Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A09
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: 81831061
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 3560000 characters in sequence are not A, C, G, or T
File 250 of 259
Found at i:78403832 original size:46 final size:46
Alignment explanation
Indices: 78403604--78403827 Score: 299
Period size: 46 Copynumber: 4.8 Consensus size: 46
78403594 TTCGACATGA
* * * * *
78403604 TGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTCTGTCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTTCTGTCACGT
* ** * *
78403650 TGCCATGGTATCATTCAACCATGGTCTTATTCATTTCCCCGTCACGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTT-TCTGTCACGT
78403697 TGCCATGGTATCTTTCAACCATGGTCTTACACA-TTTCATGTCACGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTTC-TGTCACGT
* *
78403743 TGCCATGGTATCTTTCAACCATGGTCTTACACA-TTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTTC-TGTCACGT
78403789 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTTCT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTTCT
78403828 ATCAGAGAGC
Statistics
Matches: 160, Mismatches: 15, Indels: 6
0.88 0.08 0.03
Matches are distributed among these distances:
45 1 0.01
46 118 0.74
47 41 0.26
ACGTcount: A:0.21, C:0.25, G:0.15, T:0.39
Consensus pattern (46 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACACATTTTCTGTCACGT
Found at i:78407620 original size:12 final size:12
Alignment explanation
Indices: 78407603--78407672 Score: 106
Period size: 12 Copynumber: 5.8 Consensus size: 12
78407593 ATACAAGTTT
78407603 GAAAAAAAAATC
1 GAAAAAAAAATC
78407615 GAAAAAAAAATTC
1 GAAAAAAAAA-TC
78407628 GAAAAAAAAATC
1 GAAAAAAAAATC
78407640 GAAAAAAAAATTC
1 GAAAAAAAAA-TC
*
78407653 -AAAAAAAAATT
1 GAAAAAAAAATC
78407664 GAAAAAAAA
1 GAAAAAAAA
78407673 GTGATTTATA
Statistics
Matches: 54, Mismatches: 1, Indels: 6
0.89 0.02 0.10
Matches are distributed among these distances:
11 1 0.02
12 39 0.72
13 14 0.26
ACGTcount: A:0.76, C:0.06, G:0.07, T:0.11
Consensus pattern (12 bp):
GAAAAAAAAATC
Found at i:78407622 original size:13 final size:13
Alignment explanation
Indices: 78407604--78407672 Score: 90
Period size: 13 Copynumber: 5.5 Consensus size: 13
78407594 TACAAGTTTG
78407604 AAAAAAAAATCGA
1 AAAAAAAAATCGA
*
78407617 AAAAAAAATTCG-
1 AAAAAAAAATCGA
78407629 AAAAAAAAATCGA
1 AAAAAAAAATCGA
*
78407642 AAAAAAAATTC--
1 AAAAAAAAATCGA
*
78407653 AAAAAAAAATTGA
1 AAAAAAAAATCGA
78407666 AAAAAAA
1 AAAAAAA
78407673 GTGATTTATA
Statistics
Matches: 48, Mismatches: 5, Indels: 6
0.81 0.08 0.10
Matches are distributed among these distances:
11 9 0.19
12 11 0.23
13 28 0.58
ACGTcount: A:0.77, C:0.06, G:0.06, T:0.12
Consensus pattern (13 bp):
AAAAAAAAATCGA
Found at i:78407631 original size:25 final size:25
Alignment explanation
Indices: 78407603--78407672 Score: 124
Period size: 25 Copynumber: 2.8 Consensus size: 25
78407593 ATACAAGTTT
78407603 GAAAAAAAAATCGAAAAAAAAATTC
1 GAAAAAAAAATCGAAAAAAAAATTC
78407628 GAAAAAAAAATCGAAAAAAAAATTC
1 GAAAAAAAAATCGAAAAAAAAATTC
*
78407653 -AAAAAAAAATTGAAAAAAAA
1 GAAAAAAAAATCGAAAAAAAA
78407673 GTGATTTATA
Statistics
Matches: 44, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
24 19 0.43
25 25 0.57
ACGTcount: A:0.76, C:0.06, G:0.07, T:0.11
Consensus pattern (25 bp):
GAAAAAAAAATCGAAAAAAAAATTC
Found at i:78408618 original size:21 final size:20
Alignment explanation
Indices: 78408584--78408651 Score: 66
Period size: 21 Copynumber: 3.2 Consensus size: 20
78408574 ACATTCTTGT
78408584 AAAGAGAAAA-CAAAGAAAAGA
1 AAAGA-AAAAGCAAA-AAAAGA
*
78408605 AAAGAAAAAGCAAAAGAAGAA
1 AAAGAAAAAGCAAAAAAAG-A
* *
78408626 AAAGAAAACGAAATAAAAAGA
1 AAAGAAAAAGCAA-AAAAAGA
78408647 AAAGA
1 AAAGA
78408652 GAGGTAAGAG
Statistics
Matches: 40, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
20 8 0.20
21 27 0.68
22 5 0.12
ACGTcount: A:0.76, C:0.04, G:0.18, T:0.01
Consensus pattern (20 bp):
AAAGAAAAAGCAAAAAAAGA
Found at i:78408619 original size:6 final size:5
Alignment explanation
Indices: 78408595--78408651 Score: 55
Period size: 5 Copynumber: 11.0 Consensus size: 5
78408585 AAGAGAAAAC
*
78408595 AAAGA AAAGA AAAGAA AAAGCA AAAGA AGA-A AAAGA AAACGA AATA-A
1 AAAGA AAAGA AAAG-A AAAG-A AAAGA AAAGA AAAGA AAA-GA AA-AGA
78408642 AAAGA AAAGA
1 AAAGA AAAGA
78408652 GAGGTAAGAG
Statistics
Matches: 44, Mismatches: 3, Indels: 10
0.77 0.05 0.18
Matches are distributed among these distances:
4 4 0.09
5 25 0.57
6 14 0.32
7 1 0.02
ACGTcount: A:0.77, C:0.04, G:0.18, T:0.02
Consensus pattern (5 bp):
AAAGA
Found at i:78408626 original size:15 final size:14
Alignment explanation
Indices: 78408595--78408651 Score: 60
Period size: 16 Copynumber: 3.7 Consensus size: 14
78408585 AAGAGAAAAC
78408595 AAAGAAAAGAAAAGAA
1 AAAGAAAAG--AAGAA
78408611 AAAGCAAAAGAAGAA
1 AAAG-AAAAGAAGAA
*
78408626 AAAGAAAACGAAATAA
1 AAAGAAAA-G-AAGAA
78408642 AAAGAAAAGA
1 AAAGAAAAGA
78408652 GAGGTAAGAG
Statistics
Matches: 37, Mismatches: 1, Indels: 8
0.80 0.02 0.17
Matches are distributed among these distances:
14 5 0.14
15 11 0.30
16 16 0.43
17 5 0.14
ACGTcount: A:0.77, C:0.04, G:0.18, T:0.02
Consensus pattern (14 bp):
AAAGAAAAGAAGAA
Found at i:78413401 original size:29 final size:30
Alignment explanation
Indices: 78413344--78413411 Score: 75
Period size: 30 Copynumber: 2.3 Consensus size: 30
78413334 CACCCTTAAA
* * * *
78413344 ATATTTGCACTATTAGTCCTTCAACTTTTC
1 ATATTTACACTATTAATCCCTCAAATTTTC
*
78413374 ATATTTACACT-TTAATCCCTCAAATTTTG
1 ATATTTACACTATTAATCCCTCAAATTTTC
78413403 AGTATTTAC
1 A-TATTTAC
78413412 TCTTGGGCCA
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
29 15 0.47
30 17 0.53
ACGTcount: A:0.28, C:0.21, G:0.06, T:0.46
Consensus pattern (30 bp):
ATATTTACACTATTAATCCCTCAAATTTTC
Found at i:78420453 original size:217 final size:218
Alignment explanation
Indices: 78420074--78420514 Score: 706
Period size: 217 Copynumber: 2.0 Consensus size: 218
78420064 TACTAGTGTA
*
78420074 TTTCTTTTGGAGTTTTGAGGAAAAATCATTTACCAAATAAGTCAACAAAACTACTCATACTACAG
1 TTTCTTTTGGAGTTTCGAGGAAAAATCATTTACCAAATAAGTCAACAAAACTACTCATACTACAG
* *
78420139 TGTTTTTATGTCAACTACAACTAGTTTCACGTGACCTGTTTTTATAAGATTTGTCCTACTCATAT
66 TGTTTTTATATCAACCACAACTAGTTTCACGTGACCTGTTTTTATAAGATTTGTCCTACTCATAT
* *
78420204 GCCATCTTTGGCTTACTTTCTATACATTGCAGTTGGAGATTCCAAAAC-AGTACTTAATCCAAAT
131 GCCAGCTTTGGCTTACTATCTATACATTGCAGTTGGAGATTCCAAAACAAGTACTTAATCCAAAT
78420268 TTGTTCAATGCTTGGATGATGCT
196 TTGTTCAATGCTTGGATGATGCT
* *
78420291 TTTCTTTTGGAGTTTCGAGGAAAAATCATTTACCAAATATA-TCGACAAAATTACTCATACTACA
1 TTTCTTTTGGAGTTTCGAGGAAAAATCATTTACCAAATA-AGTCAACAAAACTACTCATACTACA
* ** ** *
78420355 GTGTTTTTATATCAACCGCAACTAGTTTCTTGTGACCTGTTTTTATAAGATTTGTTGTACTCTTA
65 GTGTTTTTATATCAACCACAACTAGTTTCACGTGACCTGTTTTTATAAGATTTGTCCTACTCATA
* * * *
78420420 TGCCAGCTTTGGCTTACTATCTATACTTTGCAGTTGGAGATTCCAAAACAATTACTTGATCCAAT
130 TGCCAGCTTTGGCTTACTATCTATACATTGCAGTTGGAGATTCCAAAACAAGTACTTAATCCAAA
78420485 TTTGTTCAATGCTTGGATGATGCT
195 TTTGTTCAATGCTTGGATGATGCT
78420509 TTTCTT
1 TTTCTT
78420515 AAATGTTTTG
Statistics
Matches: 205, Mismatches: 17, Indels: 3
0.91 0.08 0.01
Matches are distributed among these distances:
217 162 0.79
218 43 0.21
ACGTcount: A:0.28, C:0.18, G:0.15, T:0.39
Consensus pattern (218 bp):
TTTCTTTTGGAGTTTCGAGGAAAAATCATTTACCAAATAAGTCAACAAAACTACTCATACTACAG
TGTTTTTATATCAACCACAACTAGTTTCACGTGACCTGTTTTTATAAGATTTGTCCTACTCATAT
GCCAGCTTTGGCTTACTATCTATACATTGCAGTTGGAGATTCCAAAACAAGTACTTAATCCAAAT
TTGTTCAATGCTTGGATGATGCT
Found at i:78445598 original size:29 final size:27
Alignment explanation
Indices: 78445565--78445646 Score: 74
Period size: 30 Copynumber: 2.8 Consensus size: 27
78445555 ATAAATCCCA
78445565 AATTTATACATAAATTTTGATTAATAT
1 AATTTATACATAAATTTTGATTAATAT
* * * *
78445592 GCAATTTGATATATGAATTTTAATTTGATAT
1 --AATTT-ATACATAAATTTTGA-TTAATAT
78445623 AATTGTATACATGAAATTTTGATT
1 AATT-TATACAT-AAATTTTGATT
78445647 GTGGTTCAAA
Statistics
Matches: 42, Mismatches: 7, Indels: 8
0.74 0.12 0.14
Matches are distributed among these distances:
29 16 0.38
30 20 0.48
31 6 0.14
ACGTcount: A:0.39, C:0.04, G:0.10, T:0.48
Consensus pattern (27 bp):
AATTTATACATAAATTTTGATTAATAT
Found at i:78450598 original size:19 final size:18
Alignment explanation
Indices: 78450557--78450599 Score: 50
Period size: 18 Copynumber: 2.3 Consensus size: 18
78450547 AAATTAGTTG
* *
78450557 ATTTATATTTTATATAAA
1 ATTTATAATTCATATAAA
*
78450575 TTTTATAATTCATCATAAA
1 ATTTATAATTCAT-ATAAA
78450594 ATTTAT
1 ATTTAT
78450600 TTGATAAAAA
Statistics
Matches: 20, Mismatches: 4, Indels: 1
0.80 0.16 0.04
Matches are distributed among these distances:
18 10 0.50
19 10 0.50
ACGTcount: A:0.42, C:0.05, G:0.00, T:0.53
Consensus pattern (18 bp):
ATTTATAATTCATATAAA
Found at i:78452603 original size:14 final size:14
Alignment explanation
Indices: 78452586--78452621 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 14
78452576 AATAAATTAA
78452586 ATTTTTTAAAAATT
1 ATTTTTTAAAAATT
*
78452600 ATTTATTAAAAATT
1 ATTTTTTAAAAATT
*
78452614 AATTTTTA
1 ATTTTTTA
78452622 TACATGAAAA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (14 bp):
ATTTTTTAAAAATT
Found at i:78454818 original size:28 final size:27
Alignment explanation
Indices: 78454753--78454829 Score: 75
Period size: 28 Copynumber: 2.8 Consensus size: 27
78454743 AATTATATAA
* *
78454753 AAATAATTTTTATTTATTTTTAATCAT
1 AAATACTTTTTATTTAATTTTAATCAT
**
78454780 ATTTACTTTTTTATTTCCAATTTTAAT-AT
1 AAATAC-TTTTTATTT--AATTTTAATCAT
*
78454809 AAATACTTTTTATTTTATTTT
1 AAATACTTTTTATTTAATTTT
78454830 CAATTTTTGT
Statistics
Matches: 40, Mismatches: 7, Indels: 7
0.74 0.13 0.13
Matches are distributed among these distances:
26 5 0.12
27 3 0.08
28 18 0.45
29 6 0.15
30 8 0.20
ACGTcount: A:0.31, C:0.06, G:0.00, T:0.62
Consensus pattern (27 bp):
AAATACTTTTTATTTAATTTTAATCAT
Found at i:78454896 original size:19 final size:20
Alignment explanation
Indices: 78454872--78454913 Score: 59
Period size: 19 Copynumber: 2.1 Consensus size: 20
78454862 TCTCACATTT
78454872 TATTTGTTTCT-TGTTTTAA
1 TATTTGTTTCTATGTTTTAA
* *
78454891 TATTTGTTTTTATGTTTTTA
1 TATTTGTTTCTATGTTTTAA
78454911 TAT
1 TAT
78454914 GTTTTTGATT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
19 10 0.50
20 10 0.50
ACGTcount: A:0.17, C:0.02, G:0.10, T:0.71
Consensus pattern (20 bp):
TATTTGTTTCTATGTTTTAA
Found at i:78454947 original size:18 final size:18
Alignment explanation
Indices: 78454895--78454944 Score: 59
