T:0.30
Consensus pattern (48 bp):
TAAGCCCAATGTCGCTGGCCTTGCTCAGCACATTGGCATCTTTAACTT
Found at i:1908920 original size:19 final size:18
Alignment explanation
Indices: 1908896--1908990 Score: 84
Period size: 19 Copynumber: 5.7 Consensus size: 18
1908886 AACAAGTAAC
1908896 TGTATCGATACATAAGTGT
1 TGTATCGATACATAAGT-T
1908915 TGTATCGATAC--AA---
1 TGTATCGATACATAAGTT
1908928 TGTATCGATACATAAGTTT
1 TGTATCGATACATAAG-TT
1908947 TGTATCGATAC--AA---
1 TGTATCGATACATAAGTT
1908960 TGTATCGATACATAAGTGT
1 TGTATCGATACATAAGT-T
*
1908979 TGTATTGATACA
1 TGTATCGATACA
1908991 ATGTATCGCT
Statistics
Matches: 63, Mismatches: 1, Indels: 24
0.72 0.01 0.27
Matches are distributed among these distances:
13 22 0.35
15 4 0.06
17 4 0.06
19 33 0.52
ACGTcount: A:0.34, C:0.12, G:0.18, T:0.37
Consensus pattern (18 bp):
TGTATCGATACATAAGTT
Found at i:1908933 original size:13 final size:13
Alignment explanation
Indices: 1908915--1908971 Score: 60
Period size: 13 Copynumber: 3.9 Consensus size: 13
1908905 ACATAAGTGT
1908915 TGTATCGATACAA
1 TGTATCGATACAA
1908928 TGTATCGATACATAA
1 TGTATCGATAC--AA
1908943 GTTTTGTATCGATACAA
1 ----TGTATCGATACAA
1908960 TGTATCGATACA
1 TGTATCGATACA
1908972 TAAGTGTTGT
Statistics
Matches: 38, Mismatches: 0, Indels: 12
0.76 0.00 0.24
Matches are distributed among these distances:
13 23 0.61
15 2 0.05
17 2 0.05
19 11 0.29
ACGTcount: A:0.35, C:0.14, G:0.16, T:0.35
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:1908937 original size:32 final size:32
Alignment explanation
Indices: 1908896--1908998 Score: 188
Period size: 32 Copynumber: 3.2 Consensus size: 32
1908886 AACAAGTAAC
1908896 TGTATCGATACATAAGTGTTGTATCGATACAA
1 TGTATCGATACATAAGTGTTGTATCGATACAA
*
1908928 TGTATCGATACATAAGTTTTGTATCGATACAA
1 TGTATCGATACATAAGTGTTGTATCGATACAA
*
1908960 TGTATCGATACATAAGTGTTGTATTGATACAA
1 TGTATCGATACATAAGTGTTGTATCGATACAA
1908992 TGTATCG
1 TGTATCG
1908999 CTACGAAGCT
Statistics
Matches: 68, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
32 68 1.00
ACGTcount: A:0.33, C:0.12, G:0.18, T:0.37
Consensus pattern (32 bp):
TGTATCGATACATAAGTGTTGTATCGATACAA
Found at i:1909061 original size:13 final size:13
Alignment explanation
Indices: 1909043--1909067 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1909033 ATTACTCAAA
1909043 TGTATCGATACAT
1 TGTATCGATACAT
1909056 TGTATCGATACA
1 TGTATCGATACA
1909068 CTGATCTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1913172 original size:29 final size:29
Alignment explanation
Indices: 1913084--1913801 Score: 910
Period size: 28 Copynumber: 24.9 Consensus size: 29
1913074 AAAAAAAATG
*
1913084 GTGCCACTAACTTGTGTGGGCTTTGAAAAGA
1 GTGCCACTGAC-T-TGTGGGCTTTGAAAAGA
*
1913115 GTTGCCACCGACTCGTGTGGGCTTTGAAAAGA
