Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167904.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_17, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 21107920
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.34
Warning! 100000 characters in sequence are not A, C, G, or T
File 78 of 121
Found at i:13386787 original size:3 final size:3
Alignment explanation
Indices: 13386757--13386801 Score: 54
Period size: 3 Copynumber: 14.7 Consensus size: 3
13386747 TATATTATGC
* * *
13386757 TAT TAT TGT TAT ATAT TAT CAC TAT TAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT -TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
13386802 GTTTTAAAAA
Statistics
Matches: 35, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
3 32 0.91
4 3 0.09
ACGTcount: A:0.33, C:0.04, G:0.02, T:0.60
Consensus pattern (3 bp):
TAT
Found at i:13386885 original size:37 final size:36
Alignment explanation
Indices: 13386828--13386915 Score: 124
Period size: 37 Copynumber: 2.4 Consensus size: 36
13386818 AAGAAGGAAA
13386828 TTGGTGATTCAATCTCGGATCCGTTGGAGCATGATTC
1 TTGGTGATT-AATCTCGGATCCGTTGGAGCATGATTC
*
13386865 TTGGTGACTTAATCAT-GGATCCGTTGGAGCGTGATTC
1 TTGGTGA-TTAATC-TCGGATCCGTTGGAGCATGATTC
13386902 TTGGTGATTTAATC
1 TTGGTGA-TTAATC
13386916 CCAGATTTGG
Statistics
Matches: 47, Mismatches: 2, Indels: 4
0.89 0.04 0.08
Matches are distributed among these distances:
37 44 0.94
38 3 0.06
ACGTcount: A:0.19, C:0.16, G:0.27, T:0.38
Consensus pattern (36 bp):
TTGGTGATTAATCTCGGATCCGTTGGAGCATGATTC
Found at i:13390762 original size:13 final size:13
Alignment explanation
Indices: 13390728--13390752 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
13390718 AAGTTTCCAA
13390728 AAAAAAAATAAAG
1 AAAAAAAATAAAG
13390741 AAAAAAAATAAA
1 AAAAAAAATAAA
13390753 AATACAAAAT
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:0.88, C:0.00, G:0.04, T:0.08
Consensus pattern (13 bp):
AAAAAAAATAAAG
Found at i:13391011 original size:44 final size:43
Alignment explanation
Indices: 13390963--13391072 Score: 132
Period size: 43 Copynumber: 2.6 Consensus size: 43
13390953 ATCTCAATAG
* * * * * *
13390963 AGGCTCGACGACTTTTGAAAATTTAAGAGGGCTCCTTTAAGTAA
1 AGGCTCAACAACTTTTAAAAATTTAA-AGGGCTCATCTAAGCAA
* *
13391007 AGGCTCAACAACTTTTAAAAATATAAATGGCTCATCTAAGCAA
1 AGGCTCAACAACTTTTAAAAATTTAAAGGGCTCATCTAAGCAA
13391050 AGGCTCAACAAC-TTTAAAAATTT
1 AGGCTCAACAACTTTTAAAAATTT
13391073 CATATTAAAA
Statistics
Matches: 57, Mismatches: 9, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
42 10 0.18
43 25 0.44
44 22 0.39
ACGTcount: A:0.39, C:0.17, G:0.15, T:0.28
Consensus pattern (43 bp):
AGGCTCAACAACTTTTAAAAATTTAAAGGGCTCATCTAAGCAA
Found at i:13391358 original size:98 final size:97
Alignment explanation
Indices: 13391188--13391466 Score: 344
Period size: 98 Copynumber: 2.8 Consensus size: 97
13391178 AAAAGATATG
* ** * * *
13391188 AATGACTTTGGATATTGCCATCAAAGAAAACTCAAATATCGCCATCGAGAAAATACAATTCAAGC
1 AATGACTTCGGATATCACCA-CGAAGAAAACTC-GATATCACCATCGAGAAAATACAATTCAAGC
* *
13391253 TTTAACACTCGGATATCACCATCGAGAATATGCA
64 TTTAACACTCGGATATCACCACCAAGAATATGCA
* * * **
13391287 AATGATTTCGGATATCATCACTGAAGAAAACTCGATATCACCATCGAGAAAATACAATTTAATTT
1 AATGACTTCGGATATCACCAC-GAAGAAAACTCGATATCACCATCGAGAAAATACAATTCAAGCT
13391352 TTAACACTCGGATATCACCACCAAGAATATGCA
65 TTAACACTCGGATATCACCACCAAGAATATGCA
* * * *
13391385 AATGACTTCGGATATCACCACGAAGGAAAA-TCGAATATCACCATCGAGAAGACATATTTCAAGC
1 AATGACTTCGGATATCACCACGAA-GAAAACTCG-ATATCACCATCGAGAAAATACAATTCAAGC
*
13391449 TTTAACACTCAGATATCA
64 TTTAACACTCGGATATCA
13391467 TCACTGAGAA
Statistics
Matches: 154, Mismatches: 23, Indels: 7
0.84 0.12 0.04
Matches are distributed among these distances:
97 6 0.04
98 123 0.80
99 25 0.16
ACGTcount: A:0.41, C:0.21, G:0.14, T:0.25
Consensus pattern (97 bp):
AATGACTTCGGATATCACCACGAAGAAAACTCGATATCACCATCGAGAAAATACAATTCAAGCTT
TAACACTCGGATATCACCACCAAGAATATGCA
Found at i:13391494 original size:42 final size:42
Alignment explanation
Indices: 13391442--13391609 Score: 174
Period size: 42 Copynumber: 4.0 Consensus size: 42
13391432 GAAGACATAT
* * * * *
13391442 TTCAAGCTTTAACACTCAGATATCATCACTGAGAATATACAA
1 TTCAAACTTTAACACTCAGATATCACCACTGAAAAGATGCAA
* ** ** *
13391484 TTTAAACTTTAACACTTGGATATTTCCACCGAAAAGATGCAA
1 TTCAAACTTTAACACTCAGATATCACCACTGAAAAGATGCAA
* * *
13391526 TTCAAACTTTATCACTCAAATATCACCACTAAAAAGATGCAA
1 TTCAAACTTTAACACTCAGATATCACCACTGAAAAGATGCAA
* * * *
13391568 TTCAAACTTCAACACTTAGATATCACCATTGAGAAGATGCAA
1 TTCAAACTTTAACACTCAGATATCACCACTGAAAAGATGCAA
13391610 ATGATTTCGG
Statistics
Matches: 99, Mismatches: 27, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
42 99 1.00
ACGTcount: A:0.41, C:0.21, G:0.10, T:0.28
Consensus pattern (42 bp):
TTCAAACTTTAACACTCAGATATCACCACTGAAAAGATGCAA
Found at i:13391605 original size:84 final size:85
Alignment explanation
Indices: 13391419--13391609 Score: 208
Period size: 84 Copynumber: 2.3 Consensus size: 85
13391409 GGAAAATCGA
* * * * * *
13391419 ATATCACCATCGAGAAGA--CATATTTCAAGCTTTAACACTCAGATATCATCACTGAGAATATAC
1 ATATCACCATCGAGAAGATGCA-ATTTCAAACTTTAACACTCAAATATCACCACTAAAAAGATAC
* * *
13391482 AATTTAAACTTTAACACTTGG
65 AATTCAAACTTCAACACTTAG
** * * * *
13391503 ATATTTCCACCGAAAAGATGCAA-TTCAAACTTTATCACTCAAATATCACCACTAAAAAGATGCA