Period size: 18 Copynumber: 2.8 Consensus size: 18
78454885 TTTTAATATT
78454895 TGTTTTT-ATGTTTTTATA
1 TGTTTTTAAT-TTTTTATA
* *
78454913 TGTTTTTGATTTATTATA
1 TGTTTTTAATTTTTTATA
78454931 T-TTTTTAATTTTTT
1 TGTTTTTAATTTTTT
78454945 TATTTAATGA
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
17 11 0.39
18 15 0.54
19 2 0.07
ACGTcount: A:0.18, C:0.00, G:0.08, T:0.74
Consensus pattern (18 bp):
TGTTTTTAATTTTTTATA
Found at i:78454948 original size:16 final size:16
Alignment explanation
Indices: 78454905--78454949 Score: 54
Period size: 17 Copynumber: 2.7 Consensus size: 16
78454895 TGTTTTTATG
*
78454905 TTTTTATATGTTTTTGA
1 TTTTTATAT-TTTTTAA
78454922 TTTATTATATTTTTTAA
1 TTT-TTATATTTTTTAA
*
78454939 TTTTTTTATTT
1 TTTTTATATTT
78454950 AATGAAAAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
16 7 0.28
17 12 0.48
18 6 0.24
ACGTcount: A:0.20, C:0.00, G:0.04, T:0.76
Consensus pattern (16 bp):
TTTTTATATTTTTTAA
Found at i:78457705 original size:62 final size:62
Alignment explanation
Indices: 78457639--78457763 Score: 250
Period size: 62 Copynumber: 2.0 Consensus size: 62
78457629 TTTCTAGAAA
78457639 ATAAATTATTTTTCAGAATTTATTTTCAATACGACAAACGCAACCTCATATTCAATACTAAT
1 ATAAATTATTTTTCAGAATTTATTTTCAATACGACAAACGCAACCTCATATTCAATACTAAT
78457701 ATAAATTATTTTTCAGAATTTATTTTCAATACGACAAACGCAACCTCATATTCAATACTAAT
1 ATAAATTATTTTTCAGAATTTATTTTCAATACGACAAACGCAACCTCATATTCAATACTAAT
78457763 A
1 A
78457764 CTTAAATCAC
Statistics
Matches: 63, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
62 63 1.00
ACGTcount: A:0.41, C:0.18, G:0.05, T:0.37
Consensus pattern (62 bp):
ATAAATTATTTTTCAGAATTTATTTTCAATACGACAAACGCAACCTCATATTCAATACTAAT
Found at i:78458230 original size:12 final size:12
Alignment explanation
Indices: 78458213--78458240 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
78458203 GAGTCTTTGG
78458213 AAGATTGGGGAA
1 AAGATTGGGGAA
78458225 AAGATTGGGGAA
1 AAGATTGGGGAA
78458237 AAGA
1 AAGA
78458241 AATGTTTTTG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.46, C:0.00, G:0.39, T:0.14
Consensus pattern (12 bp):
AAGATTGGGGAA
Found at i:78467261 original size:19 final size:18
Alignment explanation
Indices: 78467239--78467278 Score: 62
Period size: 19 Copynumber: 2.2 Consensus size: 18
78467229 TATTCTAAAC
*
78467239 ATATATTTTTAGTATTTTT
1 ATATATTTTTAAT-TTTTT
78467258 ATATATTTTTAATTTTTT
1 ATATATTTTTAATTTTTT
78467276 ATA
1 ATA
78467279 ACAAATCATT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
18 8 0.40
19 12 0.60
ACGTcount: A:0.30, C:0.00, G:0.03, T:0.68
Consensus pattern (18 bp):
ATATATTTTTAATTTTTT
Found at i:78467274 original size:8 final size:10
Alignment explanation
Indices: 78467239--78467278 Score: 50
Period size: 9 Copynumber: 4.3 Consensus size: 10
78467229 TATTCTAAAC
78467239 ATATATTTTT
1 ATATATTTTT
*
78467249 A-GTATTTTT
1 ATATATTTTT
78467258 ATATATTTTT
1 ATATATTTTT
78467268 A-AT-TTTTT
1 ATATATTTTT
78467276 ATA
1 ATA
78467279 ACAAATCATT
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
8 6 0.23
9 11 0.42
10 9 0.35
ACGTcount: A:0.30, C:0.00, G:0.03, T:0.68
Consensus pattern (10 bp):
ATATATTTTT
Found at i:78467321 original size:29 final size:30
Alignment explanation
Indices: 78467270--78467326 Score: 80
Period size: 29 Copynumber: 1.9 Consensus size: 30
78467260 ATATTTTTAA
* **
78467270 TTTTTTATAACAAATCATTTTTA-AAAATT
1 TTTTTTAAAACAAATCAAATTTATAAAATT
78467299 TTTTTTAAAACAAATCAAATTTATAAAA
1 TTTTTTAAAACAAATCAAATTTATAAAA
78467327 AAATATTAGA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
29 20 0.83
30 4 0.17
ACGTcount: A:0.47, C:0.07, G:0.00, T:0.46
Consensus pattern (30 bp):
TTTTTTAAAACAAATCAAATTTATAAAATT
Found at i:78469372 original size:5 final size:5
Alignment explanation
Indices: 78469362--78469409 Score: 71
Period size: 5 Copynumber: 9.4 Consensus size: 5
78469352 TTATGTTTTA
78469362 ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT A-TAT ATATAT ATATAT AT
1 ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT AT-TAT AT-TAT AT
78469410 AAACTAAAGA
Statistics
Matches: 41, Mismatches: 0, Indels: 3
0.93 0.00 0.07
Matches are distributed among these distances:
4 4 0.10
5 26 0.63
6 11 0.27
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (5 bp):
ATTAT
Found at i:78469396 original size:2 final size:2
Alignment explanation
Indices: 78469364--78469410 Score: 59
Period size: 2 Copynumber: 26.0 Consensus size: 2
78469354 ATGTTTTAAT
78469364 TA TA T- TA TA T- TA TA T- TA TA T- TA TA T- TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
78469401 TA TA TA TA TA
1 TA TA TA TA TA
78469411 AACTAAAGAA
Statistics
Matches: 40, Mismatches: 0, Indels: 10
0.80 0.00 0.20
Matches are distributed among these distances:
1 5 0.12
2 35 0.88
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (2 bp):
TA
Found at i:78470691 original size:10 final size:10
Alignment explanation
Indices: 78470676--78470706 Score: 62
Period size: 10 Copynumber: 3.1 Consensus size: 10
78470666 CTGCTGGAAT
78470676 TGAAGAGAAA
1 TGAAGAGAAA
78470686 TGAAGAGAAA
1 TGAAGAGAAA
78470696 TGAAGAGAAA
1 TGAAGAGAAA
78470706 T
1 T
78470707 CTAGATATTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 21 1.00
ACGTcount: A:0.58, C:0.00, G:0.29, T:0.13
Consensus pattern (10 bp):
TGAAGAGAAA
Found at i:78473142 original size:5 final size:5
Alignment explanation
Indices: 78473132--78473187 Score: 105
Period size: 5 Copynumber: 11.4 Consensus size: 5
78473122 TTATGTTTTA
78473132 ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT
1 ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT
78473182 A-TAT AT
1 ATTAT AT
78473188 AAACTAAAGA
Statistics
Matches: 50, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
4 4 0.08
5 46 0.92
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (5 bp):
ATTAT
Found at i:78474787 original size:6 final size:6
Alignment explanation
Indices: 78474777--78474807 Score: 53
Period size: 6 Copynumber: 5.2 Consensus size: 6
78474767 GTCGAATATT
*
78474777 GTTACT GTTACC GTTACC GTTACC GTTACC G
1 GTTACC GTTACC GTTACC GTTACC GTTACC G
78474808 ATTCAACACT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.16, C:0.29, G:0.19, T:0.35
Consensus pattern (6 bp):
GTTACC
Found at i:78474818 original size:57 final size:57
Alignment explanation
Indices: 78474720--78474841 Score: 172
Period size: 57 Copynumber: 2.1 Consensus size: 57
78474710 TTATGTGCTG
* * **
78474720 GTTACTGTTACCGCTACTGCTACTGTTACCAAATCGGCACTTTGTGTGTCGAATATT
1 GTTACTGTTACCGCTACCGCTACCGTTACCAAATCAACACTTTGTGTGTCGAATATT
* * * *
78474777 GTTACTGTTACCGTTACCGTTACCGTTACCGATTCAACACTTTGTGTGTCGAATATT
1 GTTACTGTTACCGCTACCGCTACCGTTACCAAATCAACACTTTGTGTGTCGAATATT
78474834 GTTACTGT
1 GTTACTGT
78474842 ACTATTACTG
Statistics
Matches: 57, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
57 57 1.00
ACGTcount: A:0.20, C:0.22, G:0.19, T:0.39
Consensus pattern (57 bp):
GTTACTGTTACCGCTACCGCTACCGTTACCAAATCAACACTTTGTGTGTCGAATATT
Found at i:78475050 original size:18 final size:18
Alignment explanation
Indices: 78475017--78475312 Score: 172
Period size: 18 Copynumber: 16.1 Consensus size: 18
78475007 AAAGGTATAA
* *
78475017 AATAACTGATTATTACTG
1 AATAATTGATTGTTACTG
* *
78475035 AATAATTGACTGTTACCG
1 AATAATTGATTGTTACTG
*
78475053 GATAATTGATTGTTACT-
1 AATAATTGATTGTTACTG
*
78475070 AGAT-ATTAGATTGTTATTG
1 A-ATAATT-GATTGTTACTG
* * *
78475089 AATAACTGAATATTACTG
1 AATAATTGATTGTTACTG
**
78475107 AATAATTGATCATTACTG
1 AATAATTGATTGTTACTG
* *
78475125 AATAACTGATTGTCACTG
1 AATAATTGATTGTTACTG
*
78475143 AATGAA-TGACTGTTACTG
1 AAT-AATTGATTGTTACTG
*
78475161 AATAACTTAATTGTTACTG
1 AATAA-TTGATTGTTACTG
78475180 AAT-ATCTGATT-TTACTG
1 AATAAT-TGATTGTTACTG
* *
78475197 AATAGTTGACTGTTACTGG
1 AATAATTGATTGTTACT-G
* *
78475216 ATAACCGATCAATTGATCGATACTG
1 ---A---AT-AATTGATTGTTACTG
* * * *
78475241 AATAACTGGTTATTATTG
1 AATAATTGATTGTTACTG
* *
78475259 AATATTTGATTGTTACCG
1 AATAATTGATTGTTACTG
* *
78475277 AATAACTGACTGTTACTG
1 AATAATTGATTGTTACTG
* *
78475295 AATAAATAATTGTT-CTG
1 AATAATTGATTGTTACTG
78475312 A
1 A
78475313 GAGTTAATGA
Statistics
Matches: 210, Mismatches: 50, Indels: 37
0.71 0.17 0.12
Matches are distributed among these distances:
17 23 0.11
18 151 0.72
19 21 0.10
22 2 0.01
25 3 0.01
26 10 0.05
ACGTcount: A:0.34, C:0.11, G:0.16, T:0.39
Consensus pattern (18 bp):
AATAATTGATTGTTACTG
Found at i:78475220 original size:54 final size:54
Alignment explanation
Indices: 78475017--78475312 Score: 215
Period size: 54 Copynumber: 5.4 Consensus size: 54
78475007 AAAGGTATAA
* * *
78475017 AATAACTGATTATTACTGAATAATTGACTGTTACCGGATAATTGATTGTTACT-
1 AATAACTGATTGTTACTGAATAATTGACTGTTACTGAATAATTGATTGTTACTG
* * * * * **
78475070 AGAT-ATTAGATTGTTATTGAATAACTGAATATTACTGAATAATTGATCATTACTG
1 A-ATAACT-GATTGTTACTGAATAATTGACTGTTACTGAATAATTGATTGTTACTG
* *
78475125 AATAACTGATTGTCACTGAATGAA-TGACTGTTACTGAATAACTTAATTGTTACTG
1 AATAACTGATTGTTACTGAAT-AATTGACTGTTACTGAATAA-TTGATTGTTACTG
* * * *
78475180 AATATCTGATT-TTACTGAATAGTTGACTGTTACTGGATAACCGATCAATTGATCGATACTG
1 AATAACTGATTGTTACTGAATAATTGACTGTTACT-G---A---AT-AATTGATTGTTACTG
* * * * * * * *
78475241 AATAACTGGTTATTATTGAATATTTGATTGTTACCGAATAACTGACTGTTACTG
1 AATAACTGATTGTTACTGAATAATTGACTGTTACTGAATAATTGATTGTTACTG
* *
78475295 AATAAATAATTGTT-CTGA
1 AATAACTGATTGTTACTGA
78475313 GAGTTAATGA
Statistics
Matches: 188, Mismatches: 39, Indels: 32
0.73 0.15 0.12
Matches are distributed among these distances:
53 7 0.04
54 108 0.57
55 28 0.15
58 2 0.01
61 22 0.12
62 21 0.11
ACGTcount: A:0.34, C:0.11, G:0.16, T:0.39
Consensus pattern (54 bp):
AATAACTGATTGTTACTGAATAATTGACTGTTACTGAATAATTGATTGTTACTG
Found at i:78477349 original size:5 final size:5
Alignment explanation
Indices: 78477339--78477401 Score: 126
Period size: 5 Copynumber: 12.6 Consensus size: 5
78477329 TTACTTATTT
78477339 ATATA ATATA ATATA ATATA ATATA ATATA ATATA ATATA ATATA ATATA
1 ATATA ATATA ATATA ATATA ATATA ATATA ATATA ATATA ATATA ATATA
78477389 ATATA ATATA ATA
1 ATATA ATATA ATA
78477402 ACAATTTCTT
Statistics
Matches: 58, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 58 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (5 bp):
ATATA
Found at i:78477533 original size:21 final size:22
Alignment explanation
Indices: 78477494--78477546 Score: 65
Period size: 21 Copynumber: 2.5 Consensus size: 22
78477484 CATACAATTG
*
78477494 TTAAAATAATATTATAATATCA
1 TTAAAATAATATTACAATATCA
*
78477516 TTAATATAA-ATTACAATAT-A
1 TTAAAATAATATTACAATATCA
*
78477536 ATAAAATAATA
1 TTAAAATAATA