1 G-TGCCACTGACT--TGTGGGCTTTGAAAAGA
*
1913147 GTGCCACTAACTTGTGGGCTTTG-AAAG-
1 GTGCCACTGACTTGTGGGCTTTGAAAAGA
* *
1913174 GTGCCACTAACTTGTGGGCTTTGAAATG-
1 GTGCCACTGACTTGTGGGCTTTGAAAAGA
*
1913202 GTGCCACTGACTTGTGGACTTTGAAAAGA
1 GTGCCACTGACTTGTGGGCTTTGAAAAGA
* * *
1913231 GTGCCAGTAACTTATGGGCTTTG-AAAGA
1 GTGCCACTGACTTGTGGGCTTTGAAAAGA
*
1913259 GTGCCACTGACTTGCGTGGGCTTTG-AAAGG
1 GTGCCACTGACTT--GTGGGCTTTGAAAAGA
*
1913289 GTGCCACTGACTTGTGGGCTTTGAAAGGA
1 GTGCCACTGACTTGTGGGCTTTGAAAAGA
* *
1913318 -TGCCACTAACTTATGGGCTTTGAAAAGA
1 GTGCCACTGACTTGTGGGCTTTGAAAAGA
*
1913346 GTGCCACTGACTTGTGGGCTTTG-AAAGG
1 GTGCCACTGACTTGTGGGCTTTGAAAAGA
* *
1913374 GTGCCACTAACTTGCGTGGGCTTTG-AAAGG
1 GTGCCACTGACTT--GTGGGCTTTGAAAAGA
* * *
1913404 GTGCCACTGACTTGTGTAGACTCTG-AAAGG
1 GTGCCACTGACTTGTG--GGCTTTGAAAAGA
1913434 GTGCCACTGACTTGTGGGCTTTGAAAAGA
1 GTGCCACTGACTTGTGGGCTTTGAAAAGA
* *
1913463 GTGCTACTAACTTGTGGGCTTTGAAAAGA
1 GTGCCACTGACTTGTGGGCTTTGAAAAGA
*
1913492 GTGCCACTGACTTGTGGGCTTTG-AAAGG
1 GTGCCACTGACTTGTGGGCTTTGAAAAGA
*
1913520 GTGCCACTGACTTGTGTGAGCTTTG-AAAGG
1 GTGCCACTGACTTGTG-G-GCTTTGAAAAGA
1913550 GTGCCACTGACTTGTGGGCTTTGAAAAGA
1 GTGCCACTGACTTGTGGGCTTTGAAAAGA
*
1913579 GTGCCACTGATTTGTGGGCTTTGAAAAGA
1 GTGCCACTGACTTGTGGGCTTTGAAAAGA
* * *
1913608 ATTCGACTGACTTGTGGGCTTTG-AAAGA
1 GTGCCACTGACTTGTGGGCTTTGAAAAGA
*
1913636 GTGCCACTGACTTGTGGGCTTTG-AAAGG
1 GTGCCACTGACTTGTGGGCTTTGAAAAGA
*
1913664 GTGCCACTGACTTGTGGGCTTTGAAAGGA
1 GTGCCACTGACTTGTGGGCTTTGAAAAGA
1913693 -TGCCACTGACTTGTGGGCTTTGAAAAGA
1 GTGCCACTGACTTGTGGGCTTTGAAAAGA
* *
1913721 GTGCCACTGATTTGTGGGCTTTG-AAAGG
1 GTGCCACTGACTTGTGGGCTTTGAAAAGA
*
1913749 GTGCCACTGACTTGTGGGCTTTG-AAAGG
1 GTGCCACTGACTTGTGGGCTTTGAAAAGA
*
1913777 GTGCCACTGACTTATGGGCTTTGAA
1 GTGCCACTGACTTGTGGGCTTTGAA
1913802 GAGATGAACG
Statistics
Matches: 615, Mismatches: 53, Indels: 40
0.87 0.07 0.06
Matches are distributed among these distances:
27 23 0.04
28 265 0.43
29 183 0.30
30 106 0.17
31 11 0.02
32 27 0.04
ACGTcount: A:0.22, C:0.17, G:0.31, T:0.29
Consensus pattern (29 bp):
GTGCCACTGACTTGTGGGCTTTGAAAAGA
Found at i:1913256 original size:57 final size:57
Alignment explanation
Indices: 1913083--1913801 Score: 932
Period size: 57 Copynumber: 12.5 Consensus size: 57
1913073 TAAAAAAAAT
* *
1913083 GGTGCCACTAACTTGTGTGGGCTTTGAAAAGAGTTGCCACCGACTCGTGTGGGCTTTGAAAAG
1 GGTGCCACTGAC-T-TGTGGGCTTTGAAAAGAG-TGCCACTGACT--TGTGGGCTTTG-AAAG
* * * *
1913146 AGTGCCACTAACTTGTGGGCTTTG-AAAG-GTGCCACTAACTTGTGGGCTTTGAAAT
1 GGTGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTGAAAG
* * * *
1913201 GGTGCCACTGACTTGTGGACTTTGAAAAGAGTGCCAGTAACTTATGGGCTTTGAAAG
1 GGTGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTGAAAG
* *
1913258 AGTGCCACTGACTTGCGTGGGCTTTG-AAAGGGTGCCACTGACTTGTGGGCTTTGAAAG