1 ATATCACCATCGAGAAGATGCAATTTCAAACTTTAACACTCAAATATCACCACTAAAAAGATACA
13391567 ATTCAAACTTCAACACTTAG
66 ATTCAAACTTCAACACTTAG
*
13391587 ATATCACCATTGAGAAGATGCAA
1 ATATCACCATCGAGAAGATGCAA
13391610 ATGATTTCGG
Statistics
Matches: 85, Mismatches: 20, Indels: 4
0.78 0.18 0.04
Matches are distributed among these distances:
84 82 0.96
85 1 0.01
86 2 0.02
ACGTcount: A:0.41, C:0.21, G:0.10, T:0.27
Consensus pattern (85 bp):
ATATCACCATCGAGAAGATGCAATTTCAAACTTTAACACTCAAATATCACCACTAAAAAGATACA
ATTCAAACTTCAACACTTAG
Found at i:13391985 original size:137 final size:137
Alignment explanation
Indices: 13391773--13392091 Score: 493
Period size: 137 Copynumber: 2.3 Consensus size: 137
13391763 CAAGAAAACA
* *
13391773 AAATTCATACTTTAATACTTGGATATCACCA---AGAAAATGCAAATGTAGAGAAAGAATGCAAA
1 AAATTCATACTTTAATACTCGGATATCACCATCGAGAAAATGTAAATGTAGAGAAAGAATGCAAA
* * ** *
13391835 GTTAAACTTTAAACTTGGATATCACCATCGAATGATTTTAAAAATGTCTTGAATATCA-CTTTCA
66 ATCAAACTTTAAACTCAGATATCACAATCGAATGATTTTAAAAATGTCTTGAATATCACCTTT-A
13391899 AAAAAATG
130 AAAAAATG
*
13391907 AAATTCATACTTTAATACTCGGATATCACCATCGAGAAAATGTAAATGTAGAGAAAGAATGTAAA
1 AAATTCATACTTTAATACTCGGATATCACCATCGAGAAAATGTAAATGTAGAGAAAGAATGCAAA
* *
13391972 ATCAAACTTTAAACTCAGATATCACAATCGAGTGATTTTGAAAATGTCTTGAATATCACCTTTAA
66 ATCAAACTTTAAACTCAGATATCACAATCGAATGATTTTAAAAATGTCTTGAATATCACCTTTAA
13392037 AAAAATG
131 AAAAATG
*
13392044 AAATTCAGACTTTAATACTCGGATATCACCATCGAGAAGAATGTAAAT
1 AAATTCATACTTTAATACTCGGATATCACCATCGAGAA-AATGTAAAT
13392092 TCAAACTTTA
Statistics
Matches: 169, Mismatches: 11, Indels: 6
0.91 0.06 0.03
Matches are distributed among these distances:
134 30 0.18
137 126 0.75
138 13 0.08
ACGTcount: A:0.44, C:0.14, G:0.13, T:0.29
Consensus pattern (137 bp):
AAATTCATACTTTAATACTCGGATATCACCATCGAGAAAATGTAAATGTAGAGAAAGAATGCAAA
ATCAAACTTTAAACTCAGATATCACAATCGAATGATTTTAAAAATGTCTTGAATATCACCTTTAA
AAAAATG
Found at i:13392121 original size:43 final size:43
Alignment explanation
Indices: 13392040--13392122 Score: 132
Period size: 43 Copynumber: 1.9 Consensus size: 43
13392030 CCTTTAAAAA
*
13392040 AATGAAATTCAGACTTTAATACTCGGATATCACCATCGAGAAG
1 AATGAAATTCAAACTTTAATACTCGGATATCACCATCGAGAAG
*
13392083 AATGTAAATTCAAACTTTAA-ACTCGGATATCACTATCGAG
1 AATG-AAATTCAAACTTTAATACTCGGATATCACCATCGAG
13392123 TGATTTTGAA
Statistics
Matches: 37, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
43 23 0.62
44 14 0.38
ACGTcount: A:0.40, C:0.18, G:0.14, T:0.28
Consensus pattern (43 bp):
AATGAAATTCAAACTTTAATACTCGGATATCACCATCGAGAAG
Found at i:13392428 original size:35 final size:34
Alignment explanation
Indices: 13392343--13392431 Score: 101
Period size: 35 Copynumber: 2.6 Consensus size: 34
13392333 TATGAGGCAA
* * *
13392343 ATGAAATACAAATGTC-TTTCTTAAATGATGCTT
1 ATGAAATGCAAATGTCTTTTCTTAAAAGATGCTC
*
13392376 ATGAGATGCAAATGTCTTTTCTTAAAAAGATG-TAC
1 ATGAAATGCAAATGTCTTTTCTT-AAAAGATGCT-C
*
13392411 ATGAAATGTAAATGTCTTTTC
1 ATGAAATGCAAATGTCTTTTC
13392432 CAAAAATACT
Statistics
Matches: 47, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
33 14 0.30
34 7 0.15
35 26 0.55
ACGTcount: A:0.36, C:0.11, G:0.15, T:0.38
Consensus pattern (34 bp):
ATGAAATGCAAATGTCTTTTCTTAAAAGATGCTC
Found at i:13395142 original size:20 final size:21
Alignment explanation
Indices: 13395097--13395144 Score: 71
Period size: 21 Copynumber: 2.3 Consensus size: 21
13395087 ATGATAATCA
*
13395097 CATTTTGTACTAGGATTATAC
1 CATTTTGTACTAGGATCATAC
*
13395118 CATTTTGTATTAGGATCAT-C
1 CATTTTGTACTAGGATCATAC
13395138 CATTTTG
1 CATTTTG
13395145 GGTAAGAAGG
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
20 8 0.32
21 17 0.68
ACGTcount: A:0.25, C:0.15, G:0.15, T:0.46
Consensus pattern (21 bp):
CATTTTGTACTAGGATCATAC
Found at i:13399794 original size:8 final size:7
Alignment explanation
Indices: 13399780--13399835 Score: 53
Period size: 8 Copynumber: 7.6 Consensus size: 7
13399770 AAGTCACCAG
13399780 AAAAGAA
1 AAAAGAA
13399787 AGAAAGAA
1 A-AAAGAA
13399795 AAAA-AA
1 AAAAGAA
13399801 GGAAAAG-A
1 --AAAAGAA
13399809 AAAAGAAA
1 AAAAG-AA
13399817 AAAAGAAA
1 AAAAG-AA
13399825 AAAAGAA
1 AAAAGAA
13399832 AAAA
1 AAAA
13399836 TAGAATACAA
Statistics
Matches: 43, Mismatches: 0, Indels: 12
0.78 0.00 0.22
Matches are distributed among these distances:
6 7 0.16
7 10 0.23
8 26 0.60
ACGTcount: A:0.84, C:0.00, G:0.16, T:0.00
Consensus pattern (7 bp):
AAAAGAA
Found at i:13399835 original size:29 final size:29
Alignment explanation
Indices: 13399780--13399834 Score: 85
Period size: 28 Copynumber: 1.9 Consensus size: 29
13399770 AAGTCACCAG
* *
13399780 AAAAGAAAGAAAGAAAAAAAAGGAAAAGA
1 AAAAGAAAAAAAGAAAAAAAAGAAAAAGA
13399809 AAAAGAAAAAAAG-AAAAAAAGAAAAA
1 AAAAGAAAAAAAGAAAAAAAAGAAAAA
13399835 ATAGAATACA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
28 12 0.50
29 12 0.50
ACGTcount: A:0.84, C:0.00, G:0.16, T:0.00
Consensus pattern (29 bp):
AAAAGAAAAAAAGAAAAAAAAGAAAAAGA
Found at i:13402488 original size:33 final size:31
Alignment explanation
Indices: 13402427--13402489 Score: 74
Period size: 33 Copynumber: 2.0 Consensus size: 31
13402417 TAAATCCTCC
*
13402427 TTATTGCATACATTTATACATATTTTTCTCT
1 TTATTGCATACATTCATACATATTTTTCTCT
*
13402458 TTATTGCATTCACATTCATGCAT-TTGTTTCTC
1 TTATTGCA-T-ACATTCATACATATT-TTTCTC
13402490 ATACATAATT
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