78477547 ATATAGTCTT
Statistics
Matches: 26, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
20 8 0.31
21 10 0.38
22 8 0.31
ACGTcount: A:0.58, C:0.04, G:0.00, T:0.38
Consensus pattern (22 bp):
TTAAAATAATATTACAATATCA
Found at i:78493179 original size:6 final size:6
Alignment explanation
Indices: 78493168--78493203 Score: 72
Period size: 6 Copynumber: 6.0 Consensus size: 6
78493158 AATAATTGTA
78493168 AATTAT AATTAT AATTAT AATTAT AATTAT AATTAT
1 AATTAT AATTAT AATTAT AATTAT AATTAT AATTAT
78493204 CACAACTTTT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (6 bp):
AATTAT
Found at i:78493346 original size:17 final size:18
Alignment explanation
Indices: 78493326--78493359 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
78493316 ATAACTTCTA
78493326 TTAAAT-TATAATTATTT
1 TTAAATGTATAATTATTT
*
78493343 TTAAATGTATAGTTATT
1 TTAAATGTATAATTATT
78493360 CCAACTTTTT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.38, C:0.00, G:0.06, T:0.56
Consensus pattern (18 bp):
TTAAATGTATAATTATTT
Found at i:78493600 original size:31 final size:30
Alignment explanation
Indices: 78493556--78493619 Score: 92
Period size: 31 Copynumber: 2.1 Consensus size: 30
78493546 ATTATGAAAT
* *
78493556 AAATGTTAAAATTTATTTAAGTATAAATTA
1 AAATATTAAAATTTATTTAAATATAAATTA
*
78493586 AAATATTAATAATTTATTTAAATGTAAATTA
1 AAATATTAA-AATTTATTTAAATATAAATTA
78493617 AAA
1 AAA
78493620 GGTAAGAAAT
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
30 8 0.27
31 22 0.73
ACGTcount: A:0.53, C:0.00, G:0.05, T:0.42
Consensus pattern (30 bp):
AAATATTAAAATTTATTTAAATATAAATTA
Found at i:78504916 original size:113 final size:113
Alignment explanation
Indices: 78504718--78504944 Score: 454
Period size: 113 Copynumber: 2.0 Consensus size: 113
78504708 GCTTCTTGTG
78504718 TACTTCTGCCTTCTCATAAAGCTATCAAATCGCTTGTACCACTGCCTCGGGGATTGCTTCAATCC
1 TACTTCTGCCTTCTCATAAAGCTATCAAATCGCTTGTACCACTGCCTCGGGGATTGCTTCAATCC
78504783 ATATAACGATTTGTTCAGCTTACAAACCCAATTTCTACCACCAGCATC
66 ATATAACGATTTGTTCAGCTTACAAACCCAATTTCTACCACCAGCATC
78504831 TACTTCTGCCTTCTCATAAAGCTATCAAATCGCTTGTACCACTGCCTCGGGGATTGCTTCAATCC
1 TACTTCTGCCTTCTCATAAAGCTATCAAATCGCTTGTACCACTGCCTCGGGGATTGCTTCAATCC
78504896 ATATAACGATTTGTTCAGCTTACAAACCCAATTTCTACCACCAGCATC
66 ATATAACGATTTGTTCAGCTTACAAACCCAATTTCTACCACCAGCATC
78504944 T
1 T
78504945 GTGTATCCTT
Statistics
Matches: 114, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
113 114 1.00
ACGTcount: A:0.26, C:0.30, G:0.12, T:0.31
Consensus pattern (113 bp):
TACTTCTGCCTTCTCATAAAGCTATCAAATCGCTTGTACCACTGCCTCGGGGATTGCTTCAATCC
ATATAACGATTTGTTCAGCTTACAAACCCAATTTCTACCACCAGCATC
Found at i:78505578 original size:21 final size:21
Alignment explanation
Indices: 78505552--78505592 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
78505542 ATCTGCTCAA
* *
78505552 ACTCCACCTGTTTTGGAGTAC
1 ACTCCACCTGCTGTGGAGTAC
78505573 ACTCCACCTGCTGTGGAGTA
1 ACTCCACCTGCTGTGGAGTA
78505593 TTGCTCGTTT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.20, C:0.29, G:0.22, T:0.29
Consensus pattern (21 bp):
ACTCCACCTGCTGTGGAGTAC
Found at i:78513479 original size:16 final size:18
Alignment explanation
Indices: 78513458--78513490 Score: 52
Period size: 16 Copynumber: 1.9 Consensus size: 18
78513448 AATATTTTTA
78513458 TTAGTT-GTGT-ATAATT
1 TTAGTTAGTGTAATAATT
78513474 TTAGTTAGTGTAATAAT
1 TTAGTTAGTGTAATAAT
78513491 AAATTTAGCT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 6 0.40
17 4 0.27
18 5 0.33
ACGTcount: A:0.30, C:0.00, G:0.18, T:0.52
Consensus pattern (18 bp):
TTAGTTAGTGTAATAATT
Found at i:78530506 original size:58 final size:57
Alignment explanation
Indices: 78530377--78530507 Score: 199
Period size: 57 Copynumber: 2.3 Consensus size: 57
78530367 AACTACACTA
78530377 GTTTCAAGTTAAAACATAATCTCATAGTGATCTCCGCCACACATCTTTATAGAAACG
1 GTTTCAAGTTAAAACATAATCTCATAGTGATCTCCGCCACACATCTTTATAGAAACG
* * * * * *
78530434 ATCTCGAGTTAAAACATAGTCTCATAGTGATCTCTGCCACCACATCTTTATCGAAACG
1 GTTTCAAGTTAAAACATAATCTCATAGTGATCTCCGCCA-CACATCTTTATAGAAACG
78530492 GTTTCAAGTTAAAACA
1 GTTTCAAGTTAAAACA
78530508 CATCTTTATC
Statistics
Matches: 64, Mismatches: 9, Indels: 1
0.86 0.12 0.01
Matches are distributed among these distances:
57 34 0.53
58 30 0.47
ACGTcount: A:0.34, C:0.23, G:0.13, T:0.30
Consensus pattern (57 bp):
GTTTCAAGTTAAAACATAATCTCATAGTGATCTCCGCCACACATCTTTATAGAAACG
Found at i:78530515 original size:32 final size:32
Alignment explanation
Indices: 78530474--78530603 Score: 251
Period size: 32 Copynumber: 4.1 Consensus size: 32
78530464 TCTCTGCCAC
*
78530474 CACATCTTTATCGAAACGGTTTCAAGTTAAAA
1 CACATCTTTATCGAAACGGTTTCAATTTAAAA
78530506 CACATCTTTATCGAAACGGTTTCAATTTAAAA
1 CACATCTTTATCGAAACGGTTTCAATTTAAAA
78530538 CACATCTTTATCGAAACGGTTTCAATTTAAAA
1 CACATCTTTATCGAAACGGTTTCAATTTAAAA
78530570 CACATCTTTATCGAAACGGTTTCAATTTAAAA
1 CACATCTTTATCGAAACGGTTTCAATTTAAAA
78530602 CA
1 CA
78530604 TAATCTCATA
Statistics
Matches: 97, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
32 97 1.00
ACGTcount: A:0.38, C:0.19, G:0.10, T:0.33
Consensus pattern (32 bp):
CACATCTTTATCGAAACGGTTTCAATTTAAAA
Found at i:78530663 original size:90 final size:90
Alignment explanation
Indices: 78530538--78530751 Score: 383
Period size: 90 Copynumber: 2.4 Consensus size: 90
78530528 CAATTTAAAA
* *
78530538 CACATCTTTATCGAAACGGTTTCAATTTAAAACACATCTTTATCGAAACGGTTTCAATTTAAAAC
1 CACATCTTTATCGAAACAGTTTCAAGTTAAAACACATCTTTATCGAAACGGTTTCAATTTAAAAC
78530603 ATAATCTCATAGTGATCTCCGCCAC
66 ATAATCTCATAGTGATCTCCGCCAC
*
78530628 CACATCTTTATTGAAACAGTTTCAAGTTAAAACACATCTTTATCGAAACGGTTTCAATTTAAAAC
1 CACATCTTTATCGAAACAGTTTCAAGTTAAAACACATCTTTATCGAAACGGTTTCAATTTAAAAC
*
78530693 ATAGTCTCATAGTGATCTCCGCCAC
66 ATAATCTCATAGTGATCTCCGCCAC
*
78530718 CACATCTTTATCGAAACTGTTTCAAGTTAAAACA
1 CACATCTTTATCGAAACAGTTTCAAGTTAAAACA
78530752 TGGTCTCATA
Statistics
Matches: 118, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
90 118 1.00
ACGTcount: A:0.35, C:0.22, G:0.10, T:0.32
Consensus pattern (90 bp):
CACATCTTTATCGAAACAGTTTCAAGTTAAAACACATCTTTATCGAAACGGTTTCAATTTAAAAC
ATAATCTCATAGTGATCTCCGCCAC
Found at i:78530669 original size:32 final size:32
Alignment explanation
Indices: 78530628--78530693 Score: 105
Period size: 32 Copynumber: 2.1 Consensus size: 32
78530618 TCTCCGCCAC
*
78530628 CACATCTTTATTGAAACAGTTTCAAGTTAAAA
1 CACATCTTTATCGAAACAGTTTCAAGTTAAAA
* *
78530660 CACATCTTTATCGAAACGGTTTCAATTTAAAA
1 CACATCTTTATCGAAACAGTTTCAAGTTAAAA
78530692 CA
1 CA
78530694 TAGTCTCATA
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
32 31 1.00
ACGTcount: A:0.39, C:0.18, G:0.09, T:0.33
Consensus pattern (32 bp):
CACATCTTTATCGAAACAGTTTCAAGTTAAAA
Found at i:78530750 original size:58 final size:58
Alignment explanation
Indices: 78530660--78530970 Score: 397
Period size: 58 Copynumber: 5.5 Consensus size: 58
78530650 CAAGTTAAAA
78530660 CACATCTTTATCGAAACGGTTTCAATTTAAAACATAGTCTCATAGTGATCTCCGCCAC
1 CACATCTTTATCGAAACGGTTTCAATTTAAAACATAGTCTCATAGTGATCTCCGCCAC
* * * *
78530718 CACATCTTTATCGAAACTGTTTCAAGTTAAAACATGGTCTCATAGTGATATCCGCCAC
1 CACATCTTTATCGAAACGGTTTCAATTTAAAACATAGTCTCATAGTGATCTCCGCCAC
*
78530776 CACATCTTTATTGAAACGGTTTCAATTTAAAACATAGTCTCATAGTGATCTCCGCCAC
1 CACATCTTTATCGAAACGGTTTCAATTTAAAACATAGTCTCATAGTGATCTCCGCCAC
* ** * * * * * ** *
78530834 CGCATCTTTAAAGAAACAGTTCCAAGTTAAAACATGGTTTCA-A-T--T-T---AAAA
1 CACATCTTTATCGAAACGGTTTCAATTTAAAACATAGTCTCATAGTGATCTCCGCCAC
* *
78530884 CACATCTTTATCGAAACAGTTTCAATTTAAAACATAGTCTCA-AGTGATCTCCACCAC
1 CACATCTTTATCGAAACGGTTTCAATTTAAAACATAGTCTCATAGTGATCTCCGCCAC
78530941 CACATCTTTATCGAAACGGTTTCAATTTAA
1 CACATCTTTATCGAAACGGTTTCAATTTAA
78530971 GACTATTTTC
Statistics
Matches: 215, Mismatches: 31, Indels: 15
0.82 0.12 0.06
Matches are distributed among these distances:
50 37 0.17
51 1 0.00
53 2 0.01
54 2 0.01
56 1 0.00
57 31 0.14
58 141 0.66
ACGTcount: A:0.34, C:0.23, G:0.12, T:0.32
Consensus pattern (58 bp):
CACATCTTTATCGAAACGGTTTCAATTTAAAACATAGTCTCATAGTGATCTCCGCCAC
Found at i:78530914 original size:50 final size:49
Alignment explanation
Indices: 78530836--78530991 Score: 134
Period size: 50 Copynumber: 3.0 Consensus size: 49
78530826 TCCGCCACCG
** * *
78530836 CATCTTTAAAGAAACAGTTCCAAGTTAAAACATGGTTTCAATTTAAAACA
1 CATCTTTATCGAAACAGTTTCAATTTAAAACAT-GTTTCAATTTAAAACA
* * *
78530886 CATCTTTATCGAAACAGTTTCAATTTAAAACATAGTCTCAAGTGATCTCCACCACCA
1 CATCTTTATCGAAACAGTTTCAATTTAAAACAT-GTTTCAA-T--T-T--A-AAACA
* *
78530943 CATCTTTATCGAAACGGTTTCAATTTAAGACTAT-TTTCAATTTAAAACA
1 CATCTTTATCGAAACAGTTTCAATTTAAAAC-ATGTTTCAATTTAAAACA
78530992 TAGTCTCACA
Statistics
Matches: 85, Mismatches: 13, Indels: 17
0.74 0.11 0.15
Matches are distributed among these distances:
49 3 0.04
50 36 0.42
51 1 0.01
52 1 0.01
53 2 0.02
54 1 0.01
55 1 0.01
56 6 0.07
57 32 0.38
58 2 0.02
ACGTcount: A:0.38, C:0.20, G:0.09, T:0.33
Consensus pattern (49 bp):
CATCTTTATCGAAACAGTTTCAATTTAAAACATGTTTCAATTTAAAACA
Found at i:78531025 original size:75 final size:74
Alignment explanation
Indices: 78530903--78531045 Score: 259
Period size: 75 Copynumber: 1.9 Consensus size: 74
78530893 ATCGAAACAG
78530903 TTTCAATTTAAAACATAGTCTCAAGTGATCTCCACCACCACATCTTTATCGAAACGGTTTCAATT
1 TTTCAATTTAAAACATAGTCTCAAGTGATCTCCACCACCACATCTTTATCGAAACGGTTTCAATT
78530968 TAAGACTAT
66 TAAGACTAT
* *
78530977 TTTCAATTTAAAACATAGTCTCACAGTGATCTCCGCCACCACATCTTTATCGAAACGGTTTCAGT
1 TTTCAATTTAAAACATAGTCTCA-AGTGATCTCCACCACCACATCTTTATCGAAACGGTTTCAAT
78531042 TTAA
65 TTAA
78531046 AATATAGTCT
Statistics
Matches: 66, Mismatches: 2, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
74 23 0.35
75 43 0.65
ACGTcount: A:0.32, C:0.24, G:0.10, T:0.34
Consensus pattern (74 bp):
TTTCAATTTAAAACATAGTCTCAAGTGATCTCCACCACCACATCTTTATCGAAACGGTTTCAATT
TAAGACTAT
Found at i:78531067 original size:58 final size:58
Alignment explanation
Indices: 78530977--78531095 Score: 175
Period size: 58 Copynumber: 2.1 Consensus size: 58
78530967 TTAAGACTAT
*
78530977 TTTCAATTTAAAACATAGTCTCACAGTGATCTCCGCCACCACATCTTTATCGAAACGG
1 TTTCAATTTAAAACATAGTCTCACAGTGATCTCCGCCACCACATCTTTATCAAAACGG
* * ** * *
78531035 TTTCAGTTTAAAATATAGTCTCATTGTGATCTCTGCCACCACATCTTTATCAAAATGG
1 TTTCAATTTAAAACATAGTCTCACAGTGATCTCCGCCACCACATCTTTATCAAAACGG
78531093 TTT
1 TTT
78531096 TGACCAGACG
Statistics
Matches: 54, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
58 54 1.00
ACGTcount: A:0.29, C:0.24, G:0.12, T:0.35
Consensus pattern (58 bp):
TTTCAATTTAAAACATAGTCTCACAGTGATCTCCGCCACCACATCTTTATCAAAACGG