1 GGTGCCACTGACTT--GTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTGAAAG
* * *
1913316 GATGCCACTAACTTATGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTGAAAG
1 GGTGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTGAAAG
* * * *
1913373 GGTGCCACTAACTTGCGTGGGCTTTG-AAAGGGTGCCACTGACTTGTGTAGACTCTGAAAG
1 GGTGCCACTGACTT--GTGGGCTTTGAAAAGAGTGCCACTGACTTGTG--GGCTTTGAAAG
* *
1913433 GGTGCCACTGACTTGTGGGCTTTGAAAAGAGTGCTACTAACTTGTGGGCTTTGAAAAG
1 GGTGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTG-AAAG
* *
1913491 AGTGCCACTGACTTGTGGGCTTTG-AAAGGGTGCCACTGACTTGTGTGAGCTTTGAAAG
1 GGTGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCACTGACTTGTG-G-GCTTTGAAAG
*
1913549 GGTGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCACTGATTTGTGGGCTTTGAAAAG
1 GGTGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTG-AAAG
** * *
1913607 AATTCGACTGACTTGTGGGCTTTG-AAAGAGTGCCACTGACTTGTGGGCTTTGAAAG
1 GGTGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTGAAAG
*
1913663 GGTGCCACTGACTTGTGGGCTTTGAAAGGA-TGCCACTGACTTGTGGGCTTTGAAAAG
1 GGTGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTG-AAAG
* * *
1913720 AGTGCCACTGATTTGTGGGCTTTG-AAAGGGTGCCACTGACTTGTGGGCTTTGAAAG
1 GGTGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTGAAAG
*
1913776 GGTGCCACTGACTTATGGGCTTTGAA
1 GGTGCCACTGACTTGTGGGCTTTGAA
1913802 GAGATGAACG
Statistics
Matches: 581, Mismatches: 56, Indels: 44
0.85 0.08 0.06
Matches are distributed among these distances:
55 24 0.04
56 98 0.17
57 190 0.33
58 158 0.27
59 62 0.11
60 26 0.04
61 11 0.02
62 1 0.00
63 11 0.02
ACGTcount: A:0.22, C:0.17, G:0.31, T:0.29
Consensus pattern (57 bp):
GGTGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTGAAAG
Found at i:1915054 original size:22 final size:19
Alignment explanation
Indices: 1915026--1915096 Score: 70
Period size: 22 Copynumber: 3.4 Consensus size: 19
1915016 CCCCTTTCTA
1915026 TTTTTTTGCTATTTTTTCTTGT
1 TTTTTTTG-T-TTTTTT-TTGT
*
1915048 TTTTTTTGGTTTTTTTTGTTTT
1 TTTTTTT-G-TTTTTTT-TTGT
1915070 TTGTTTTTGTTTTTTTTTGT
1 TT-TTTTTGTTTTTTTTTGT
1915090 TTTTTTT
1 TTTTTTT
1915097 TAAATTTGTT
Statistics
Matches: 43, Mismatches: 4, Indels: 7
0.80 0.07 0.13
Matches are distributed among these distances:
19 5 0.12
20 5 0.12
21 7 0.16
22 19 0.44
23 7 0.16
ACGTcount: A:0.01, C:0.03, G:0.11, T:0.85
Consensus pattern (19 bp):
TTTTTTTGTTTTTTTTTGT
Found at i:1915062 original size:32 final size:32
Alignment explanation
Indices: 1915026--1915096 Score: 99
Period size: 32 Copynumber: 2.2 Consensus size: 32
1915016 CCCCTTTCTA
1915026 TTTTTTTGCTATTTT-TTCTTGTTTTTTTTGGT
1 TTTTTTTG-TATTTTGTTCTTGTTTTTTTTGGT
* * *
1915058 TTTTTTTGTTTTTTGTTTTTGTTTTTTTTTGT