31 8 0.30
32 3 0.11
33 16 0.59
ACGTcount: A:0.22, C:0.19, G:0.06, T:0.52
Consensus pattern (31 bp):
TTATTGCATACATTCATACATATTTTTCTCT
Found at i:13405812 original size:20 final size:22
Alignment explanation
Indices: 13405770--13405827 Score: 66
Period size: 22 Copynumber: 2.7 Consensus size: 22
13405760 GAAAACTACA
*
13405770 AAAAAAAAAAGAAAGTATGATG
1 AAAAAAAAAAGAAAGTATAATG
*
13405792 AAAAAAAAGAGAAAG-A-AATG
1 AAAAAAAAAAGAAAGTATAATG
*
13405812 AAACAAAAAAAAAAAG
1 AAA-AAAAAAAGAAAG
13405828 AAGGAAAAAG
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
20 6 0.19
21 11 0.35
22 14 0.45
ACGTcount: A:0.76, C:0.02, G:0.16, T:0.07
Consensus pattern (22 bp):
AAAAAAAAAAGAAAGTATAATG
Found at i:13407504 original size:111 final size:110
Alignment explanation
Indices: 13407300--13407514 Score: 263
Period size: 111 Copynumber: 1.9 Consensus size: 110
13407290 ATTTTTTAAA
* * * *
13407300 AGTTTTAAGCCTCAGTTTTGGGGAAGCTTTTATTTAAAGTTTCAAGCCTCGTTACAGGGGAGCCT
1 AGTTTCAAGCCTCAGTTGTGGGGAAGCTTTCATTTAAAGTTTCAAGCCTAGTTACAGGGGAGCCT
* * *
13407365 TTTATGTAAAGTTTTAAGCCTCAATTGTGAGGGAGCTTTTACTTAG
66 TTCATGTAAAGTTTCAAGACTCAATTGTGAGGGAG-TTTTACTTAG
* * **
13407411 AGTTTCAAGCCTTAGTTGTGGGGGAGTCTTTCATTT-AAGTTTCAAGCCTTAGTTGTAGGGGAG-
1 AGTTTCAAGCCTCAGTTGTGGGGAAG-CTTTCATTTAAAGTTTCAAGCC-TAGTTACAGGGGAGC
* * *
13407474 CTTTCATTTAAAGTTTCAAGACTCAGTTGTGGGGGAGTTTT
64 CTTTCATGTAAAGTTTCAAGACTCAATTGTGAGGGAGTTTT
13407515 GGCGATTTTC
Statistics
Matches: 88, Mismatches: 14, Indels: 5
0.82 0.13 0.05
Matches are distributed among these distances:
110 4 0.05
111 65 0.74
112 19 0.22
ACGTcount: A:0.23, C:0.13, G:0.26, T:0.38
Consensus pattern (110 bp):
AGTTTCAAGCCTCAGTTGTGGGGAAGCTTTCATTTAAAGTTTCAAGCCTAGTTACAGGGGAGCCT
TTCATGTAAAGTTTCAAGACTCAATTGTGAGGGAGTTTTACTTAG
Found at i:13407509 original size:37 final size:37
Alignment explanation
Indices: 13407298--13407514 Score: 233
Period size: 37 Copynumber: 5.9 Consensus size: 37
13407288 AGATTTTTTA
* * *
13407298 AAAGTTTTAAGCCTCAGTTTTGGGGAAGCTTTTATTT
1 AAAGTTTCAAGCCTCAGTTGTGGGGGAGCTTTTATTT
*** *
13407335 AAAGTTTCAAGCCTC-GTTACAGGGGAGCCTTTTATGT
1 AAAGTTTCAAGCCTCAGTTGTGGGGGAG-CTTTTATTT
* * * *
13407372 AAAGTTTTAAGCCTCAATTGTGAGGGAGCTTTTACTT
1 AAAGTTTCAAGCCTCAGTTGTGGGGGAGCTTTTATTT
* * *
13407409 AGAGTTTCAAGCCTTAGTTGTGGGGGAGTCTTTCATTT
1 AAAGTTTCAAGCCTCAGTTGTGGGGGAG-CTTTTATTT
* * *
13407447 -AAGTTTCAAGCCTTAGTTGTAGGGGAGCTTTCATTT
1 AAAGTTTCAAGCCTCAGTTGTGGGGGAGCTTTTATTT
*
13407483 AAAGTTTCAAGACTCAGTTGTGGGGGAG-TTTT
1 AAAGTTTCAAGCCTCAGTTGTGGGGGAGCTTTT
13407515 GGCGATTTTC
Statistics
Matches: 149, Mismatches: 27, Indels: 9
0.81 0.15 0.05
Matches are distributed among these distances:
36 20 0.13
37 115 0.77
38 14 0.09
ACGTcount: A:0.24, C:0.13, G:0.25, T:0.38
Consensus pattern (37 bp):
AAAGTTTCAAGCCTCAGTTGTGGGGGAGCTTTTATTT
Found at i:13407745 original size:12 final size:12
Alignment explanation
Indices: 13407721--13407767 Score: 51
Period size: 12 Copynumber: 3.9 Consensus size: 12
13407711 AAGCCCAAAA
13407721 ATTTTAA-TTTG
1 ATTTTAATTTTG
13407732 ATTTTAATTTTG
1 ATTTTAATTTTG
** *
13407744 ATTTTGGTTTTTA
1 ATTTT-AATTTTG
13407757 ATTTTAATTTT
1 ATTTTAATTTT
13407768 TTTTTGTTTA
Statistics
Matches: 29, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
11 7 0.24
12 13 0.45
13 9 0.31
ACGTcount: A:0.23, C:0.00, G:0.09, T:0.68
Consensus pattern (12 bp):
ATTTTAATTTTG
Found at i:13407757 original size:19 final size:19
Alignment explanation
Indices: 13407733--13407790 Score: 64
Period size: 19 Copynumber: 3.0 Consensus size: 19
13407723 TTTAATTTGA
13407733 TTTTAATTTTGATTTTGGT
1 TTTTAATTTTGATTTTGGT
* **
13407752 TTTTAATTTTAATTTTTTTT
1 TTTTAATTTTGA-TTTTGGT
13407772 TGTTTAATTTTG-TTTTGGT
1 T-TTTAATTTTGATTTTGGT
13407791 CAAAGTTAAA
Statistics
Matches: 31, Mismatches: 6, Indels: 4
0.76 0.15 0.10
Matches are distributed among these distances:
19 16 0.52
20 6 0.19
21 9 0.29
ACGTcount: A:0.16, C:0.00, G:0.12, T:0.72
Consensus pattern (19 bp):
TTTTAATTTTGATTTTGGT
Found at i:13407777 original size:15 final size:15
Alignment explanation
Indices: 13407759--13407788 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
13407749 GGTTTTTAAT
*
13407759 TTTAATTTTTTTTTG
1 TTTAATTTTGTTTTG
13407774 TTTAATTTTGTTTTG
1 TTTAATTTTGTTTTG
13407789 GTCAAAGTTA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.13, C:0.00, G:0.10, T:0.77
Consensus pattern (15 bp):
TTTAATTTTGTTTTG
Found at i:13408835 original size:18 final size:18
Alignment explanation
Indices: 13408812--13408852 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
13408802 TTTTTAGTTT
*
13408812 TTTTTG-TTTTTATTTTCA
1 TTTTTGATTTTGATTTT-A
13408830 TTTTTGATTTTGATTTTA
1 TTTTTGATTTTGATTTTA
13408848 TTTTT
1 TTTTT
13408853 TATTATCTGT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 12 0.57
19 9 0.43
ACGTcount: A:0.12, C:0.02, G:0.07, T:0.78
Consensus pattern (18 bp):
TTTTTGATTTTGATTTTA
Found at i:13408853 original size:19 final size:19
Alignment explanation
Indices: 13408811--13408853 Score: 54
Period size: 19 Copynumber: 2.3 Consensus size: 19
13408801 GTTTTTAGTT
*
13408811 TTTTTTGTTTTTATTTTCA
1 TTTTTTGTTTTGATTTTCA
13408830 -TTTTTGATTTTGATTTT-A
1 TTTTTTG-TTTTGATTTTCA
13408848 TTTTTT
1 TTTTTT
13408854 ATTATCTGTT
Statistics