Found at i:78541310 original size:17 final size:17
Alignment explanation
Indices: 78541278--78541329 Score: 61
Period size: 16 Copynumber: 3.1 Consensus size: 17
78541268 TTTATAAAAA
*
78541278 TAAATAAAATTTAATTTT
1 TAAA-AAAAATTAATTTT
* *
78541296 TAAAAATAGTTAA-TTT
1 TAAAAAAAATTAATTTT
78541312 TAAAAAAAATTAATTTT
1 TAAAAAAAATTAATTTT
78541329 T
1 T
78541330 TTTTAAAAAA
Statistics
Matches: 29, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
16 14 0.48
17 11 0.38
18 4 0.14
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.46
Consensus pattern (17 bp):
TAAAAAAAATTAATTTT
Found at i:78541680 original size:26 final size:28
Alignment explanation
Indices: 78541637--78541702 Score: 75
Period size: 26 Copynumber: 2.4 Consensus size: 28
78541627 AATTCACTCA
*
78541637 TTTTTTAAATCTATTTATA-TT-AATTT
1 TTTTTTAAATATATTTATACTTCAATTT
78541663 TTTTTCTAAATATA-TTATACTTCAATTT
1 TTTTT-TAAATATATTTATACTTCAATTT
78541691 TATATTTTAAAT
1 T-T-TTTTAAAT
78541703 GTTTTTCTAT
Statistics
Matches: 34, Mismatches: 1, Indels: 7
0.81 0.02 0.17
Matches are distributed among these distances:
26 10 0.29
27 9 0.26
28 6 0.18
29 6 0.18
30 3 0.09
ACGTcount: A:0.33, C:0.06, G:0.00, T:0.61
Consensus pattern (28 bp):
TTTTTTAAATATATTTATACTTCAATTT
Found at i:78544027 original size:31 final size:31
Alignment explanation
Indices: 78543983--78544052 Score: 88
Period size: 31 Copynumber: 2.3 Consensus size: 31
78543973 TATGAAAATA
* * *
78543983 ATGTGTACAATTGA-CTCAAAATTAAAGTTTT
1 ATGTGTATAATTGAGC-CAAAATCAAAGTTTC
*
78544014 ATGTGTATGATTGAGCCAAAATCAAAGTTTC
1 ATGTGTATAATTGAGCCAAAATCAAAGTTTC
78544045 ATGTGTAT
1 ATGTGTAT
78544053 TGTTGTGCAA
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
31 33 0.97
32 1 0.03
ACGTcount: A:0.36, C:0.10, G:0.17, T:0.37
Consensus pattern (31 bp):
ATGTGTATAATTGAGCCAAAATCAAAGTTTC
Found at i:78548730 original size:422 final size:422
Alignment explanation
Indices: 78547946--78548790 Score: 1672
Period size: 422 Copynumber: 2.0 Consensus size: 422
78547936 ACATCCTCCG
78547946 AACACCAAATGGCGTGAAATACAATAAACCATAAATCAAAATCTAGATTTCTTGGCCTAGTAATT
1 AACACCAAATGGCGTGAAATACAATAAACCATAAATCAAAATCTAGATTTCTTGGCCTAGTAATT
78548011 GAATAACAGACTTGGAGAAGCACTATTTTCACAGATCTTGGACACTCAAACCTGCAAATATGAAA
66 GAATAACAGACTTGGAGAAGCACTATTTTCACAGATCTTGGACACTCAAACCTGCAAATATGAAA
*
78548076 AAGAATGATAGGTAATGGTCAACACTAATGACCCAGAACATCGAGATGTTACAATAATAGAAACA
131 AAGAATGAGAGGTAATGGTCAACACTAATGACCCAGAACATCGAGATGTTACAATAATAGAAACA
78548141 ACACTAAGAATGAAAGGTATAGTCAAGGCCAAGAACGATAAGAAAGAACACTGGGACAACTTGTA
196 ACACTAAGAATGAAAGGTATAGTCAAGGCCAAGAACGATAAGAAAGAACACTGGGACAACTTGTA
78548206 ATGTTGCAAGAATGACAGCAATGGCAACAATACTTCATTTCAACTATGTATGTATATACAATTTT
261 ATGTTGCAAGAATGACAGCAATGGCAACAATACTTCATTTCAACTATGTATGTATATACAATTTT
78548271 CTAACATGCTTGTTCAATCAAGAAAAGAACAAAGGGAATGGTCGGGACCAAGAACATTGAGACAG
326 CTAACATGCTTGTTCAATCAAGAAAAGAACAAAGGGAATGGTCGGGACCAAGAACATTGAGACAG
78548336 AAACAATAAGTCGTTGCATCTACAATTCTATA
391 AAACAATAAGTCGTTGCATCTACAATTCTATA
*
78548368 AACACCAAATGGCGTGAAATACAATAAACCATAAATCAAAATCTAGATTTCTTGGTCTAGTAATT
1 AACACCAAATGGCGTGAAATACAATAAACCATAAATCAAAATCTAGATTTCTTGGCCTAGTAATT
78548433 GAATAACAGACTTGGAGAAGCACTATTTTCACAGATCTTGGACACTCAAACCTGCAAATATGAAA
66 GAATAACAGACTTGGAGAAGCACTATTTTCACAGATCTTGGACACTCAAACCTGCAAATATGAAA
78548498 AAGAATGAGAGGTAATGGTCAACACTAATGACCCAGAACATCGAGATGTTACAATAATAGAAACA
131 AAGAATGAGAGGTAATGGTCAACACTAATGACCCAGAACATCGAGATGTTACAATAATAGAAACA
78548563 ACACTAAGAATGAAAGGTATAGTCAAGGCCAAGAACGATAAGAAAGAACACTGGGACAACTTGTA
196 ACACTAAGAATGAAAGGTATAGTCAAGGCCAAGAACGATAAGAAAGAACACTGGGACAACTTGTA
78548628 ATGTTGCAAGAATGACAGCAATGGCAACAATACTTCATTTCAACTATGTATGTATATACAATTTT
261 ATGTTGCAAGAATGACAGCAATGGCAACAATACTTCATTTCAACTATGTATGTATATACAATTTT
78548693 CTAACATGCTTGTTCAATCAAGAAAAGAACAAAGGGAATGGTCGGGACCAAGAACATTGAGACAG
326 CTAACATGCTTGTTCAATCAAGAAAAGAACAAAGGGAATGGTCGGGACCAAGAACATTGAGACAG
78548758 AAACAATAAGTCGTTGCATCTACAATTCTATA
391 AAACAATAAGTCGTTGCATCTACAATTCTATA
78548790 A
1 A
78548791 CATGCTGGTT
Statistics
Matches: 421, Mismatches: 2, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
422 421 1.00
ACGTcount: A:0.42, C:0.17, G:0.18, T:0.23
Consensus pattern (422 bp):
AACACCAAATGGCGTGAAATACAATAAACCATAAATCAAAATCTAGATTTCTTGGCCTAGTAATT
GAATAACAGACTTGGAGAAGCACTATTTTCACAGATCTTGGACACTCAAACCTGCAAATATGAAA
AAGAATGAGAGGTAATGGTCAACACTAATGACCCAGAACATCGAGATGTTACAATAATAGAAACA
ACACTAAGAATGAAAGGTATAGTCAAGGCCAAGAACGATAAGAAAGAACACTGGGACAACTTGTA
ATGTTGCAAGAATGACAGCAATGGCAACAATACTTCATTTCAACTATGTATGTATATACAATTTT
CTAACATGCTTGTTCAATCAAGAAAAGAACAAAGGGAATGGTCGGGACCAAGAACATTGAGACAG
AAACAATAAGTCGTTGCATCTACAATTCTATA
Found at i:78549791 original size:41 final size:42
Alignment explanation
Indices: 78549734--78549813 Score: 144
Period size: 41 Copynumber: 1.9 Consensus size: 42
78549724 TCGCATTGCC
78549734 CGTTTTGGCCTTGGTTATATAA-TTTTACCATAATACGTTCT
1 CGTTTTGGCCTTGGTTATATAATTTTTACCATAATACGTTCT
*
78549775 CGTTTTGGCCTTGGTTATATAATTTTTACTATAATACGT
1 CGTTTTGGCCTTGGTTATATAATTTTTACCATAATACGT
78549814 ATCCGAGGGC
Statistics
Matches: 37, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
41 22 0.59
42 15 0.41
ACGTcount: A:0.23, C:0.15, G:0.15, T:0.47
Consensus pattern (42 bp):
CGTTTTGGCCTTGGTTATATAATTTTTACCATAATACGTTCT
Found at i:78550440 original size:21 final size:23
Alignment explanation
Indices: 78550406--78550451 Score: 62
Period size: 21 Copynumber: 2.1 Consensus size: 23
78550396 TATTTTAAAA
78550406 ATATTTATATTAA-TTTCAATTTT
1 ATATTTATATTAATTTTC-ATTTT
78550429 ATATTTA-A-TAATTTTCATTTT
1 ATATTTATATTAATTTTCATTTT
78550450 AT
1 AT
78550452 TAAAATTTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
21 10 0.45
22 5 0.23
23 7 0.32
ACGTcount: A:0.35, C:0.04, G:0.00, T:0.61
Consensus pattern (23 bp):
ATATTTATATTAATTTTCATTTT
Found at i:78558106 original size:28 final size:27
Alignment explanation
Indices: 78558065--78558124 Score: 75
Period size: 28 Copynumber: 2.2 Consensus size: 27
78558055 TGGCCGGCCT
* *
78558065 TATATCATTTAGGCGGCAGAATAGACCA
1 TATATCATTCAGGCAGCAG-ATAGACCA
* *
78558093 TATATCATTCAGGCAGTAGATCGACCA
1 TATATCATTCAGGCAGCAGATAGACCA
78558120 TATAT
1 TATAT
78558125 AAAAGCTAAC
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
27 12 0.43
28 16 0.57
ACGTcount: A:0.35, C:0.18, G:0.18, T:0.28
Consensus pattern (27 bp):
TATATCATTCAGGCAGCAGATAGACCA
Found at i:78562629 original size:22 final size:22
Alignment explanation
Indices: 78562604--78562677 Score: 58
Period size: 22 Copynumber: 3.1 Consensus size: 22
78562594 CTATATCTAC
78562604 TTTAATTTCAATCTTTATTTTA
1 TTTAATTTCAATCTTTATTTTA
* * * *
78562626 TTTAATTACGATTTGTTTCTATATCTA
1 TTTAATTTC-A-AT-CTT-TAT-TTTA
78562653 CTTTAATTTCAATCTTTATTTTA
1 -TTTAATTTCAATCTTTATTTTA
78562676 TT
1 TT
78562678 CGTTTGATTT
Statistics
Matches: 38, Mismatches: 8, Indels: 12
0.66 0.14 0.21
Matches are distributed among these distances:
22 10 0.26
23 4 0.11
24 4 0.11
25 4 0.11
26 4 0.11
27 4 0.11
28 8 0.21
ACGTcount: A:0.26, C:0.11, G:0.03, T:0.61
Consensus pattern (22 bp):
TTTAATTTCAATCTTTATTTTA
Found at i:78562631 original size:50 final size:50
Alignment explanation
Indices: 78562577--78562677 Score: 202
Period size: 50 Copynumber: 2.0 Consensus size: 50
78562567 CAAATAAATG
78562577 TTAATTACGATTTGTTTCTATATCTACTTTAATTTCAATCTTTATTTTAT
1 TTAATTACGATTTGTTTCTATATCTACTTTAATTTCAATCTTTATTTTAT
78562627 TTAATTACGATTTGTTTCTATATCTACTTTAATTTCAATCTTTATTTTAT
1 TTAATTACGATTTGTTTCTATATCTACTTTAATTTCAATCTTTATTTTAT
78562677 T
1 T
78562678 CGTTTGATTT
Statistics
Matches: 51, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
50 51 1.00
ACGTcount: A:0.26, C:0.12, G:0.04, T:0.58
Consensus pattern (50 bp):
TTAATTACGATTTGTTTCTATATCTACTTTAATTTCAATCTTTATTTTAT
Found at i:78562658 original size:28 final size:28
Alignment explanation
Indices: 78562577--78562660 Score: 90
Period size: 28 Copynumber: 3.2 Consensus size: 28
78562567 CAAATAAATG
78562577 TTAATTACGATTTGTTTCTATATCTACT
1 TTAATTACGATTTGTTTCTATATCTACT
* * * *
78562605 TTAATTTC-A-AT-CTT-TAT-TTTA-T
1 TTAATTACGATTTGTTTCTATATCTACT
78562627 TTAATTACGATTTGTTTCTATATCTACT
1 TTAATTACGATTTGTTTCTATATCTACT
78562655 TTAATT
1 TTAATT
78562661 TCAATCTTTA
Statistics
Matches: 42, Mismatches: 8, Indels: 12
0.68 0.13 0.19
Matches are distributed among these distances:
22 8 0.19
23 4 0.10
24 4 0.10
25 4 0.10
26 4 0.10
27 4 0.10
28 14 0.33
ACGTcount: A:0.26, C:0.12, G:0.05, T:0.57
Consensus pattern (28 bp):
TTAATTACGATTTGTTTCTATATCTACT
Found at i:78572203 original size:16 final size:17
Alignment explanation
Indices: 78572182--78572215 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
78572172 TTTTTTATTA
78572182 AAGGAAAGATT-TTTAC
1 AAGGAAAGATTGTTTAC
*
78572198 AAGGAAAGGTTGTTTAC
1 AAGGAAAGATTGTTTAC
78572215 A
1 A
78572216 GAGAGGATAC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 10 0.62
17 6 0.38
ACGTcount: A:0.41, C:0.06, G:0.24, T:0.29
Consensus pattern (17 bp):
AAGGAAAGATTGTTTAC
Found at i:78582816 original size:16 final size:17
Alignment explanation
Indices: 78582785--78582818 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
78582775 GTATCTTCTC
78582785 TGTAAACAACCTTTCCT
1 TGTAAACAACCTTTCCT
*
78582802 TGTAAA-AATCTTTCCT
1 TGTAAACAACCTTTCCT
78582818 T
1 T
78582819 TAATAAAAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 10 0.62
17 6 0.38
ACGTcount: A:0.29, C:0.24, G:0.06, T:0.41
Consensus pattern (17 bp):
TGTAAACAACCTTTCCT
Found at i:78584256 original size:23 final size:23
Alignment explanation
Indices: 78584221--78584271 Score: 61
Period size: 25 Copynumber: 2.2 Consensus size: 23
78584211 TATTATTTTT
78584221 ATATAAAAATAAAT-T-TAAAAA
1 ATATAAAAATAAATATATAAAAA
*
78584242 ATATAATAAATTAAATATATTAAAA
1 ATATAA-AAA-TAAATATATAAAAA
78584267 ATATA
1 ATATA
78584272 TTATGTTTAA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
21 6 0.24
22 3 0.12
23 5 0.20
24 1 0.04
25 10 0.40
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (23 bp):
ATATAAAAATAAATATATAAAAA
Found at i:78584267 original size:27 final size:26
Alignment explanation
Indices: 78584227--78584303 Score: 73
Period size: 27 Copynumber: 2.8 Consensus size: 26
78584217 TTTTATATAA
*
78584227 AAATAAATTTAAAAAATATAATAAATT
1 AAATAAATTAAAAAAATATAAT-AATT
* * * **
78584254 AAATATATTAAAAATATATTATGTTT
1 AAATAAATTAAAAAAATATAATAATT
78584280 AAATAACATTAAAATAAATATAAT
1 AAATAA-ATTAAAA-AAATATAAT
78584304 TTAACAAATA
Statistics
Matches: 39, Mismatches: 9, Indels: 3
0.76 0.18 0.06
Matches are distributed among these distances:
26 7 0.18
27 25 0.64
28 7 0.18
ACGTcount: A:0.61, C:0.01, G:0.01, T:0.36
Consensus pattern (26 bp):
AAATAAATTAAAAAAATATAATAATT
Found at i:78584382 original size:19 final size:20
Alignment explanation
Indices: 78584339--78584382 Score: 56
Period size: 19 Copynumber: 2.3 Consensus size: 20
78584329 ATAATAAAAT
*
78584339 TAACAATAAAACAATAATTA
1 TAACAATAAAACAATAATAA
*
78584359 T-ACAATATAACAA-AATAA
1 TAACAATAAAACAATAATAA
78584377 TAACAA
1 TAACAA
78584383 AATCATAACC
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
18 5 0.24
19 15 0.71
20 1 0.05
ACGTcount: A:0.66, C:0.11, G:0.00, T:0.23
Consensus pattern (20 bp):
TAACAATAAAACAATAATAA
Found at i:78587706 original size:30 final size:31
Alignment explanation
Indices: 78587652--78587717 Score: 107
Period size: 30 Copynumber: 2.2 Consensus size: 31
78587642 CCAAAAAAAG
78587652 ATTAAATTAAATAGTTTATAATTTTTAAGGT
1 ATTAAATTAAATAGTTTATAATTTTTAAGGT
* *
78587683 ATTAAATTAAAT-TTTTATCATTTTTAAGGT
1 ATTAAATTAAATAGTTTATAATTTTTAAGGT
78587713 ATTAA
1 ATTAA
78587718 TTGTACCATT
Statistics
Matches: 33, Mismatches: 2, Indels: 1
0.92 0.06 0.03
Matches are distributed among these distances:
30 21 0.64
31 12 0.36
ACGTcount: A:0.41, C:0.02, G:0.08, T:0.50
Consensus pattern (31 bp):
ATTAAATTAAATAGTTTATAATTTTTAAGGT
Found at i:78588521 original size:29 final size:29
Alignment explanation
Indices: 78588466--78588522 Score: 78
Period size: 29 Copynumber: 2.0 Consensus size: 29
78588456 CCTCATCAAA
* * *
78588466 TTAATTAATTTATTATTAAATAGATTAAT
1 TTAATTAATATATTATTAAAAAAATTAAT
*
78588495 TTAATTAATATATTGTTAAAAAAATTAA
1 TTAATTAATATATTATTAAAAAAATTAA
78588523 ATACGGCTAA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
29 24 1.00
ACGTcount: A:0.49, C:0.00, G:0.04, T:0.47
Consensus pattern (29 bp):
TTAATTAATATATTATTAAAAAAATTAAT
Found at i:78590337 original size:2 final size:2
Alignment explanation
Indices: 78590330--78590361 Score: 57
Period size: 2 Copynumber: 16.5 Consensus size: 2
78590320 GACGAGGGCT
78590330 TA TA TA TA TA TA TA TA TA TA TA TA TA T- TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
78590362 TTGGTGGTCA
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 28 0.97
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (2 bp):
TA
Found at i:78591023 original size:22 final size:22
Alignment explanation
Indices: 78590996--78591047 Score: 95
Period size: 22 Copynumber: 2.4 Consensus size: 22
78590986 TTAGTTGTTG
78590996 AGTTATTTAATGCAATTTTTGT
1 AGTTATTTAATGCAATTTTTGT
78591018 AGTTATTTAATGCAATTTTTGT
1 AGTTATTTAATGCAATTTTTGT
*
78591040 AGTGATTT
1 AGTTATTT
78591048 GTGATTGTTG
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
22 29 1.00
ACGTcount: A:0.27, C:0.04, G:0.15, T:0.54
Consensus pattern (22 bp):
AGTTATTTAATGCAATTTTTGT
Found at i:78597967 original size:18 final size:18
Alignment explanation
Indices: 78597940--78598028 Score: 124
Period size: 18 Copynumber: 4.9 Consensus size: 18
78597930 CCCAACTACT
*
78597940 GTATACGTGAACAGTACC
1 GTATACGTGAATAGTACC
*
78597958 GTATATGTGAATAGTACC
1 GTATACGTGAATAGTACC
*
78597976 GTATACGTGAATAGTACT
1 GTATACGTGAATAGTACC
* * *
78597994 ATATACATGAATAGTGCC
1 GTATACGTGAATAGTACC
78598012 GTATACGTGAATAGTAC
1 GTATACGTGAATAGTAC
78598029 TGTAAACGGT
Statistics
Matches: 60, Mismatches: 11, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
18 60 1.00
ACGTcount: A:0.35, C:0.15, G:0.21, T:0.29
Consensus pattern (18 bp):
GTATACGTGAATAGTACC
Found at i:78600785 original size:16 final size:16
Alignment explanation
Indices: 78600764--78600832 Score: 129
Period size: 16 Copynumber: 4.2 Consensus size: 16
78600754 TTTGGTTCGC
78600764 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
78600780 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
78600796 TGTATTGGGATTAGAGG
1 TGTATT-GGATTAGAGG
78600813 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
78600829 TGTA
1 TGTA
78600833 ATAGCTAATC
Statistics
Matches: 52, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
16 36 0.69
17 16 0.31
ACGTcount: A:0.25, C:0.00, G:0.38, T:0.38
Consensus pattern (16 bp):
TGTATTGGATTAGAGG
Found at i:78600810 original size:33 final size:32
Alignment explanation
Indices: 78600764--78600832 Score: 129
Period size: 33 Copynumber: 2.1 Consensus size: 32
78600754 TTTGGTTCGC
78600764 TGTATTGGATTAGAGGTGTATTGGATTAGAGG
1 TGTATTGGATTAGAGGTGTATTGGATTAGAGG
78600796 TGTATTGGGATTAGAGGTGTATTGGATTAGAGG
1 TGTATT-GGATTAGAGGTGTATTGGATTAGAGG
78600829 TGTA
1 TGTA
78600833 ATAGCTAATC
Statistics
Matches: 36, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
32 6 0.17
33 30 0.83
ACGTcount: A:0.25, C:0.00, G:0.38, T:0.38
Consensus pattern (32 bp):
TGTATTGGATTAGAGGTGTATTGGATTAGAGG
Found at i:78600897 original size:44 final size:45
Alignment explanation
Indices: 78600813--78600903 Score: 121
Period size: 45 Copynumber: 2.0 Consensus size: 45
78600803 GGATTAGAGG
* * *
78600813 TGTATTGGATTAGAGGTGTAATAGCTAATCCACTGTTTGGTTGAA
1 TGTAATGGAATAGAGGCGTAATAGCTAATCCACTGTTTGGTTGAA
***
78600858 TGTAATGGAATAGAGGCGTAATAG-TAATCTTGTGTTTGGTTGAA
1 TGTAATGGAATAGAGGCGTAATAGCTAATCCACTGTTTGGTTGAA
78600902 TG
1 TG
78600904 GAATAGAGGT
Statistics
Matches: 40, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
44 19 0.47
45 21 0.52
ACGTcount: A:0.27, C:0.07, G:0.29, T:0.37
Consensus pattern (45 bp):
TGTAATGGAATAGAGGCGTAATAGCTAATCCACTGTTTGGTTGAA
Found at i:78601089 original size:18 final size:19
Alignment explanation
Indices: 78601068--78601104 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
78601058 TTATTATTAA
78601068 ATAT-ATTT-TAATTAAAAT
1 ATATAATTTATAA-TAAAAT
78601086 ATATAATTTATAATAAAAT
1 ATATAATTTATAATAAAAT
78601105 TCTTAATAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
18 4 0.24
19 10 0.59
20 3 0.18
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (19 bp):
ATATAATTTATAATAAAAT
Found at i:78601212 original size:59 final size:58
Alignment explanation
Indices: 78601146--78601331 Score: 157
Period size: 59 Copynumber: 3.1 Consensus size: 58
78601136 CTCAAATCAT
* *
78601146 AATATATGATACTATAAAATATAATTTGAAATAATTAATATTAAATATATTTTAATTAA
1 AATATATGATACTATAAAATATAATTT-AAATAATTATTATTAAATATATTTTAATAAA
* * * * *
78601205 AATATATGAT-TTAATAAAATTCTTAATATTAAAT-ATTCTTATATGAAT-T-TTCTAA-AATCA
1 AATATATGATACT-ATAAAA-T-ATAAT-TTAAATAATTATTAT-TAAATATATTTTAATAA--A
* **
78601265 TAATATATAATACTATAAAATATAATTTAACATAATTATTATTAAATATAAGTTAATAAA
1 -AATATATGATACTATAAAATATAATTTAA-ATAATTATTATTAAATATATTTTAATAAA
78601325 AATATAT
1 AATATAT
78601332 AATTTATCAT
Statistics
Matches: 98, Mismatches: 15, Indels: 28
0.70 0.11 0.20
Matches are distributed among these distances:
58 6 0.06
59 38 0.39
60 19 0.19
61 30 0.31
62 5 0.05
ACGTcount: A:0.51, C:0.04, G:0.03, T:0.42
Consensus pattern (58 bp):
AATATATGATACTATAAAATATAATTTAAATAATTATTATTAAATATATTTTAATAAA
Found at i:78601269 original size:120 final size:120
Alignment explanation
Indices: 78601048--78601337 Score: 456
Period size: 120 Copynumber: 2.4 Consensus size: 120
78601038 TTAATCATAT
78601048 TTTAACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTATAATAAAATTCTTAATA
1 TTTAACATAATTATTATTAAATATATTTTAATTAAAATATATAA-TT-TAATAAAATTCTTAATA
* * *
78601113 ATCAATATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAATATAA
64 ATAAATATTCTTATATGAATTTACTAAAATCATAATATATAATACTATAAAATATAA
* * *
78601170 TTTGAA-ATAATTAATATTAAATATATTTTAATTAAAATATATGATTTAATAAAATTCTTAATAT
1 TTT-AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAA
*
78601234 TAAATATTCTTATATGAATTTTCTAAAATCATAATATATAATACTATAAAATATAA
65 TAAATATTCTTATATGAATTTACTAAAATCATAATATATAATACTATAAAATATAA
** *
78601290 TTTAACATAATTATTATTAAATATAAGTTAATAAAAATATATAATTTA
1 TTTAACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTA
78601338 TCATCATACT
Statistics
Matches: 154, Mismatches: 12, Indels: 6
0.90 0.07 0.03
Matches are distributed among these distances:
119 2 0.01
120 109 0.71
121 2 0.01
122 39 0.25
123 2 0.01
ACGTcount: A:0.49, C:0.05, G:0.02, T:0.44
Consensus pattern (120 bp):
TTTAACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAAT
AAATATTCTTATATGAATTTACTAAAATCATAATATATAATACTATAAAATATAA
Found at i:78605098 original size:45 final size:45
Alignment explanation
Indices: 78605020--78605114 Score: 120
Period size: 45 Copynumber: 2.1 Consensus size: 45
78605010 TTGCTGATGA
* * * * *
78605020 ATTTCGTTAAATTAAATTTTATAATATTGTAAATTAGTTCGAGCT
1 ATTTTGTTAAATCAAATTTTATAATAATATAAATTAATTCGAGCT
*
78605065 GTTTTGTTAAATCAAA-TTTATAATAAATATAAATTAATTCGAGCT
1 ATTTTGTTAAATCAAATTTTATAAT-AATATAAATTAATTCGAGCT
78605110 ATTTT
1 ATTTT
78605115 AAGATCATTG
Statistics
Matches: 42, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
44 8 0.19
45 34 0.81
ACGTcount: A:0.38, C:0.06, G:0.09, T:0.46
Consensus pattern (45 bp):
ATTTTGTTAAATCAAATTTTATAATAATATAAATTAATTCGAGCT
Found at i:78606114 original size:24 final size:25
Alignment explanation
Indices: 78606068--78606114 Score: 60
Period size: 24 Copynumber: 1.9 Consensus size: 25
78606058 AAGATTATAT
* *
78606068 ATAAATTTTTTATTTAATTTAATAC
1 ATAAATTTTTAATTTAATATAATAC
*
78606093 ATAAA-TTTTAATTTAGTATAAT
1 ATAAATTTTTAATTTAATATAAT
78606115 TATACATATA
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
24 14 0.74
25 5 0.26
ACGTcount: A:0.43, C:0.02, G:0.02, T:0.53
Consensus pattern (25 bp):
ATAAATTTTTAATTTAATATAATAC
Found at i:78607170 original size:28 final size:28
Alignment explanation
Indices: 78607125--78607181 Score: 78
Period size: 28 Copynumber: 2.0 Consensus size: 28
78607115 ACCTAATAAT
* * * *
78607125 AGAGGTTTTGATGTAAAATTATATTTTA
1 AGAGGGTTTGACGAAAAATTACATTTTA
78607153 AGAGGGTTTGACGAAAAATTACATTTTA
1 AGAGGGTTTGACGAAAAATTACATTTTA
78607181 A
1 A
78607182 AAATTCAATT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
28 25 1.00
ACGTcount: A:0.39, C:0.04, G:0.19, T:0.39
Consensus pattern (28 bp):
AGAGGGTTTGACGAAAAATTACATTTTA
Found at i:78612258 original size:33 final size:33
Alignment explanation
Indices: 78612221--78612285 Score: 130
Period size: 33 Copynumber: 2.0 Consensus size: 33
78612211 AATCTTCATA
78612221 AATAATATTTAGATTGGTTTAAAATGATTGATG
1 AATAATATTTAGATTGGTTTAAAATGATTGATG
78612254 AATAATATTTAGATTGGTTTAAAATGATTGAT
1 AATAATATTTAGATTGGTTTAAAATGATTGAT
78612286 TAAGCTATTA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 32 1.00
ACGTcount: A:0.40, C:0.00, G:0.17, T:0.43
Consensus pattern (33 bp):
AATAATATTTAGATTGGTTTAAAATGATTGATG
Found at i:78614619 original size:8 final size:8