1 TTTTTTTGTATTTTGTTCTTGTTTTTTTTGGT
1915090 TTTTTTT
1 TTTTTTT
1915097 TAAATTTGTT
Statistics
Matches: 35, Mismatches: 3, Indels: 2
0.88 0.08 0.05
Matches are distributed among these distances:
31 5 0.14
32 30 0.86
ACGTcount: A:0.01, C:0.03, G:0.11, T:0.85
Consensus pattern (32 bp):
TTTTTTTGTATTTTGTTCTTGTTTTTTTTGGT
Found at i:1915075 original size:16 final size:15
Alignment explanation
Indices: 1915047--1915097 Score: 75
Period size: 16 Copynumber: 3.3 Consensus size: 15
1915037 TTTTTTCTTG
*
1915047 TTTTTTTTGGTTTTT
1 TTTTTTTTTGTTTTT
1915062 TTTGTTTTTTGTTTTT
1 TTT-TTTTTTGTTTTT
1915078 GTTTTTTTTTGTTTTT
1 -TTTTTTTTTGTTTTT
1915094 TTTT
1 TTTT
1915098 AAATTTGTTT
Statistics
Matches: 33, Mismatches: 1, Indels: 4
0.87 0.03 0.11
Matches are distributed among these distances:
15 7 0.21
16 23 0.70
17 3 0.09
ACGTcount: A:0.00, C:0.00, G:0.12, T:0.88
Consensus pattern (15 bp):
TTTTTTTTTGTTTTT
Found at i:1915097 original size:10 final size:10
Alignment explanation
Indices: 1915026--1915097 Score: 81
Period size: 10 Copynumber: 6.7 Consensus size: 10
1915016 CCCCTTTCTA
1915026 TTTTTTTGCTAT
1 TTTTTTTG-T-T
1915038 TTTTTCTTGTT
1 TTTTT-TTGTT
*
1915049 TTTTTTGGTT
1 TTTTTTTGTT
*
1915059 TTTTTTGTTTT
1 TTTTTT-TGTT
1915070 TTGTTTTTGTT
1 TT-TTTTTGTT
1915081 TTTTTTTGTT
1 TTTTTTTGTT
1915091 TTTTTTT
1 TTTTTTT
1915098 AAATTTGTTT
Statistics
Matches: 53, Mismatches: 4, Indels: 8
0.82 0.06 0.12
Matches are distributed among these distances:
10 25 0.47
11 15 0.28
12 10 0.19
13 3 0.06
ACGTcount: A:0.01, C:0.03, G:0.11, T:0.85
Consensus pattern (10 bp):
TTTTTTTGTT
Found at i:1915105 original size:32 final size:32
Alignment explanation
Indices: 1915026--1915110 Score: 95
Period size: 32 Copynumber: 2.7 Consensus size: 32
1915016 CCCCTTTCTA
1915026 TTTTTTTGCT-ATTT-TTTCTTGTTTTTTTTGGT
1 TTTTTTTG-TAATTTGTTT-TTGTTTTTTTTGGT
** *
1915058 TTTTTTTGTTTTTTGTTTTTGTTTTTTTTTGT
1 TTTTTTTGTAATTTGTTTTTGTTTTTTTTGGT
1915090 TTTTTTT-TAAATTTGTTTTTG
1 TTTTTTTGT-AATTTGTTTTTG
1915111 GGTGTAAAGG
Statistics
Matches: 46, Mismatches: 4, Indels: 6
0.82 0.07 0.11
Matches are distributed among these distances:
31 2 0.04
32 41 0.89
33 3 0.07
ACGTcount: A:0.05, C:0.02, G:0.12, T:0.81
Consensus pattern (32 bp):
TTTTTTTGTAATTTGTTTTTGTTTTTTTTGGT
Found at i:1915108 original size:23 final size:23
Alignment explanation
Indices: 1915060--1915110 Score: 59
Period size: 22 Copynumber: 2.3 Consensus size: 23
1915050 TTTTTGGTTT
*** *
1915060 TTTTTGTTTTTTGTTTTTGTTTT
1 TTTTTGTTTTTTGTTTAAATTTG
1915083 TTTTTGTTTTTT-TTTAAATTTG
1 TTTTTGTTTTTTGTTTAAATTTG
1915105 TTTTTG
1 TTTTTG
1915111 GGTGTAAAGG
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
22 12 0.50
23 12 0.50
ACGTcount: A:0.06, C:0.00, G:0.12, T:0.82