Matches: 21, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
18 7 0.33
19 14 0.67
ACGTcount: A:0.12, C:0.02, G:0.07, T:0.79
Consensus pattern (19 bp):
TTTTTTGTTTTGATTTTCA
Found at i:13409125 original size:20 final size:20
Alignment explanation
Indices: 13409100--13409159 Score: 59
Period size: 20 Copynumber: 3.0 Consensus size: 20
13409090 ATTGTGTGAT
13409100 TAATATATTTGCATGACTA-A
1 TAATATATTTGCATGA-TATA
* * *
13409120 TAATATTTTTTGCTTGATATT
1 TAATA-TATTTGCATGATATA
*
13409141 TAATAAATTTGCATGATAT
1 TAATATATTTGCATGATAT
13409160 TTTTGGTATG
Statistics
Matches: 32, Mismatches: 6, Indels: 4
0.76 0.14 0.10
Matches are distributed among these distances:
20 18 0.56
21 14 0.44
ACGTcount: A:0.35, C:0.07, G:0.10, T:0.48
Consensus pattern (20 bp):
TAATATATTTGCATGATATA
Found at i:13410717 original size:2 final size:2
Alignment explanation
Indices: 13410710--13410734 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
13410700 ACAAACTTAG
13410710 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
13410735 TAGTCCAAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:13410761 original size:43 final size:43
Alignment explanation
Indices: 13410709--13410796 Score: 140
Period size: 43 Copynumber: 2.0 Consensus size: 43
13410699 AACAAACTTA
*
13410709 GTATATATATATATATATATATATATTAGTCCAAAACATATAG
1 GTATATATATATATATATAGATATATTAGTCCAAAACATATAG
* * *
13410752 GTATTTATATATATATATAGATATATTAGTCCTAAATATATAG
1 GTATATATATATATATATAGATATATTAGTCCAAAACATATAG
13410795 GT
1 GT
13410797 GTTTTTTTGT
Statistics
Matches: 41, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
43 41 1.00
ACGTcount: A:0.43, C:0.06, G:0.09, T:0.42
Consensus pattern (43 bp):
GTATATATATATATATATAGATATATTAGTCCAAAACATATAG
Found at i:13412369 original size:14 final size:14
Alignment explanation
Indices: 13412350--13412379 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
13412340 TTGTTGGTTG
13412350 TTTGGTTGCTAACA
1 TTTGGTTGCTAACA
13412364 TTTGGTTGCTAACA
1 TTTGGTTGCTAACA
13412378 TT
1 TT
13412380 ATTATTGTCA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.20, C:0.13, G:0.20, T:0.47
Consensus pattern (14 bp):
TTTGGTTGCTAACA
Found at i:13419987 original size:4 final size:4
Alignment explanation
Indices: 13419967--13420026 Score: 61
Period size: 4 Copynumber: 15.5 Consensus size: 4
13419957 TTTGTTTTGC
* * * * *
13419967 TATT TTTT TACT TATT TATT TATT TCTA TATT TATT TATT CA-T TATT
1 TATT TATT TATT TATT TATT TATT TATT TATT TATT TATT TATT TATT
13420014 TA-T TATT TATT TA
1 TATT TATT TATT TA
13420027 GGTTTTAGTT
Statistics
Matches: 44, Mismatches: 10, Indels: 4
0.76 0.17 0.07
Matches are distributed among these distances:
3 5 0.11
4 39 0.89
ACGTcount: A:0.25, C:0.05, G:0.00, T:0.70
Consensus pattern (4 bp):
TATT
Found at i:13420014 original size:11 final size:11
Alignment explanation
Indices: 13419982--13420026 Score: 56
Period size: 11 Copynumber: 4.0 Consensus size: 11
13419972 TTTTACTTAT
*
13419982 TTATTTATTTC
1 TTATTTATTTA
13419993 TATATTTATTTA
1 T-TATTTATTTA
13420005 TTCA-TTATTTA
1 TT-ATTTATTTA
13420016 TTATTTATTTA
1 TTATTTATTTA
13420027 GGTTTTAGTT
Statistics
Matches: 30, Mismatches: 1, Indels: 6
0.81 0.03 0.16
Matches are distributed among these distances:
10 1 0.03
11 18 0.60
12 11 0.37
ACGTcount: A:0.27, C:0.04, G:0.00, T:0.69
Consensus pattern (11 bp):
TTATTTATTTA
Found at i:13421340 original size:5 final size:5
Alignment explanation
Indices: 13421330--13421365 Score: 56
Period size: 5 Copynumber: 7.4 Consensus size: 5
13421320 AAATTTCCTT
*
13421330 TTATA TTATA TTATA TTAT- TTTTA TTATA TTATA TT
1 TTATA TTATA TTATA TTATA TTATA TTATA TTATA TT
13421366 TTGTTTTATT
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
4 3 0.11
5 25 0.89
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (5 bp):
TTATA
Found at i:13421353 original size:21 final size:21
Alignment explanation
Indices: 13421328--13421382 Score: 62
Period size: 19 Copynumber: 2.7 Consensus size: 21
13421318 CCAAATTTCC
13421328 TTTTATATTATATTATATTA-
1 TTTTATATTATATTATATTAG
*
13421348 TTTT-TATTATATTATATTTTG
1 TTTTATATTATATTATA-TTAG
*
13421369 TTTTAT-TTTTATTA
1 TTTTATATTATATTA
13421383 GGTCAAATTA
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
19 12 0.40
20 6 0.20
21 11 0.37
22 1 0.03
ACGTcount: A:0.27, C:0.00, G:0.02, T:0.71
Consensus pattern (21 bp):
TTTTATATTATATTATATTAG
Found at i:13421357 original size:14 final size:15
Alignment explanation
Indices: 13421330--13421367 Score: 60
Period size: 14 Copynumber: 2.6 Consensus size: 15
13421320 AAATTTCCTT
*
13421330 TTATATTATATTATA
1 TTATATTTTATTATA
13421345 TTAT-TTTTATTATA
1 TTATATTTTATTATA
13421359 TTATATTTT
1 TTATATTTT
13421368 GTTTTATTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
14 13 0.62
15 8 0.38
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (15 bp):
TTATATTTTATTATA
Found at i:13421357 original size:19 final size:19
Alignment explanation
Indices: 13421328--13421375 Score: 69
Period size: 19 Copynumber: 2.4 Consensus size: 19
13421318 CCAAATTTCC
13421328 TTTTATATTATATTATATTA
1 TTTT-TATTATATTATATTA
*
13421348 TTTTTATTATATTATATTT
1 TTTTTATTATATTATATTA
13421367 TGTTTTATT
1 T-TTTTATT
13421376 TTTATTAGGT
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
19 15 0.58
20 11 0.42