Alignment explanation
Indices: 78614606--78614640 Score: 54
Period size: 8 Copynumber: 4.5 Consensus size: 8
78614596 GAAACCAATT
78614606 TTTATATA
1 TTTATATA
78614614 TTTATATA
1 TTTATATA
78614622 TTTATATA
1 TTTATATA
*
78614630 TTGATA-A
1 TTTATATA
78614637 TTTA
1 TTTA
78614641 AATGTATAGA
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
7 4 0.16
8 21 0.84
ACGTcount: A:0.37, C:0.00, G:0.03, T:0.60
Consensus pattern (8 bp):
TTTATATA
Found at i:78618625 original size:20 final size:21
Alignment explanation
Indices: 78618586--78618626 Score: 59
Period size: 20 Copynumber: 2.0 Consensus size: 21
78618576 TTATTAGGTA
78618586 TAATAAGATAAAATAAAAATT
1 TAATAAGATAAAATAAAAATT
78618607 TAATAA-ATATAAA-AAAAATT
1 TAATAAGATA-AAATAAAAATT
78618627 ATGTTGTAGT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 10 0.53
21 9 0.47
ACGTcount: A:0.68, C:0.00, G:0.02, T:0.29
Consensus pattern (21 bp):
TAATAAGATAAAATAAAAATT
Found at i:78619217 original size:43 final size:43
Alignment explanation
Indices: 78619115--78619301 Score: 182
Period size: 43 Copynumber: 4.3 Consensus size: 43
78619105 GCGTCGCAAA
* * * ** * *
78619115 AAACGCCACTAAAAACCATGACTTTTAGCGATGTTCTTTTTTC-T
1 AAACGCCGCTAAAGACCATGACCTTTAGCG--GCGCTTTTTCCAC
* *
78619159 AAACGCCACTAAAGACCATGACCTTTAGCGGCGCTTTTCCCAC
1 AAACGCCGCTAAAGACCATGACCTTTAGCGGCGCTTTTTCCAC
* * * *
78619202 AAACGCCGCTAAAGACCATGATCTTTAGCGTCGCTTTTTCTAA
1 AAACGCCGCTAAAGACCATGACCTTTAGCGGCGCTTTTTCCAC
* * *
78619245 AAACGCCGCTATATATCC--GACCTTTAGCGGCGCTTTTTTCAC
1 AAACGCCGCTAAAGA-CCATGACCTTTAGCGGCGCTTTTTCCAC
78619287 AAACGCCGCTAAAGA
1 AAACGCCGCTAAAGA
78619302 ATATAAAATT
Statistics
Matches: 119, Mismatches: 22, Indels: 6
0.81 0.15 0.04
Matches are distributed among these distances:
42 39 0.33
43 50 0.42
44 30 0.25
ACGTcount: A:0.28, C:0.28, G:0.16, T:0.28
Consensus pattern (43 bp):
AAACGCCGCTAAAGACCATGACCTTTAGCGGCGCTTTTTCCAC
Found at i:78620338 original size:45 final size:45
Alignment explanation
Indices: 78620274--78620364 Score: 173
Period size: 45 Copynumber: 2.0 Consensus size: 45
78620264 AGAATAATAT
*
78620274 GTAAGTGCATTGATTCCTCCCAAATTCATTAGGACCAACACTCCA
1 GTAAGTGCATTGATTCCTCCCAAATTCATCAGGACCAACACTCCA
78620319 GTAAGTGCATTGATTCCTCCCAAATTCATCAGGACCAACACTCCA
1 GTAAGTGCATTGATTCCTCCCAAATTCATCAGGACCAACACTCCA
78620364 G
1 G
78620365 CAACAGTCTA
Statistics
Matches: 45, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
45 45 1.00
ACGTcount: A:0.31, C:0.30, G:0.14, T:0.25
Consensus pattern (45 bp):
GTAAGTGCATTGATTCCTCCCAAATTCATCAGGACCAACACTCCA
Found at i:78625272 original size:11 final size:11
Alignment explanation
Indices: 78625256--78625283 Score: 56
Period size: 11 Copynumber: 2.5 Consensus size: 11
78625246 GTGTATCTCT
78625256 GAAAATCCATC
1 GAAAATCCATC
78625267 GAAAATCCATC
1 GAAAATCCATC
78625278 GAAAAT
1 GAAAAT
78625284 TCCAAGAAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.50, C:0.21, G:0.11, T:0.18
Consensus pattern (11 bp):
GAAAATCCATC
Found at i:78625777 original size:23 final size:22
Alignment explanation
Indices: 78625751--78625796 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 22
78625741 TGTGATGACG
78625751 TTATCTT-ATAAATATGTATGAAT
1 TTATCTTGA-AAATATGT-TGAAT
78625774 TTATCTTGAAAATATGTTGAAT
1 TTATCTTGAAAATATGTTGAAT
78625796 T
1 T
78625797 GATTTGGTTG
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
22 6 0.27
23 15 0.68
24 1 0.05
ACGTcount: A:0.37, C:0.04, G:0.11, T:0.48
Consensus pattern (22 bp):
TTATCTTGAAAATATGTTGAAT
Found at i:78632694 original size:11 final size:11
Alignment explanation
Indices: 78632678--78632705 Score: 56
Period size: 11 Copynumber: 2.5 Consensus size: 11
78632668 GTGTATCTCT
78632678 GAAAATCCATC
1 GAAAATCCATC
78632689 GAAAATCCATC
1 GAAAATCCATC
78632700 GAAAAT
1 GAAAAT
78632706 TCCAAGAAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.50, C:0.21, G:0.11, T:0.18
Consensus pattern (11 bp):
GAAAATCCATC
Found at i:78634178 original size:46 final size:45
Alignment explanation
Indices: 78634111--78634280 Score: 155
Period size: 46 Copynumber: 3.7 Consensus size: 45
78634101 TGTAACCCGC
* *
78634111 CCATAAGTGAACTCAGACTCAACTCAATGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGC-TTCGCAT
* * * *
78634157 CCATAAGTGAACTCGGACTCAACTCAACAAGCTCGGATGCCTAGTTAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGG--GCTTCG-CAT
*** * * * *
78634205 --ATCTCTCGAATTCGGACTCAACTCAACGAGTTCAGACATTCGCAT
1 CCATAAGT-GAACTCGGACTCAACTCAACGAGCTCGGGC-TTCGCAT
78634250 CCATAAGTGAACTCGGACTCAACTCAACGAG
1 CCATAAGTGAACTCGGACTCAACTCAACGAG
78634281 TTGGATGCTC
Statistics
Matches: 96, Mismatches: 21, Indels: 14
0.73 0.16 0.11
Matches are distributed among these distances:
45 3 0.03
46 60 0.62
47 29 0.30
48 4 0.04
ACGTcount: A:0.31, C:0.28, G:0.19, T:0.22
Consensus pattern (45 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCTTCGCAT
Found at i:78639260 original size:46 final size:45
Alignment explanation
Indices: 78639090--78639258 Score: 175
Period size: 46 Copynumber: 3.7 Consensus size: 45
78639080 TGTAACCCGC
* *
78639090 CCATAAGTGAACTCGGACTCAACTCAATGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTC-GGCATTCGCAT
* * *
78639136 CCATAAGTGAACTCGGACTAAACTCAACAAGCTCGG-ATGC-CTAGTT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGCATTCGC-A--T
* * *
78639182 ACACT--CTCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCA-TAAGT-GAACTCGGACTCAACTCAACGAGCTCGG-CATTCGCAT
78639228 CCATAAGTGAACTCGGACTCAACTCAACGAG
1 CCATAAGTGAACTCGGACTCAACTCAACGAG
78639259 TTGGATGCTC
Statistics
Matches: 100, Mismatches: 13, Indels: 20
0.75 0.10 0.15
Matches are distributed among these distances:
43 1 0.01
44 3 0.03
45 4 0.04
46 85 0.85
47 2 0.02
48 4 0.04
49 1 0.01
ACGTcount: A:0.30, C:0.29, G:0.20, T:0.21
Consensus pattern (45 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGCATTCGCAT
Found at i:78642554 original size:17 final size:17
Alignment explanation
Indices: 78642532--78642571 Score: 80
Period size: 17 Copynumber: 2.4 Consensus size: 17
78642522 GGGAGAGACT
78642532 CAGTTTCCACAAAATTC
1 CAGTTTCCACAAAATTC
78642549 CAGTTTCCACAAAATTC
1 CAGTTTCCACAAAATTC
78642566 CAGTTT
1 CAGTTT
78642572 GCAACAAAGG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 23 1.00
ACGTcount: A:0.33, C:0.28, G:0.07, T:0.33
Consensus pattern (17 bp):
CAGTTTCCACAAAATTC
Found at i:78642989 original size:7 final size:7
Alignment explanation
Indices: 78642979--78643012 Score: 50
Period size: 7 Copynumber: 4.7 Consensus size: 7
78642969 ATATTAAATA
78642979 TTTAAGTT
1 TTTAA-TT
*
78642987 TTAAATT
1 TTTAATT
78642994 TTTAATT
1 TTTAATT
78643001 TTTAATT
1 TTTAATT
78643008 TTTAA
1 TTTAA
78643013 AATTTTTTGA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
7 20 0.83
8 4 0.17
ACGTcount: A:0.32, C:0.00, G:0.03, T:0.65
Consensus pattern (7 bp):
TTTAATT
Found at i:78643004 original size:22 final size:22
Alignment explanation
Indices: 78642965--78643019 Score: 65
Period size: 22 Copynumber: 2.5 Consensus size: 22
78642955 GACTAAAATA
* *
78642965 TTAAATATTAAATATTTAAGTT
1 TTAAATTTTTAATATTTAAGTT
* *
78642987 TTAAATTTTTAATTTTTAATTT
1 TTAAATTTTTAATATTTAAGTT
78643009 TTAAAATTTTT
1 TT-AAATTTTT
78643020 TGAAGATTTT
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
22 20 0.71
23 8 0.29
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.60
Consensus pattern (22 bp):
TTAAATTTTTAATATTTAAGTT
Found at i:78643007 original size:14 final size:15
Alignment explanation
Indices: 78642972--78643012 Score: 57
Period size: 14 Copynumber: 2.8 Consensus size: 15
78642962 ATATTAAATA
*
78642972 TTAAATATTTAAGTT
1 TTAAATTTTTAAGTT
78642987 TTAAATTTTTAA-TT
1 TTAAATTTTTAAGTT
*
78643001 TTTAATTTTTAA
1 TTAAATTTTTAA
78643013 AATTTTTTGA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
14 13 0.54
15 11 0.46
ACGTcount: A:0.37, C:0.00, G:0.02, T:0.61
Consensus pattern (15 bp):
TTAAATTTTTAAGTT
Found at i:78643932 original size:29 final size:29
Alignment explanation
Indices: 78643890--78643945 Score: 87
Period size: 29 Copynumber: 1.9 Consensus size: 29
78643880 CATTGATGTT
78643890 TTTAGGGTTTAGGG-TTTTAGGGGTTATAA
1 TTTAGGGTTTAGGGTTTTTA-GGGTTATAA
*
78643919 TTTAGTGTTTAGGGTTTTTAGGGTTAT
1 TTTAGGGTTTAGGGTTTTTAGGGTTAT
78643946 GGGTTTAGTA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
29 20 0.80
30 5 0.20
ACGTcount: A:0.18, C:0.00, G:0.32, T:0.50
Consensus pattern (29 bp):
TTTAGGGTTTAGGGTTTTTAGGGTTATAA
Found at i:78646741 original size:46 final size:46
Alignment explanation
Indices: 78646674--78646936 Score: 384
Period size: 46 Copynumber: 5.7 Consensus size: 46
78646664 TGGCAACCTG
* *
78646674 TGTGTAAGACCATGGTTGAAAGATACCACGACAACCTGATATGAAA
1 TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAA
78646720 TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAA
1 TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAA
*
78646766 TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAGA
1 TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAA
* *
78646812 TGTGTAAGACCATGGTTGAAAGATACCATGGCAACGTGACATGAAA
1 TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAA
* ** * *
78646858 AGAATAAGACCATGGTTGAAAGATACCATGGCAACATGACA-GAAAA
1 TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATG-AAA
* * * *
78646904 TGAGTAAGACCATAGTTGAAAGACACTATGGCA
1 TGTGTAAGACCATGGTTGAAAGATACCATGGCA
78646937 TCACGTCAAA
Statistics
Matches: 201, Mismatches: 15, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
45 1 0.00
46 200 1.00
ACGTcount: A:0.39, C:0.16, G:0.24, T:0.21
Consensus pattern (46 bp):
TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAA
Found at i:78646876 original size:138 final size:130
Alignment explanation
Indices: 78646625--78646936 Score: 419
Period size: 138 Copynumber: 2.3 Consensus size: 130
78646615 AGTGTGCTCT
78646625 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGTGTGTAAGACCATGGT
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGTGTGTAAGACCATGGT
* * **
78646690 TGAAAGATACCACGACAACCTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
66 TGAAAGATACCACGACAACCTGACATGAAAAGAATAAGACCATGGTTGAAAGATACCATGGCAAC
78646755 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAGATGTGTAAG
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACC-----T--G-TGTGTAAG
* * *
78646820 ACCATGGTTGAAAGATACCATGGCAACGTGACATGAAAAGAATAAGACCATGGTTGAAAGATACC
58 ACCATGGTTGAAAGATACCACGACAACCTGACATGAAAAGAATAAGACCATGGTTGAAAGATACC
78646885 ATGGCAAC
123 ATGGCAAC
* * * * * *