Consensus pattern (23 bp):
TTTTTGTTTTTTGTTTAAATTTG
Found at i:1915109 original size:1 final size:1
Alignment explanation
Indices: 1915037--1915097 Score: 50
Period size: 1 Copynumber: 61.0 Consensus size: 1
1915027 TTTTTTGCTA
* * ** * * * *
1915037 TTTTTTCTTGTTTTTTTTGGTTTTTTTTGTTTTTTGTTTTTGTTTTTTTTTGTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
1915098 AAATTTGTTT
Statistics
Matches: 46, Mismatches: 14, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
1 46 1.00
ACGTcount: A:0.00, C:0.02, G:0.11, T:0.87
Consensus pattern (1 bp):
T
Found at i:1927311 original size:11 final size:11
Alignment explanation
Indices: 1927281--1927311 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
1927271 TTATAGTTAA
*
1927281 TATAATTGCAT
1 TATAATTGTAT
1927292 TATAATTGTAT
1 TATAATTGTAT
1927303 TATAATTGT
1 TATAATTGT
1927312 TTAAAAATTT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.35, C:0.03, G:0.10, T:0.52
Consensus pattern (11 bp):
TATAATTGTAT
Found at i:1928204 original size:26 final size:25
Alignment explanation
Indices: 1928168--1928218 Score: 75
Period size: 26 Copynumber: 2.0 Consensus size: 25
1928158 GATTTAGAAG
*
1928168 GTTCAATCTTAGCTTTAAAAGATAAT
1 GTTCAATCTTAGCTTCAAAAG-TAAT
*
1928194 GTTCTATCTTAGCTTCAAAAGTAAT
1 GTTCAATCTTAGCTTCAAAAGTAAT
1928219 ATTTTCACTA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 4 0.17
26 19 0.83
ACGTcount: A:0.35, C:0.14, G:0.12, T:0.39
Consensus pattern (25 bp):
GTTCAATCTTAGCTTCAAAAGTAAT
Found at i:1931087 original size:34 final size:35
Alignment explanation
Indices: 1931049--1931115 Score: 102
Period size: 37 Copynumber: 1.9 Consensus size: 35
1931039 CCTTACAACA
1931049 CTATC-TTTC-AAGGCTAAGATAGAAACCTCTCTCT
1 CTATCTTTTCAAAGGCTAAGATAG-AACCTCTCTCT
1931083 CTATCTTTTTCAAAGGCTAAGATAGAACCTCTC
1 CTATC-TTTTCAAAGGCTAAGATAGAACCTCTC
1931116 AATCACTTAG
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
34 5 0.17
36 12 0.40
37 13 0.43
ACGTcount: A:0.30, C:0.25, G:0.12, T:0.33
Consensus pattern (35 bp):
CTATCTTTTCAAAGGCTAAGATAGAACCTCTCTCT
Found at i:1931591 original size:13 final size:13
Alignment explanation
Indices: 1931573--1931598 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1931563 CAATTTTTTG
1931573 TGTATCGATACAT
1 TGTATCGATACAT
1931586 TGTATCGATACAT
1 TGTATCGATACAT
1931599 ACTTGCTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1931663 original size:21 final size:21
Alignment explanation
Indices: 1931637--1931712 Score: 109
Period size: 21 Copynumber: 3.7 Consensus size: 21
1931627 CTGCCAAGAA
1931637 ATGTATCGATACATCTTTTTC
1 ATGTATCGATACATCTTTTTC
****
1931658 ATGTATCGATACAT-TGCAAC
1 ATGTATCGATACATCTTTTTC
1931678 ATGTATCGATACATCTTTTTC
1 ATGTATCGATACATCTTTTTC