ACGTcount: A:0.27, C:0.00, G:0.02, T:0.71
Consensus pattern (19 bp):
TTTTTATTATATTATATTA
Found at i:13423033 original size:28 final size:27
Alignment explanation
Indices: 13422971--13423034 Score: 67
Period size: 29 Copynumber: 2.3 Consensus size: 27
13422961 CCTTGTACTT
13422971 ATATGAAATTTGAAATTTAGTCATAGTA
1 ATAT-AAATTTGAAATTTAGTCATAGTA
* *
13422999 CTCATAAATTTTGAAATTTAGTCCCTA-TA
1 AT-ATAAA-TTTGAAATTTAGT-CATAGTA
13423028 ATATAAA
1 ATATAAA
13423035 AATATTTTGA
Statistics
Matches: 30, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
28 9 0.30
29 18 0.60
30 3 0.10
ACGTcount: A:0.42, C:0.09, G:0.09, T:0.39
Consensus pattern (27 bp):
ATATAAATTTGAAATTTAGTCATAGTA
Found at i:13423848 original size:20 final size:21
Alignment explanation
Indices: 13423825--13423867 Score: 63
Period size: 20 Copynumber: 2.1 Consensus size: 21
13423815 AAGTTAGCGT
13423825 CACATT-AGCAAAGTCAAC-AC
1 CACATTGA-CAAAGTCAACGAC
13423845 CACATTGACAAAGTCAACGAC
1 CACATTGACAAAGTCAACGAC
13423866 CA
1 CA
13423868 TGTCAATATT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
20 16 0.76
21 5 0.24
ACGTcount: A:0.44, C:0.30, G:0.12, T:0.14
Consensus pattern (21 bp):
CACATTGACAAAGTCAACGAC
Found at i:13427519 original size:33 final size:33
Alignment explanation
Indices: 13427366--13427729 Score: 171
Period size: 33 Copynumber: 11.2 Consensus size: 33
13427356 TCATTTCCTG
* * *
13427366 ACTTTAGCTAAGACCAAGTCATATT-ATTTTCTA
1 ACTTTGGCTAAGTCCAAGTCAT-TTCATTTTTTA
* * * *
13427399 A-TGTTGGCCAAGTTCAAGTCATATCATTTTTTG
1 ACT-TTGGCTAAGTCCAAGTCATTTCATTTTTTA
* ** * * * *
13427432 ACCTCAGTTAAGACCAAATCATTTCATTTTTTG
1 ACTTTGGCTAAGTCCAAGTCATTTCATTTTTTA
* * *
13427465 ACCTCGGCTAAGAT-CAGGTCATTTCATTTTTTA
1 ACTTTGGCTAAG-TCCAAGTCATTTCATTTTTTA
* *
13427498 ACTATGGCTAAGTCCAAGTCATTT--TTTTTCA
1 ACTTTGGCTAAGTCCAAGTCATTTCATTTTTTA
* * * *
13427529 ATTTTTGGCTCAGCCCAAGTCA-TT-ATTTTTTG
1 A-CTTTGGCTAAGTCCAAGTCATTTCATTTTTTA
* * * *
13427561 ACTTTGGGTTAGTCTAAGTCA--TCATTTTTTTT
1 ACTTTGGCTAAGTCCAAGTCATTTCA-TTTTTTA
* * * *
13427593 AGTTAGGTTCAA-TCTAAGTCATTTCA-TTTTTA
1 ACTTTGGCT-AAGTCCAAGTCATTTCATTTTTTA
* * *
13427625 GACTTAGGCTTAGTCTAAGTCATTTCA-TTTTTA
1 -ACTTTGGCTAAGTCCAAGTCATTTCATTTTTTA
* ** ** *
13427658 GACATTGGCTTTGTCCAAGTTGTTTCATTTTTCA
1 -ACTTTGGCTAAGTCCAAGTCATTTCATTTTTTA
* *
13427692 ACTTTAGCTCAA-TCCAAGTCATTTCA-TTTTGA
1 ACTTTGGCT-AAGTCCAAGTCATTTCATTTTTTA
13427724 ACTTTG
1 ACTTTG
13427730 ACTCAGTCTA
Statistics
Matches: 253, Mismatches: 62, Indels: 33
0.73 0.18 0.09
Matches are distributed among these distances:
30 1 0.00
31 25 0.10
32 62 0.25
33 157 0.62
34 8 0.03
ACGTcount: A:0.25, C:0.18, G:0.14, T:0.44
Consensus pattern (33 bp):
ACTTTGGCTAAGTCCAAGTCATTTCATTTTTTA
Found at i:13427580 original size:31 final size:31
Alignment explanation
Indices: 13427545--13427648 Score: 93
Period size: 32 Copynumber: 3.3 Consensus size: 31
13427535 GGCTCAGCCC
13427545 AAGTCATTATTTTTTGACTTTGGGTTAGTCT
1 AAGTCATTATTTTTTGACTTTGGGTTAGTCT
* * * * *
13427576 AAGTCATCATTTTTTTTA-GTTAGGTTCAATCT
1 AAGTCATTA-TTTTTTGACTTTGGGTT-AGTCT
* * *
13427608 AAGTCATTTCATTTTTAGACTTAGGCTTAGTCT
1 AAGTCA-TT-ATTTTTTGACTTTGGGTTAGTCT
13427641 AAGTCATT
1 AAGTCATT
13427649 TCATTTTTAG
Statistics
Matches: 55, Mismatches: 13, Indels: 9
0.71 0.17 0.12
Matches are distributed among these distances:
31 14 0.25
32 19 0.35
33 17 0.31
34 5 0.09
ACGTcount: A:0.24, C:0.12, G:0.15, T:0.48
Consensus pattern (31 bp):
AAGTCATTATTTTTTGACTTTGGGTTAGTCT
Found at i:13427973 original size:116 final size:116
Alignment explanation
Indices: 13427769--13428000 Score: 383
Period size: 116 Copynumber: 2.0 Consensus size: 116
13427759 TTGGATGTAA
*
13427769 GAGATATTTATATCTTTGCACAATTATTGTCTCACAGAAAATGTGCAAAGAAAGGCAACTATAAA
1 GAGATATTTATATCTTTGCACAATTAGTGTCTCACAGAAAATGTGCAAAGAAAGGCAACTATAAA
*
13427834 CACTCCATTTTGTCCATGGTCCAAATCGACTAGGCTCAGTCTAGTTCAAAG
66 CACTCCATTTTGTCCAAGGTCCAAATCGACTAGGCTCAGTCTAGTTCAAAG
* *
13427885 GAGATATTTATTTCTTTGCACAATTAGTGTCTCACAGAAAATGTGCAAAGAAAGGCAACTGTAAA
1 GAGATATTTATATCTTTGCACAATTAGTGTCTCACAGAAAATGTGCAAAGAAAGGCAACTATAAA
* * * * *
13427950 CACTCTATTTTTTCTAAGGTCCAAATCGATTAGGCTTAGTCTAGTTCAAAG
66 CACTCCATTTTGTCCAAGGTCCAAATCGACTAGGCTCAGTCTAGTTCAAAG
13428001 CCCAAATGTC
Statistics
Matches: 107, Mismatches: 9, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
116 107 1.00
ACGTcount: A:0.34, C:0.18, G:0.17, T:0.31
Consensus pattern (116 bp):
GAGATATTTATATCTTTGCACAATTAGTGTCTCACAGAAAATGTGCAAAGAAAGGCAACTATAAA
CACTCCATTTTGTCCAAGGTCCAAATCGACTAGGCTCAGTCTAGTTCAAAG
Found at i:13429302 original size:13 final size:13
Alignment explanation
Indices: 13429271--13429308 Score: 51
Period size: 13 Copynumber: 2.8 Consensus size: 13
13429261 AATGTTTTTA
13429271 AAAAAATGATAATTT
1 AAAAAAT-A-AATTT
13429286 -AAAAATAAATTT
1 AAAAAATAAATTT
13429298 AAAAAATAAAT
1 AAAAAATAAAT
13429309 AAAGACCTAT
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
12 5 0.23
13 11 0.50
14 6 0.27
ACGTcount: A:0.68, C:0.00, G:0.03, T:0.29
Consensus pattern (13 bp):
AAAAAATAAATTT
Found at i:13433198 original size:22 final size:22
Alignment explanation
Indices: 13433171--13433215 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
13433161 TACCATTTTC
*
13433171 TTCATTGCATTTCATATCATTT
1 TTCATTACATTTCATATCATTT
* *
13433193 TTCATTACTTTTCATATTATTT