78646893 ATGACA-GAAAATGAGTAAGACCATAGTTGAAAGACACTATGGCA
1 CTGATATG-AAATGTGTAAGACCATGGTTGAAAGATACCATGGCA
78646937 TCACGTCAAA
Statistics
Matches: 160, Mismatches: 13, Indels: 10
0.87 0.07 0.05
Matches are distributed among these distances:
130 47 0.29
135 1 0.01
137 2 0.01
138 110 0.69
ACGTcount: A:0.38, C:0.16, G:0.24, T:0.22
Consensus pattern (130 bp):
CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGTGTGTAAGACCATGGT
TGAAAGATACCACGACAACCTGACATGAAAAGAATAAGACCATGGTTGAAAGATACCATGGCAAC
Found at i:78647242 original size:23 final size:25
Alignment explanation
Indices: 78647198--78647243 Score: 60
Period size: 23 Copynumber: 1.9 Consensus size: 25
78647188 ATAAATATAC
*
78647198 ATAAAATATATGGAAATGATGAAGT
1 ATAAAATATATGGAAATAATGAAGT
*
78647223 ATAAAATAT-T-GATATAATGAA
1 ATAAAATATATGGAAATAATGAA
78647244 ATGAATGATA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 9 0.47
24 1 0.05
25 9 0.47
ACGTcount: A:0.54, C:0.00, G:0.15, T:0.30
Consensus pattern (25 bp):
ATAAAATATATGGAAATAATGAAGT
Found at i:78647728 original size:41 final size:41
Alignment explanation
Indices: 78647665--78647793 Score: 188
Period size: 41 Copynumber: 3.1 Consensus size: 41
78647655 GTTATATGAC
*
78647665 TTTTAGCGGCGTTTTA-TCGAAAGTGCAGCTAATGCTCTGGT
1 TTTTAGCGGCGTTTTACT-GAAAGCGCAGCTAATGCTCTGGT
*
78647706 TTTTAGCGGCGTTTTACTGAAAGCGCTGCTAATGCTCTGGT
1 TTTTAGCGGCGTTTTACTGAAAGCGCAGCTAATGCTCTGGT
** * *
78647747 TTTTAGTAGTGTTTTACTGAAAGCGCCGCTAATGCTCTGGT
1 TTTTAGCGGCGTTTTACTGAAAGCGCAGCTAATGCTCTGGT
78647788 TTTTAG
1 TTTTAG
78647794 TTGGTAAAAC
Statistics
Matches: 81, Mismatches: 6, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
41 80 0.99
42 1 0.01
ACGTcount: A:0.19, C:0.17, G:0.26, T:0.39
Consensus pattern (41 bp):
TTTTAGCGGCGTTTTACTGAAAGCGCAGCTAATGCTCTGGT
Found at i:78650546 original size:13 final size:13
Alignment explanation
Indices: 78650528--78650552 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
78650518 AACTTTTTTC
78650528 ATAAATAAATTTA
1 ATAAATAAATTTA
78650541 ATAAATAAATTT
1 ATAAATAAATTT
78650553 TCTAGTATAT
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:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (13 bp):
ATAAATAAATTTA
Found at i:78653948 original size:13 final size:13
Alignment explanation
Indices: 78653930--78653956 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
78653920 TGGAACGTTA
78653930 ATTTAAATGGTTG
1 ATTTAAATGGTTG
78653943 ATTTAAATGGTTG
1 ATTTAAATGGTTG
78653956 A
1 A
78653957 ATTTTATCTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.33, C:0.00, G:0.22, T:0.44
Consensus pattern (13 bp):
ATTTAAATGGTTG
Found at i:78654109 original size:29 final size:30
Alignment explanation
Indices: 78654049--78654142 Score: 86
Period size: 30 Copynumber: 3.2 Consensus size: 30
78654039 CAATTTTTTA
* *
78654049 AAAAATTCTTAACAATAATTCTAAAAAATT
1 AAAAATTCTTAAAAATAATTATAAAAAATT
***
78654079 AAAAATTCTTAAAAATAA-TATAACTTATT
1 AAAAATTCTTAAAAATAATTATAAAAAATT
* * *
78654108 AAAAATTATGTTAAAAT-ATTTTAAAAAA-T
1 AAAAATTCT-TAAAAATAATTATAAAAAATT
78654137 AAAAAT
1 AAAAAT
78654143 ATAAATAAAA
Statistics
Matches: 51, Mismatches: 11, Indels: 5
0.76 0.16 0.07
Matches are distributed among these distances:
29 23 0.45
30 28 0.55
ACGTcount: A:0.59, C:0.05, G:0.01, T:0.35
Consensus pattern (30 bp):
AAAAATTCTTAAAAATAATTATAAAAAATT
Found at i:78654432 original size:31 final size:29
Alignment explanation
Indices: 78654367--78654438 Score: 90
Period size: 29 Copynumber: 2.4 Consensus size: 29
78654357 CTTAAGTTAT
*
78654367 ATTTTAGTCACTTATGTTTGAAATGTTAC
1 ATTTTAGTCACTTATGTTTGAAATGTAAC
***
78654396 ATTTTAGTCACTTATGTTATCGTGTTGTAAC
1 ATTTTAGTCACTTATGTT-T-GAAATGTAAC
78654427 ATTTTAGTCACT
1 ATTTTAGTCACT
78654439 GAGCTATTAA
Statistics
Matches: 37, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
29 18 0.49
30 1 0.03
31 18 0.49
ACGTcount: A:0.25, C:0.12, G:0.14, T:0.49
Consensus pattern (29 bp):
ATTTTAGTCACTTATGTTTGAAATGTAAC
Found at i:78659106 original size:9 final size:9
Alignment explanation
Indices: 78659094--78659146 Score: 54
Period size: 10 Copynumber: 5.7 Consensus size: 9
78659084 ATTTTAACAT
78659094 TTTTTAATA
1 TTTTTAATA
78659103 TTTTTAATA
1 TTTTTAATA
*
78659112 TATTTTGATAA
1 T-TTTTAAT-A
*
78659123 TTTTTATTTA
1 TTTTTA-ATA
78659133 TTTTTAA-A
1 TTTTTAATA
78659141 TTTTTA
1 TTTTTA
78659147 GAGCTATTAT
Statistics
Matches: 37, Mismatches: 4, Indels: 7
0.77 0.08 0.15
Matches are distributed among these distances:
8 7 0.19
9 10 0.27
10 17 0.46
11 3 0.08
ACGTcount: A:0.30, C:0.00, G:0.02, T:0.68
Consensus pattern (9 bp):
TTTTTAATA
Found at i:78659109 original size:19 final size:20
Alignment explanation
Indices: 78659085--78659128 Score: 54
Period size: 19 Copynumber: 2.2 Consensus size: 20
78659075 TTTGATTTTA
*
78659085 TTTTAACATTTTTTAAT-AT
1 TTTTAACATATTTTAATAAT
* *
78659104 TTTTAATATATTTTGATAAT
1 TTTTAACATATTTTAATAAT
78659124 TTTTA
1 TTTTA
78659129 TTTATTTTTA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
19 14 0.67
20 7 0.33
ACGTcount: A:0.32, C:0.02, G:0.02, T:0.64
Consensus pattern (20 bp):
TTTTAACATATTTTAATAAT
Found at i:78659134 original size:19 final size:18
Alignment explanation
Indices: 78659102--78659146 Score: 54
Period size: 19 Copynumber: 2.4 Consensus size: 18
78659092 ATTTTTTAAT
78659102 ATTTTTAATATATTTTGATA
1 ATTTTT-ATATATTTTGA-A
* *
78659122 ATTTTTATTTATTTTTAA
1 ATTTTTATATATTTTGAA
78659140 ATTTTTA
1 ATTTTTA
78659147 GAGCTATTAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
18 8 0.35
19 9 0.39
20 6 0.26
ACGTcount: A:0.31, C:0.00, G:0.02, T:0.67
Consensus pattern (18 bp):
ATTTTTATATATTTTGAA
Found at i:78661160 original size:16 final size:17
Alignment explanation
Indices: 78661128--78661160 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
78661118 AACATAGCAA
*
78661128 ATAATATGTTATTATTG
1 ATAATATGTTATCATTG
78661145 ATAATAT-TTATCATTG
1 ATAATATGTTATCATTG
78661161 CAACATTGAC
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 8 0.53
17 7 0.47
ACGTcount: A:0.36, C:0.03, G:0.09, T:0.52
Consensus pattern (17 bp):
ATAATATGTTATCATTG
Found at i:78663269 original size:20 final size:18
Alignment explanation
Indices: 78663244--78663280 Score: 56
Period size: 20 Copynumber: 1.9 Consensus size: 18
78663234 ATTGCTAAGT
78663244 TGTAAAATGAGTTGTAAATG
1 TGTAAAAT-AGTTG-AAATG
78663264 TGTAAAATAGTTGAAAT
1 TGTAAAATAGTTGAAAT
78663281 TATGAGTTGC
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 4 0.24
19 5 0.29
20 8 0.47
ACGTcount: A:0.43, C:0.00, G:0.22, T:0.35
Consensus pattern (18 bp):
TGTAAAATAGTTGAAATG
Found at i:78663893 original size:46 final size:46
Alignment explanation
Indices: 78663837--78664012 Score: 189
Period size: 46 Copynumber: 3.8 Consensus size: 46
78663827 TGGTTGAGCA
* *
78663837 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGAGAATG
1 TCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGAGAACG
* * * *
78663883 TTCGAGCTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTA-ACTAGGCA
1 TCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG-AGA--A--CG
* *
78663930 TCCGAGCTTGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAACG
1 TCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGAGAACG
* *
78663976 CCCGAGCTCATTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
78664013 GCGGGTTACA
Statistics
Matches: 106, Mismatches: 15, Indels: 18
0.76 0.11 0.13
Matches are distributed among these distances:
43 5 0.05
44 1 0.01
45 3 0.03
46 62 0.58
47 27 0.25
48 3 0.03
50 5 0.05
ACGTcount: A:0.21, C:0.19, G:0.30, T:0.31
Consensus pattern (46 bp):
TCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGAGAACG
Found at i:78663993 original size:93 final size:93
Alignment explanation
Indices: 78663834--78664004 Score: 279
Period size: 93 Copynumber: 1.8 Consensus size: 93
78663824 GGATGGTTGA
* ** *
78663834 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGAGAATGTTCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGAGAACGCCCGAGCTCATTGAGT
78663899 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
* * *
78663927 GCATCCGAGCTTGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAACGCCCGAGCTCATTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGAGAACGCCCGAGCTCATTGAGT
78663992 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
78664005 ACTTATGGGC
Statistics
Matches: 71, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
93 71 1.00
ACGTcount: A:0.21, C:0.19, G:0.30, T:0.30
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGAGAACGCCCGAGCTCATTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:78669180 original size:21 final size:21
Alignment explanation
Indices: 78669154--78669194 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
78669144 ATCTGCTCAA
* *
78669154 ACTCCACCTGTTTTGGAGTAC
1 ACTCCACCTGCTGTGGAGTAC
78669175 ACTCCACCTGCTGTGGAGTA
1 ACTCCACCTGCTGTGGAGTA
78669195 TCGCTTGTCT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.20, C:0.29, G:0.22, T:0.29
Consensus pattern (21 bp):
ACTCCACCTGCTGTGGAGTAC
Found at i:78678244 original size:44 final size:44
Alignment explanation
Indices: 78678181--78678979 Score: 1055
Period size: 44 Copynumber: 18.2 Consensus size: 44
78678171 CAGGAACACC
* * * *
78678181 AATCTGTTATTTTTGATCTGCTCTCTGCCAATACAGAGATGCCA
1 AATCTGCTATCTTCGATCTGCTCTCTGCCAATACAGAGACGCCA
* *
78678225 AATCTGCTATCTTCGATCTGCTCTCTGTCAATACAGAGACACCA
1 AATCTGCTATCTTCGATCTGCTCTCTGCCAATACAGAGACGCCA
* * *
78678269 AATCTGCTATCTTCGATCTACCCTCTGACAATACAGAGACGCCA
1 AATCTGCTATCTTCGATCTGCTCTCTGCCAATACAGAGACGCCA
* ** *
78678313 AATCTGCTATCTTCGATCTGCCCTCTAACAATACAGAGACACCA
1 AATCTGCTATCTTCGATCTGCTCTCTGCCAATACAGAGACGCCA
*
78678357 AATCTGCTATATTCGATCTGCTC-CTTGCCAATACAGAGACGCCA
1 AATCTGCTATCTTCGATCTGCTCTC-TGCCAATACAGAGACGCCA
* * * *
78678401 AATCTGTTATCTTCGATCTGCTCTCCGCTAATACAGAGACACCA
1 AATCTGCTATCTTCGATCTGCTCTCTGCCAATACAGAGACGCCA
* * * *
78678445 AATCTGCTATCTTCAATTTGCTCTCCGCCAGTACAGAGACGCCA
1 AATCTGCTATCTTCGATCTGCTCTCTGCCAATACAGAGACGCCA
** *
78678489 AATCTGCTTATCTTTAATCTGCTCTCCGCCAATACAGAGACGCCA
1 AATCTGC-TATCTTCGATCTGCTCTCTGCCAATACAGAGACGCCA
* *
78678534 AATCTGCTATCTTCGATCTGC-CTTCTGACAATACAGAGACGTCA
1 AATCTGCTATCTTCGATCTGCTC-TCTGCCAATACAGAGACGCCA
* * * *
78678578 AATCTGTTATCTTCGATCTGCTCTCTGTCAACACAGAGATGCCA
1 AATCTGCTATCTTCGATCTGCTCTCTGCCAATACAGAGACGCCA
* *
78678622 AATCTGCTATCTTCGATCTGCTCTTTACCAATACAGAGACGCCA
1 AATCTGCTATCTTCGATCTGCTCTCTGCCAATACAGAGACGCCA
* *
78678666 AATCTGCTATCTTCGATCTGCTCTCCGCTAATACAGAGACGCCA