1931699 ATGTATCGATACAT
1 ATGTATCGATACAT
1931713 TGCAACATGT
Statistics
Matches: 46, Mismatches: 8, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
20 16 0.35
21 30 0.65
ACGTcount: A:0.29, C:0.18, G:0.12, T:0.41
Consensus pattern (21 bp):
ATGTATCGATACATCTTTTTC
Found at i:1931682 original size:20 final size:20
Alignment explanation
Indices: 1931657--1931730 Score: 103
Period size: 20 Copynumber: 3.6 Consensus size: 20
1931647 ACATCTTTTT
1931657 CATGTATCGATACATTGCAA
1 CATGTATCGATACATTGCAA
****
1931677 CATGTATCGATACATCTTTTT
1 CATGTATCGATACAT-TGCAA
1931698 CATGTATCGATACATTGCAA
1 CATGTATCGATACATTGCAA
1931718 CATGTATCGATAC
1 CATGTATCGATAC
1931731 TTTGAATTGT
Statistics
Matches: 45, Mismatches: 8, Indels: 2
0.82 0.15 0.04
Matches are distributed among these distances:
20 29 0.64
21 16 0.36
ACGTcount: A:0.31, C:0.20, G:0.14, T:0.35
Consensus pattern (20 bp):
CATGTATCGATACATTGCAA
Found at i:1931694 original size:41 final size:41
Alignment explanation
Indices: 1931637--1931730 Score: 188
Period size: 41 Copynumber: 2.3 Consensus size: 41
1931627 CTGCCAAGAA
1931637 ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
1 ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
1931678 ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
1 ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
1931719 ATGTATCGATAC
1 ATGTATCGATAC
1931731 TTTGAATTGT
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 53 1.00
ACGTcount: A:0.30, C:0.19, G:0.13, T:0.38
Consensus pattern (41 bp):
ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
Found at i:1933666 original size:13 final size:13
Alignment explanation
Indices: 1933648--1933672 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1933638 ACTGAAGCAA
1933648 TGTATCGATACAT
1 TGTATCGATACAT
1933661 TGTATCGATACA
1 TGTATCGATACA
1933673 ATCTGGAAAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1934255 original size:24 final size:24
Alignment explanation
Indices: 1934227--1934273 Score: 69
Period size: 24 Copynumber: 1.9 Consensus size: 24
1934217 CAAAGAATTG
1934227 AACACAAATTCAATT-AAACAAAAA
1 AACACAAA-TCAATTAAAACAAAAA
1934251 AACACAAATCAATTGAAAACAAA
1 AACACAAATCAATT-AAAACAAA
1934274 TTTTCAACAA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
23 6 0.29
24 8 0.38
25 7 0.33
ACGTcount: A:0.66, C:0.17, G:0.02, T:0.15
Consensus pattern (24 bp):
AACACAAATCAATTAAAACAAAAA
Found at i:1935264 original size:84 final size:84
Alignment explanation
Indices: 1935174--1935338 Score: 201
Period size: 84 Copynumber: 2.0 Consensus size: 84
1935164 CATTTTCCAC
* * * * *
1935174 TTGCAACTCATTTC-TTTTCTCCTCTAATTCATTTATTTTCTTTCTAAAAGAAT-T-ATTTTCTA
1 TTGCAACTC-TTTCATATTCTCCTCTAATTCACTTAATTTATTT-T-AAAGAATATCATTCTCTA