1 TTCATTACATTTCATATCATTT
13433215 T
1 T
13433216 CCTTTGATTT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.22, C:0.16, G:0.02, T:0.60
Consensus pattern (22 bp):
TTCATTACATTTCATATCATTT
Found at i:13434214 original size:26 final size:26
Alignment explanation
Indices: 13434162--13434377 Score: 169
Period size: 26 Copynumber: 8.3 Consensus size: 26
13434152 CTTCCATGCT
** *
13434162 AACCTTAAACCCCAAACCTAAATCCTA
1 AACCTTAAACCTTAAACC-AAACCCTA
*
13434189 AACCTTAAACTTTAAACCAAACCCTA
1 AACCTTAAACCTTAAACCAAACCCTA
* * *
13434215 AAACTTAAGCCCTAAACCAAACCCT-
1 AACCTTAAACCTTAAACCAAACCCTA
*
13434240 AGCCTTAAACCTTAAACC-AACCCT-
1 AACCTTAAACCTTAAACCAAACCCTA
*
13434264 AGCCTTAAACCTTAAACCAAACCCTA
1 AACCTTAAACCTTAAACCAAACCCTA
* *
13434290 AATCC-TAAACC-AAAACCATAAACCTTA
1 AA-CCTTAAACCTTAAACC--AAACCCTA
* *
13434317 AACCTTAAA--TCACACCCTAAACCCTA
1 AACCTTAAACCTTA-AACC-AAACCCTA
* *
13434343 AA-CTCTAAACCTTTAACCAAGCCCTA
1 AACCT-TAAACCTTAAACCAAACCCTA
*
13434369 AACCCTAAA
1 AACCTTAAA
13434378 ACCAACCCTA
Statistics
Matches: 154, Mismatches: 23, Indels: 25
0.76 0.11 0.12
Matches are distributed among these distances:
24 24 0.16
25 27 0.18
26 65 0.42
27 37 0.24
28 1 0.01
ACGTcount: A:0.44, C:0.35, G:0.02, T:0.19
Consensus pattern (26 bp):
AACCTTAAACCTTAAACCAAACCCTA
Found at i:13434311 original size:20 final size:19
Alignment explanation
Indices: 13434269--13434320 Score: 70
Period size: 20 Copynumber: 2.7 Consensus size: 19
13434259 ACCCTAGCCT
*
13434269 TAAACCTTAAACCAAACCC
1 TAAACCTTAAACCAAACCA
13434288 TAAATCC-TAAACCAAAACCA
1 TAAA-CCTTAAACC-AAACCA
13434308 TAAACCTTAAACC
1 TAAACCTTAAACC
13434321 TTAAATCACA
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
19 12 0.41
20 17 0.59
ACGTcount: A:0.50, C:0.33, G:0.00, T:0.17
Consensus pattern (19 bp):
TAAACCTTAAACCAAACCA
Found at i:13434340 original size:7 final size:7
Alignment explanation
Indices: 13434162--13434395 Score: 92
Period size: 7 Copynumber: 36.1 Consensus size: 7
13434152 CTTCCATGCT
*
13434162 AACCTTA
1 AACCCTA
*
13434169 AACCCCA
1 AACCCTA
13434176 AA-CCTA
1 AACCCTA
*
13434182 AATCCTA
1 AACCCTA
*
13434189 AACCTTA
1 AACCCTA
**
13434196 AACTTTA
1 AACCCTA
13434203 AA-CC-A
1 AACCCTA
13434208 AACCCTA
1 AACCCTA
* *
13434215 AAACTTA
1 AACCCTA
*
13434222 AGCCCTA
1 AACCCTA
13434229 AA-CC-A
1 AACCCTA
13434234 AACCCT-
1 AACCCTA
* *
13434240 AGCCTTA
1 AACCCTA
*
13434247 AACCTTA
1 AACCCTA
13434254 AA-CC--
1 AACCCTA
13434258 AACCCT-
1 AACCCTA
* *
13434264 AGCCTTA
1 AACCCTA
*
13434271 AACCTTA
1 AACCCTA
13434278 AA-CC-A
1 AACCCTA
13434283 AACCCTA
1 AACCCTA
*
13434290 AATCCTA
1 AACCCTA
*
13434297 AA-CCAA
1 AACCCTA
*
13434303 AACCATA
1 AACCCTA
*
13434310 AACCTTA
1 AACCCTA
*
13434317 AACCTTA
1 AACCCTA
*
13434324 AA-TC-A
1 AACCCTA
*
13434329 CACCCTA
1 AACCCTA
13434336 AACCCTA
1 AACCCTA
*
13434343 AACTCTA
1 AACCCTA
* *
13434350 AACCTTT
1 AACCCTA
13434357 AA-CC-A
1 AACCCTA
*
13434362 AGCCCTA
1 AACCCTA
13434369 AACCCTA
1 AACCCTA
*
13434376 AAACC--
1 AACCCTA
13434381 AACCCTA
1 AACCCTA
13434388 AACCCTA
1 AACCCTA
13434395 A
1 A
13434396 CTCTAGATCT
Statistics
Matches: 167, Mismatches: 42, Indels: 36
0.68 0.17 0.15
Matches are distributed among these distances:
4 2 0.01
5 18 0.11
6 32 0.19
7 115 0.69
ACGTcount: A:0.44, C:0.35, G:0.02, T:0.19
Consensus pattern (7 bp):
AACCCTA
Found at i:13434345 original size:33 final size:33
Alignment explanation
Indices: 13434302--13434377 Score: 93
Period size: 33 Copynumber: 2.3 Consensus size: 33
13434292 TCCTAAACCA
* *
13434302 AAACCATAAAC-CTTAAACCTTAAATCACA-CCCT
1 AAACCCTAAACTC-TAAACCTTAAACCA-AGCCCT
*
13434335 AAACCCTAAACTCTAAACCTTTAACCAAGCCCT
1 AAACCCTAAACTCTAAACCTTAAACCAAGCCCT
13434368 AAACCCTAAA
1 AAACCCTAAA
13434378 ACCAACCCTA
Statistics
Matches: 38, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
32 1 0.03
33 36 0.95
34 1 0.03
ACGTcount: A:0.45, C:0.34, G:0.01, T:0.20
Consensus pattern (33 bp):
AAACCCTAAACTCTAAACCTTAAACCAAGCCCT
Found at i:13434371 original size:19 final size:18
Alignment explanation
Indices: 13434347--13434391 Score: 54
Period size: 19 Copynumber: 2.4 Consensus size: 18
13434337 ACCCTAAACT
**
13434347 CTAAACCTTTAACCAAGCC
1 CTAAACCTAAAACCAA-CC
13434366 CTAAACCCTAAAACCAACC
1 CTAAA-CCTAAAACCAACC
13434385 CTAAACC
1 CTAAACC
13434392 CTAACTCTAG
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
18 2 0.09
19 12 0.52
20 9 0.39
ACGTcount: A:0.42, C:0.40, G:0.02, T:0.16
Consensus pattern (18 bp):
CTAAACCTAAAACCAACC
Found at i:13434392 original size:19 final size:20
Alignment explanation
Indices: 13434357--13434395 Score: 71
Period size: 19 Copynumber: 2.0 Consensus size: 20
13434347 CTAAACCTTT
13434357 AACCAAGCCCTAAACCCTAA
1 AACCAAGCCCTAAACCCTAA
13434377 AACCAA-CCCTAAACCCTAA
1 AACCAAGCCCTAAACCCTAA
13434396 CTCTAGATCT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 13 0.68
20 6 0.32
ACGTcount: A:0.46, C:0.41, G:0.03, T:0.10
Consensus pattern (20 bp):
AACCAAGCCCTAAACCCTAA
Found at i:13434393 original size:26 final size:26
Alignment explanation
Indices: 13434269--13434395 Score: 84
Period size: 26 Copynumber: 4.8 Consensus size: 26
13434259 ACCCTAGCCT
* *
13434269 TAAACCTTAAACC-AAACCCTAAATCC
1 TAAACC-TAACCCTAAACCCTAAACCC
* * * *
13434295 TAAACCAAAACCATAAACCTTAAACCT