1 AATCTGCTATCTTCGATCTGCTCTCTGCCAATACAGAGACGCCA
*
78678710 AATCTGCTATCTTCGATTTGCTCTCTGCCAATACAGAGACGCCA
1 AATCTGCTATCTTCGATCTGCTCTCTGCCAATACAGAGACGCCA
* * *
78678754 AATCTGCTATCTTCGATCTGCTCTCTGTCAACACAGAGATGCCA
1 AATCTGCTATCTTCGATCTGCTCTCTGCCAATACAGAGACGCCA
* *
78678798 AATCTGCTATCTTTGATTTGCTCTCTGCCAATACAGAGACGCCA
1 AATCTGCTATCTTCGATCTGCTCTCTGCCAATACAGAGACGCCA
* * * * *
78678842 AATCTGCTATCTT-AATCTGCCCCCTGCCAATACAAAGACGTCA
1 AATCTGCTATCTTCGATCTGCTCTCTGCCAATACAGAGACGCCA
* * * * *
78678885 AATCTGTTATCTTCGATCTACTCTCTGTCAACACAGAGATGCCA
1 AATCTGCTATCTTCGATCTGCTCTCTGCCAATACAGAGACGCCA
* * * *
78678929 AATCTGCTATCTTCGATCTACTCTCCGCCAATACAAAAACGCCA
1 AATCTGCTATCTTCGATCTGCTCTCTGCCAATACAGAGACGCCA
78678973 AATCTGC
1 AATCTGC
78678980 AGGATTCGCC
Statistics
Matches: 662, Mismatches: 87, Indels: 12
0.87 0.11 0.02
Matches are distributed among these distances:
43 38 0.06
44 581 0.88
45 43 0.06
ACGTcount: A:0.27, C:0.30, G:0.14, T:0.29
Consensus pattern (44 bp):
AATCTGCTATCTTCGATCTGCTCTCTGCCAATACAGAGACGCCA
Found at i:78690858 original size:131 final size:130
Alignment explanation
Indices: 78690486--78690997 Score: 451
Period size: 131 Copynumber: 3.9 Consensus size: 130
78690476 GAAAATACGG
* * * * * ** * **
78690486 GTGAAATTCTGAAGGGATCTTCGATTGTTTTGAGCGAATAAAAAAGCGCAACCCAACACGATAGG
1 GTGAAATTTTGAAGGGATATTCGATTATTTTGAACAAACGAGAAATTGCAACCCAACACGATAGG
* * * *
78690551 GCTCGATTCTCA--AATCGCCAAACATCGAACATCGCCTTCGTTTTGAAAGGTTTTTAATAAACA
66 GCACGATTC-CACGAATTGCCAAACATCGAATATCGCCTTCGTTTT-AAAGGATTTTAA-AAACA
78690614 TGA
128 TGA
* *** * * * *** *
78690617 ATGAAAACCTAAAGGAATATTCGATTGTTTTGAACAAACGAGAAAACACAACCCAGCACGATAGG
1 GTGAAATTTTGAAGGGATATTCGATTATTTTGAACAAACGAGAAATTGCAACCCAACACGATAGG
* * * * * ** * *
78690682 GCATGATTCC-CGAATTGTCAAACACCTAGTATTACCTTCGTTTTAAAGGATTTCTAGAAGACCT
66 GCACGATTCCACGAATTGCCAAACATCGAATATCGCCTTCGTTTTAAAGGATTT-TA-AAAACAT
78690746 GA
129 GA
* * *
78690748 GTGAAATTTTGAAGGGATATTTGATTATTTTAAACAAACGAGAAATTGCAACCCAACACGTTAGG
1 GTGAAATTTTGAAGGGATATTCGATTATTTTGAACAAACGAGAAATTGCAACCCAACACGATAGG
* * * *
78690813 GCACGATTCCACGAATTGCCAAATATCGCATATCGCCTTCG-TTTAAGGGATTTTAAAATATATG
66 GCACGATTCCACGAATTGCCAAACATCGAATATCGCCTTCGTTTTAAAGGATTTTAAAA-ACATG
78690877 A
130 A
** * *
78690878 GTGAAATTTTGAAATGATATTCGATTATTTTGAGC-AACTGTA-AAATTGCAACCCAACACGTTA
1 GTGAAATTTTGAAGGGATATTCGATTATTTTGAACAAAC-G-AGAAATTGCAACCCAACACGATA
* * * * * *
78690941 GGGCACGATTCCGCGAATTGCCAAATATCAAATCTCGTCTTCGTTTTAAAGAATTTT
64 GGGCACGATTCCACGAATTGCCAAACATCGAATATCGCCTTCGTTTTAAAGGATTTT
78690998 TGAATGAATG
Statistics
Matches: 306, Mismatches: 66, Indels: 18
0.78 0.17 0.05
Matches are distributed among these distances:
129 5 0.02
130 105 0.34
131 173 0.57
132 23 0.08
ACGTcount: A:0.35, C:0.18, G:0.18, T:0.29
Consensus pattern (130 bp):
GTGAAATTTTGAAGGGATATTCGATTATTTTGAACAAACGAGAAATTGCAACCCAACACGATAGG
GCACGATTCCACGAATTGCCAAACATCGAATATCGCCTTCGTTTTAAAGGATTTTAAAAACATGA
Found at i:78691528 original size:16 final size:16
Alignment explanation
Indices: 78691507--78691542 Score: 56
Period size: 16 Copynumber: 2.2 Consensus size: 16
78691497 AAGTTAACAG
78691507 AATATATGATA-ATAAA
1 AATATATGATACA-AAA
78691523 AATATATGATACAAAA
1 AATATATGATACAAAA
78691539 AATA
1 AATA
78691543 CATAACAAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 18 0.95
17 1 0.05
ACGTcount: A:0.64, C:0.03, G:0.06, T:0.28
Consensus pattern (16 bp):
AATATATGATACAAAA
Found at i:78691538 original size:14 final size:15
Alignment explanation
Indices: 78691501--78691556 Score: 53
Period size: 14 Copynumber: 3.8 Consensus size: 15
78691491 ATTTAAAAGT
*
78691501 TAACAGAATATATGA
1 TAACAAAATATATGA
*
78691516 TAATAAAAATATATGA
1 TAA-CAAAATATATGA
* *
78691532 T-ACAAAAAATA-CA
1 TAACAAAATATATGA
78691545 TAACAAAATATA
1 TAACAAAATATA
78691557 ATGCCCCAAA
Statistics
Matches: 33, Mismatches: 6, Indels: 5
0.75 0.14 0.11
Matches are distributed among these distances:
13 2 0.06
14 16 0.48
15 4 0.12
16 11 0.33
ACGTcount: A:0.62, C:0.07, G:0.05, T:0.25
Consensus pattern (15 bp):
TAACAAAATATATGA
Found at i:78694041 original size:41 final size:41
Alignment explanation
Indices: 78693994--78694098 Score: 147
Period size: 41 Copynumber: 2.6 Consensus size: 41
78693984 AAAATGATTT
* * * *
78693994 TTTTGCGGCATTTTTTTCATAAACGTTGTTAATGATTGACC
1 TTTTGCGGCGTTTTTATCATAAACGTCGCTAATGATTGACC
* * *
78694035 TTTTGCGGCGTATTTCTCATAAACGTCGCTAATGCTTGACC
1 TTTTGCGGCGTTTTTATCATAAACGTCGCTAATGATTGACC
78694076 TTTTGCGGCGTTTTTATCATAAA
1 TTTTGCGGCGTTTTTATCATAAA
78694099 TTCTGCTATA
Statistics
Matches: 56, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
41 56 1.00
ACGTcount: A:0.21, C:0.18, G:0.18, T:0.43
Consensus pattern (41 bp):
TTTTGCGGCGTTTTTATCATAAACGTCGCTAATGATTGACC
Found at i:78695078 original size:16 final size:18
Alignment explanation
Indices: 78695047--78695081 Score: 56
Period size: 16 Copynumber: 2.1 Consensus size: 18
78695037 AAAAAAATTA
78695047 TATATAATAAATGAATAT
1 TATATAATAAATGAATAT
78695065 TATAT-ATAAA-GAATAT
1 TATATAATAAATGAATAT
78695081 T
1 T
78695082 TTTAGTATAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 7 0.41
17 5 0.29
18 5 0.29
ACGTcount: A:0.54, C:0.00, G:0.06, T:0.40
Consensus pattern (18 bp):
TATATAATAAATGAATAT
Found at i:78695512 original size:30 final size:30
Alignment explanation
Indices: 78695478--78695540 Score: 92
Period size: 30 Copynumber: 2.1 Consensus size: 30
78695468 ACTTAACAAG
78695478 CAAATG-ATTCTAAAATAATAAAAAAATTAA
1 CAAATGCATT-TAAAATAATAAAAAAATTAA
* *
78695508 CAAATGCCTTTAAAATAATAAAAAATTTAA
1 CAAATGCATTTAAAATAATAAAAAAATTAA
78695538 CAA
1 CAA
78695541 TAAAATAAAT
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
30 28 0.93
31 2 0.07
ACGTcount: A:0.60, C:0.10, G:0.03, T:0.27
Consensus pattern (30 bp):
CAAATGCATTTAAAATAATAAAAAAATTAA
Found at i:78700619 original size:36 final size:36
Alignment explanation
Indices: 78700572--78700644 Score: 146
Period size: 36 Copynumber: 2.0 Consensus size: 36
78700562 ATGCTCTCTA
78700572 TCATTTGGTCTGGCTGGCACATTGACTTGCTTACTT
1 TCATTTGGTCTGGCTGGCACATTGACTTGCTTACTT
78700608 TCATTTGGTCTGGCTGGCACATTGACTTGCTTACTT
1 TCATTTGGTCTGGCTGGCACATTGACTTGCTTACTT
78700644 T
1 T
78700645 AAAGCCCTTT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 37 1.00
ACGTcount: A:0.14, C:0.22, G:0.22, T:0.42
Consensus pattern (36 bp):
TCATTTGGTCTGGCTGGCACATTGACTTGCTTACTT
Found at i:78710877 original size:21 final size:21
Alignment explanation
Indices: 78710853--78710937 Score: 80
Period size: 21 Copynumber: 4.0 Consensus size: 21
78710843 TGATCAGTAT
*
78710853 ACGACACATAAAGTGCCTAAA
1 ACGACACACAAAGTGCCTAAA
* * * *
78710874 ACGACACACGAGGTGCCTGAT
1 ACGACACACAAAGTGCCTAAA
* *
78710895 ACGACACACGAGGTGCCTGAAA
1 ACGACACACAAAGTGCCT-AAA
*
78710917 TACGACACATAAAGTGCCTAA
1 -ACGACACACAAAGTGCCTAA
78710938 TTGGTAAAGC
Statistics
Matches: 52, Mismatches: 10, Indels: 3
0.80 0.15 0.05
Matches are distributed among these distances:
21 34 0.65
22 3 0.06
23 15 0.29
ACGTcount: A:0.39, C:0.26, G:0.21, T:0.14
Consensus pattern (21 bp):
ACGACACACAAAGTGCCTAAA
Found at i:78710903 original size:23 final size:22
Alignment explanation
Indices: 78710851--78710925 Score: 91
Period size: 21 Copynumber: 3.5 Consensus size: 22
78710841 CATGATCAGT
** *
78710851 ATACGACACATAAAGTGCCT-A
1 ATACGACACACGAGGTGCCTGA
*
78710872 AAACGACACACGAGGTGCCTG-
1 ATACGACACACGAGGTGCCTGA
78710893 ATACGACACACGAGGTGCCTGAA
1 ATACGACACACGAGGTGCCTG-A
78710916 ATACGACACA
1 ATACGACACA
78710926 TAAAGTGCCT
Statistics
Matches: 46, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
21 36 0.78
23 10 0.22
ACGTcount: A:0.39, C:0.27, G:0.21, T:0.13
Consensus pattern (22 bp):
ATACGACACACGAGGTGCCTGA
Found at i:78711336 original size:15 final size:15
Alignment explanation
Indices: 78711308--78711365 Score: 80
Period size: 15 Copynumber: 3.8 Consensus size: 15
78711298 TCATATATAT
*
78711308 TATATAATTTAATCAA
1 TATA-AATTCAATCAA
78711324 TATAAATTCAATCAA
1 TATAAATTCAATCAA
* *
78711339 AATAATTTCAATCAA
1 TATAAATTCAATCAA
78711354 TATAAATTCAAT
1 TATAAATTCAAT
78711366 AAAACAGATA
Statistics
Matches: 37, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
15 33 0.89
16 4 0.11
ACGTcount: A:0.52, C:0.10, G:0.00, T:0.38
Consensus pattern (15 bp):
TATAAATTCAATCAA
Found at i:78711354 original size:30 final size:28
Alignment explanation
Indices: 78711311--78711369 Score: 100
Period size: 30 Copynumber: 2.0 Consensus size: 28
78711301 TATATATTAT
78711311 ATAATTTAATCAATATAAATTCAATCAAA
1 ATAATTTAATCAATATAAATTCAAT-AAA
78711340 ATAATTTCAATCAATATAAATTCAATAAA
1 ATAATTT-AATCAATATAAATTCAATAAA
78711369 A
1 A
78711370 CAGATATTCA
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
29 11 0.38
30 18 0.62
ACGTcount: A:0.56, C:0.10, G:0.00, T:0.34
Consensus pattern (28 bp):
ATAATTTAATCAATATAAATTCAATAAA
Found at i:78725660 original size:27 final size:29
Alignment explanation
Indices: 78725607--78725662 Score: 71
Period size: 27 Copynumber: 2.0 Consensus size: 29
78725597 GTAATACATT
* *
78725607 TTTTAAAAATTGATAATATATATTTTTAA
1 TTTTAAAAATTGATAATACATAATTTTAA
*
78725636 TTTTAAAAA-TG-TAATGCATAATTTTAA
1 TTTTAAAAATTGATAATACATAATTTTAA
78725663 ACATGAAATA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
27 13 0.54
28 2 0.08
29 9 0.38
ACGTcount: A:0.45, C:0.02, G:0.05, T:0.48
Consensus pattern (29 bp):
TTTTAAAAATTGATAATACATAATTTTAA
Found at i:78725769 original size:21 final size:20
Alignment explanation
Indices: 78725743--78725792 Score: 57
Period size: 21 Copynumber: 2.4 Consensus size: 20
78725733 AATATTTGAA
78725743 AAAAAATAATT-AATTTATTTT
1 AAAAAAT-ATTAAATTT-TTTT
78725764 AAAAAATATTGAAATTTTTTT
1 AAAAAATATT-AAATTTTTTT
78725785 AATAAAAT
1 AA-AAAAT
78725793 TAATATATAA
Statistics
Matches: 26, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
20 3 0.12
21 13 0.50
22 10 0.38
ACGTcount: A:0.54, C:0.00, G:0.02, T:0.44
Consensus pattern (20 bp):
AAAAAATATTAAATTTTTTT
Found at i:78725893 original size:21 final size:18
Alignment explanation
Indices: 78725868--78725907 Score: 55
Period size: 17 Copynumber: 2.2 Consensus size: 18
78725858 TTTGATTTTT
78725868 TAATATATTCACATATTTAG
1 TAATATA-T-ACATATTTAG
78725888 TAA-ATATACATATTTAG
1 TAATATATACATATTTAG
78725905 TAA
1 TAA
78725908 ATAAATATAC
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
17 13 0.65
18 1 0.05
19 3 0.15
20 3 0.15
ACGTcount: A:0.45, C:0.07, G:0.05, T:0.42
Consensus pattern (18 bp):
TAATATATACATATTTAG
Done.