1935236 AACTCATTGATTTACTTTCATT
63 AACTCATTGATTTACTTTCATT
* * *
1935258 TTGCAACTCTTTCATATTCTTCTCTAATTCACTTAATTTATTTTTAAGAATATCATTCTCTACAC
1 TTGCAACTCTTTCATATTCTCCTCTAATTCACTTAATTTATTTTAAAGAATATCATTCTCTAAAC
*
1935323 TTATTGATTTACTTTC
66 TCATTGATTTACTTTC
1935339 TTCTTTGAGT
Statistics
Matches: 69, Mismatches: 9, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
82 6 0.09
83 6 0.09
84 57 0.83
ACGTcount: A:0.25, C:0.19, G:0.04, T:0.52
Consensus pattern (84 bp):
TTGCAACTCTTTCATATTCTCCTCTAATTCACTTAATTTATTTTAAAGAATATCATTCTCTAAAC
TCATTGATTTACTTTCATT
Found at i:1936902 original size:34 final size:35
Alignment explanation
Indices: 1936864--1936930 Score: 102
Period size: 37 Copynumber: 1.9 Consensus size: 35
1936854 CCTTACAACA
1936864 CTATC-TTTC-AAGGCTAAGATAGAAACCTCTCTCT
1 CTATCTTTTCAAAGGCTAAGATAG-AACCTCTCTCT
1936898 CTATCTTTTTCAAAGGCTAAGATAGAACCTCTC
1 CTATC-TTTTCAAAGGCTAAGATAGAACCTCTC
1936931 AATCACTTAG
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
34 5 0.17
36 12 0.40
37 13 0.43
ACGTcount: A:0.30, C:0.25, G:0.12, T:0.33
Consensus pattern (35 bp):
CTATCTTTTCAAAGGCTAAGATAGAACCTCTCTCT
Found at i:1937406 original size:13 final size:13
Alignment explanation
Indices: 1937388--1937413 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1937378 CAATTTTTTG
1937388 TGTATCGATACAT
1 TGTATCGATACAT
1937401 TGTATCGATACAT
1 TGTATCGATACAT
1937414 ACTTGCTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1937478 original size:21 final size:21
Alignment explanation
Indices: 1937452--1937527 Score: 109
Period size: 21 Copynumber: 3.7 Consensus size: 21
1937442 CTGCCAAGAA
1937452 ATGTATCGATACATCTTTTTC
1 ATGTATCGATACATCTTTTTC
****
1937473 ATGTATCGATACAT-TGCAAC
1 ATGTATCGATACATCTTTTTC
1937493 ATGTATCGATACATCTTTTTC
1 ATGTATCGATACATCTTTTTC
1937514 ATGTATCGATACAT
1 ATGTATCGATACAT
1937528 TGCAACATGT
Statistics
Matches: 46, Mismatches: 8, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
20 16 0.35
21 30 0.65
ACGTcount: A:0.29, C:0.18, G:0.12, T:0.41
Consensus pattern (21 bp):
ATGTATCGATACATCTTTTTC
Found at i:1937497 original size:20 final size:20
Alignment explanation
Indices: 1937472--1937545 Score: 103
Period size: 20 Copynumber: 3.6 Consensus size: 20
1937462 ACATCTTTTT
1937472 CATGTATCGATACATTGCAA
1 CATGTATCGATACATTGCAA
****
1937492 CATGTATCGATACATCTTTTT
1 CATGTATCGATACAT-TGCAA
1937513 CATGTATCGATACATTGCAA
1 CATGTATCGATACATTGCAA
1937533 CATGTATCGATAC
1 CATGTATCGATAC
1937546 TTTGAATTGT
Statistics
Matches: 45, Mismatches: 8, Indels: 2
0.82 0.15 0.04
Matches are distributed among these distances:
20 29 0.64
21 16 0.36
ACGTcount: A:0.31, C:0.20, G:0.14, T:0.35
Consensus pattern (20 bp):
CATGTATCGATACATTGCAA
Done.