1 TAAACC-TAACCCTAAACCCTAAACCC
* *
13434322 TAAATC-ACACCCTAAACCCTAAACTC
1 TAAACCTA-ACCCTAAACCCTAAACCC
*
13434348 TAAACCTTTAA-CC-AAGCCCTAAACCC
1 TAAACC--TAACCCTAAACCCTAAACCC
13434374 TAAAACC-AACCCTAAACCCTAA
1 T-AAACCTAACCCTAAACCCTAA
13434396 CTCTAGATCT
Statistics
Matches: 77, Mismatches: 16, Indels: 16
0.71 0.15 0.15
Matches are distributed among these distances:
24 2 0.03
25 3 0.04
26 48 0.62
27 22 0.29
28 1 0.01
29 1 0.01
ACGTcount: A:0.46, C:0.35, G:0.01, T:0.18
Consensus pattern (26 bp):
TAAACCTAACCCTAAACCCTAAACCC
Found at i:13436099 original size:38 final size:38
Alignment explanation
Indices: 13436057--13436209 Score: 145
Period size: 38 Copynumber: 4.1 Consensus size: 38
13436047 ATCCATATCA
* *
13436057 TAATAAGATAGTGCATATATTCCATTTCATGCACATCT
1 TAATAAGATAGTACATATATTCCATCTCATGCACATCT
* * * * *
13436095 TAATAAAATAATACATACATTCCAT-TCCATACATATCT
1 TAATAAGATAGTACATATATTCCATCT-CATGCACATCT
* *
13436133 TAAT-AGATAGTAC-TATAGTT-TATCTCATGCATATCT
1 TAATAAGATAGTACATATA-TTCCATCTCATGCACATCT
* * *
13436169 TAA-GAGATAGTACATGTAGTCCATCTCATGCACATCT
1 TAATAAGATAGTACATATATTCCATCTCATGCACATCT
13436206 TAAT
1 TAAT
13436210 GGAGTGACAA
Statistics
Matches: 93, Mismatches: 15, Indels: 14
0.76 0.12 0.11
Matches are distributed among these distances:
36 28 0.30
37 31 0.33
38 34 0.37
ACGTcount: A:0.37, C:0.18, G:0.09, T:0.36
Consensus pattern (38 bp):
TAATAAGATAGTACATATATTCCATCTCATGCACATCT
Found at i:13436206 original size:37 final size:37
Alignment explanation
Indices: 13436061--13436208 Score: 129
Period size: 37 Copynumber: 4.0 Consensus size: 37
13436051 ATATCATAAT
* * *
13436061 AAGATAGTGCATATATTCCATTTCATGCACATCTTAA
1 AAGATAGTACATATAGTCCATCTCATGCACATCTTAA
* * * * * *
13436098 TAAAATAATACATACATTCCAT-TCCATACATATCTTAA
1 -AAGATAGTACATATAGTCCATCT-CATGCACATCTTAA
* ** *
13436136 TAGATAGTAC-TATAGTTTATCTCATGCATATCTTAA
1 AAGATAGTACATATAGTCCATCTCATGCACATCTTAA
* *
13436172 GAGATAGTACATGTAGTCCATCTCATGCACATCTTAA
1 AAGATAGTACATATAGTCCATCTCATGCACATCTTAA
13436209 TGGAGTGACA
Statistics
Matches: 88, Mismatches: 19, Indels: 7
0.77 0.17 0.06
Matches are distributed among these distances:
36 28 0.32
37 31 0.35
38 29 0.33
ACGTcount: A:0.36, C:0.19, G:0.09, T:0.35
Consensus pattern (37 bp):
AAGATAGTACATATAGTCCATCTCATGCACATCTTAA
Found at i:13438557 original size:9 final size:9
Alignment explanation
Indices: 13438543--13438607 Score: 76
Period size: 9 Copynumber: 7.0 Consensus size: 9
13438533 AAAGCATTAT
13438543 GAAAAAAAG
1 GAAAAAAAG
*
13438552 GAAAAAGAG
1 GAAAAAAAG
*
13438561 AAAAAAAAG
1 GAAAAAAAG
*
13438570 AAAAAAAAG
1 GAAAAAAAG
*
13438579 AAAAAAAAG
1 GAAAAAAAG
13438588 AGAAAGAAAAG
1 -GAAA-AAAAG
13438599 GAAAAAAAG
1 GAAAAAAAG
13438608 TTTTCTTTTA
Statistics
Matches: 50, Mismatches: 4, Indels: 4
0.86 0.07 0.07
Matches are distributed among these distances:
9 38 0.76
10 7 0.14
11 5 0.10
ACGTcount: A:0.80, C:0.00, G:0.20, T:0.00
Consensus pattern (9 bp):
GAAAAAAAG
Found at i:13438591 original size:20 final size:21
Alignment explanation
Indices: 13438553--13438606 Score: 71
Period size: 19 Copynumber: 2.7 Consensus size: 21
13438543 GAAAAAAAGG
13438553 AAAAAGAG-AAAAAAA-AGAA
1 AAAAAGAGAAAAAAAAGAGAA
13438572 AAAAA-AGAAAAAAAAGAGAA
1 AAAAAGAGAAAAAAAAGAGAA
13438592 AGAAAAG-GAAAAAAA
1 A-AAAAGAGAAAAAAA
13438607 GTTTTCTTTT
Statistics
Matches: 31, Mismatches: 0, Indels: 6
0.84 0.00 0.16
Matches are distributed among these distances:
18 2 0.06
19 12 0.39
20 5 0.16
21 12 0.39
ACGTcount: A:0.83, C:0.00, G:0.17, T:0.00
Consensus pattern (21 bp):
AAAAAGAGAAAAAAAAGAGAA
Found at i:13439801 original size:11 final size:11
Alignment explanation
Indices: 13439787--13439880 Score: 50
Period size: 12 Copynumber: 8.1 Consensus size: 11
13439777 ATAAGGAAAC
*
13439787 AAGAAAAAGCA
1 AAGAAAAAGAA
*
13439798 AAGAAAATGAA
1 AAGAAAAAGAA
13439809 AAGAATAAAGAA
1 AAGAA-AAAGAA
*
13439821 AA-TAAAA-AA
1 AAGAAAAAGAA
* *
13439830 AGGAAAAA-AG
1 AAGAAAAAGAA
13439840 AAGACCAAAAGAA
1 AAGA--AAAAGAA
13439853 AGGAGAGAAAAGGAA
1 A--AGA-AAAA-GAA
13439868 AAGAAAAATGAA
1 AAGAAAAA-GAA
13439880 A
1 A
13439881 TGAATGATTA
Statistics
Matches: 64, Mismatches: 11, Indels: 15
0.71 0.12 0.17
Matches are distributed among these distances:
9 3 0.05
10 11 0.17
11 15 0.23
12 19 0.30
13 5 0.08
14 4 0.06
15 7 0.11
ACGTcount: A:0.72, C:0.03, G:0.20, T:0.04
Consensus pattern (11 bp):
AAGAAAAAGAA
Found at i:13441651 original size:71 final size:70
Alignment explanation
Indices: 13441568--13441936 Score: 364
Period size: 71 Copynumber: 5.2 Consensus size: 70
13441558 CTACTTGTTA
*
13441568 GTGAATCTTTAACCCTTTTTGTGATTTTTTGAAAATTTTAAATCTTTGACTTTTGTGAATCTTTG
1 GTGAATCTTTAACCCTTTTTGTGAATTTTT-AAAATTTTAAATCTTTGACTTTTGTGAATCTTTG
13441633 GAATTT
65 GAATTT
* * **
13441639 GTGAATATTTAACCCATTTTACGAATTTTTAAAAATTTTAAATCTTTGACTTTTGTGAATCTTTG
1 GTGAATCTTTAACCCTTTTTGTGAATTTTT-AAAATTTTAAATCTTTGACTTTTGTGAATCTTTG
13441704 GAATTT
65 GAATTT
** * ** *
13441710 GTGAATCTTTAACCCCTTTTTGCAAACCTTGGAAAATTTTAAATCTTTGACTCTTGTGAATCTTT
1 GTGAATCTTTAA-CCCTTTTTGTGAA-TTTTTAAAATTTTAAATCTTTGACTTTTGTGAATCTTT
**
13441775 AAAATTT
64 GGAATTT
* * ** ** * * ***
13441782 ATGAATCTTTAACGCC-TCTTGTGAAACTTTAAAATTCACAAATCTTTAACTCTAACGAATCTTT
1 GTGAATCTTTAAC-CCTTTTTGTGAATTTTTAAAATT-TTAAATCTTTGACTTTTGTGAATCTTT
*
13441846 GAAATTT
64 GGAATTT
* * * * *
13441853 GTGAATCTTTAA-CCTTTCTTGTGAGTTTTTAAAATTTATAAATCCTTGACTTTTATGAATCCTA
1 GTGAATCTTTAACCCTTT-TTGTGAATTTTTAAAATTT-TAAATCTTTGACTTTTGTGAATCTTT
* *
13441917 AGAGTTT
64 GGAATTT
13441924 GTGAATCTTTAAC
1 GTGAATCTTTAAC
13441937 TCATTGCAAA
Statistics
Matches: 242, Mismatches: 48, Indels: 15
0.79 0.16 0.05
Matches are distributed among these distances:
69 2 0.01
70 8 0.03
71 170 0.70
72 60 0.25
73 2 0.01
ACGTcount: A:0.30, C:0.14, G:0.12, T:0.45
Consensus pattern (70 bp):
GTGAATCTTTAACCCTTTTTGTGAATTTTTAAAATTTTAAATCTTTGACTTTTGTGAATCTTTGG
AATTT
Found at i:13441803 original size:37 final size:36
Alignment explanation
Indices: 13441571--13441896 Score: 145
Period size: 34 Copynumber: 9.1 Consensus size: 36
13441561 CTTGTTAGTG
* * *
13441571 AATCTTTAACCCTTTTTGTGATTTTTTGAAAATTT-TA
1 AATCTTTAACCC-TCTTGTGAATCTTT-AAAATTTATA
* * ** * *
13441608 AATCTTTGA--CTTTTGTGAATCTTTGGAATTTGTG
1 AATCTTTAACCCTCTTGTGAATCTTTAAAATTTATA
* * ** *
13441642 AATATTTAACCCATTTTACGAATTTTTAAAAATTT-TA
1 AATCTTTAACCC-TCTTGTGAATCTTT-AAAATTTATA
* * ** * *
13441679 AATCTTTGA--CTTTTGTGAATCTTTGGAATTTGTG
1 AATCTTTAACCCTCTTGTGAATCTTTAAAATTTATA
* * *
13441713 AATCTTTAACCC-CTTTTTGCAAACCTTGGAAAATTT-TA
1 AATCTTTAACCCTC-TTGTG--AATCTT-TAAAATTTATA
* *
13441751 AATCTTTGA--CTCTTGTGAATCTTTAAAATTTATG
1 AATCTTTAACCCTCTTGTGAATCTTTAAAATTTATA
* * *
13441785 AATCTTTAACGCCTCTTGTGAAACTTTAAAATTCACA
1 AATCTTTAAC-CCTCTTGTGAATCTTTAAAATTTATA
*** * * *
13441822 AATCTTTAA--CTCTAACGAATCTTTGAAATTTGTG
1 AATCTTTAACCCTCTTGTGAATCTTTAAAATTTATA
* * *
13441856 AATCTTTAACCTTTCTTGTGAGTTTTTAAAATTTATA
1 AATCTTTAACC-CTCTTGTGAATCTTTAAAATTTATA
13441893 AATC
1 AATC
13441897 CTTGACTTTT
Statistics
Matches: 211, Mismatches: 58, Indels: 40
0.68 0.19 0.13
Matches are distributed among these distances:
33 17 0.08
34 79 0.37
35 2 0.01
36 11 0.05
37 78 0.37
38 19 0.09
39 5 0.02
ACGTcount: A:0.30, C:0.13, G:0.11, T:0.46
Consensus pattern (36 bp):
AATCTTTAACCCTCTTGTGAATCTTTAAAATTTATA
Found at i:13441825 original size:143 final size:143
Alignment explanation
Indices: 13441598--13441866 Score: 344
Period size: 143 Copynumber: 1.9 Consensus size: 143
13441588 GTGATTTTTT
* ** * *
13441598 GAAAATTTTAAATCTTTGACTTTTGTGAATCTTTGGAATTTGTGAATATTTAACCCATTTTACGA
1 GAAAATTTTAAATCTTTGACTCTTGTGAATCTTTAAAATTTATGAATATTTAACCCATCTTACGA
** ** * * *** *
13441663 ATTTTTAAAAATTTTAAATCTTTGACTTTTGTGAATCTTTGGAATTTGTGAATCTTTAACCCCTT
66 AACTTTAAAAATTACAAATCTTTAACTCTAACGAATCTTTGAAATTTGTGAATCTTTAACCCCTT
13441728 TTTGCAAACCTTG
131 TTTGCAAACCTTG
* **
13441741 GAAAATTTTAAATCTTTGACTCTTGTGAATCTTTAAAATTTATGAATCTTTAACGCC-TCTTGTG
1 GAAAATTTTAAATCTTTGACTCTTGTGAATCTTTAAAATTTATGAATATTTAAC-CCATCTTACG
13441805 AAACTTT-AAAATTCACAAATCTTTAACTCTAACGAATCTTTGAAATTTGTGAATCTTTAACC
65 AAACTTTAAAAATT-ACAAATCTTTAACTCTAACGAATCTTTGAAATTTGTGAATCTTTAACC
13441867 TTTCTTGTGA
Statistics
Matches: 106, Mismatches: 18, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
142 6 0.06
143 98 0.92
144 2 0.02
ACGTcount: A:0.31, C:0.14, G:0.11, T:0.43
Consensus pattern (143 bp):
GAAAATTTTAAATCTTTGACTCTTGTGAATCTTTAAAATTTATGAATATTTAACCCATCTTACGA
AACTTTAAAAATTACAAATCTTTAACTCTAACGAATCTTTGAAATTTGTGAATCTTTAACCCCTT
TTTGCAAACCTTG
Found at i:13442285 original size:83 final size:83
Alignment explanation
Indices: 13442185--13442899 Score: 416
Period size: 83 Copynumber: 8.7 Consensus size: 83
13442175 GTTAGAGACC
* * *
13442185 TTCAACTATGAATCATTTACTCTATTGTCAACCTAGAGTCCTCTAACTATGAATTGTTTACTCTA
1 TTCAACTATGAATCATTTACTCTATTGTGAACCTAGAATCCTCTAACTATGAATCGTTTACTCTA
*
13442250 GTTATGAACCTAAAGTCT
66 GTTATGAATCTAAAGTCT
* * * * * * * *
13442268 TTCAATTATGAATCATTTACTCTGTTGTGAACCCAAAATCCTTTAACTGTGAGTCATTTACTCTA
1 TTCAACTATGAATCATTTACTCTATTGTGAACCTAGAATCCTCTAACTATGAATCGTTTACTCTA
* *
13442333 -TTGTGCATCTAAAGTC-
66 GTTATGAATCTAAAGTCT
* * * * * * * * * * *
13442349 CTCTAACTGTGAATCGTTTACTTTAAGTGTGAATCTAGAGTCTTTTAACTATGAATCATTTTCTC
1 TTC-AACTATGAATCATTTACTCT-ATTGTGAACCTAGAATCCTCTAACTATGAATCGTTTACTC
* *
13442414 T-GTTATGAATCCAGAGTCT
64 TAGTTATGAATCTAAAGTCT
** * * * * * *
13442433 CCCAATTGTGAATCATTTACTCTAATGT-AAACTAGAATCCTCTAACTATGAATTGTTTACT-TT
1 TTCAACTATGAATCATTTACTCTATTGTGAACCTAGAATCCTCTAACTATGAATCGTTTACTCTA
* *
13442496 GCTATGAATCTAGAGTCCT
66 GTTATGAATCTAAAGT-CT
** * * * * * **
13442515 TT-AACCGTGAATCATTTACTTTAGGTGTGAATCC-AGAATCTTCAAATTATGAATATTTTACT-
1 TTCAACTATGAATCATTTACTCTA-TTGTGAA-CCTAGAATCCTCTAACTATGAATCGTTTACTC
* * *
13442577 TTGTTATGAATCTAGAGTCC
64 TAGTTATGAATCTAAAGTCT
* * * * * *
13442597 TTCAACTATGAATTATTTACTCTATTGTTATCCCAAAATCCTCTAACTATGAATCGTTTATTCTA
1 TTCAACTATGAATCATTTACTCTATTGTGAACCTAGAATCCTCTAACTATGAATCGTTTACTCTA
* * *
13442662 -TTGTGAATTTAGAA-TCC
66 GTTATGAATCTA-AAGTCT
* * * * * * * * * *
13442679 TTCAATTATGAATCATTTACTGTAGTTATGAATCTAGAGTCTTCCAATTATGAATCATTTTCTCT
1 TTCAACTATGAATCATTTACTCTA-TTGTGAACCTAGAATCCTCTAACTATGAATCGTTTACTCT
* *
13442744 -GTTGTAAATCTAAAGTCT
65 AGTTATGAATCTAAAGTCT
* * * * * ** *
13442762 TCCAACT-TAGAATCGTTTACTCTAGTTGTGAATCCT-GAGTCTTCCAACTATGTTTTGTTTACT
1 TTCAACTAT-GAATCATTTACTCTA-TTGTGAA-CCTAGAATCCTCTAACTATGAATCGTTTACT
* *
13442825 CTA-TTTTGAAT-TCAGAGTCT
63 CTAGTTATGAATCT-AAAGTCT
* * * * * * * * * *
13442845 TCCAACTAGGAGTCGTTTTCTCTAATGTGAATCTAGAGTTCTCCAACTATGAATC
1 TTCAACTATGAATCATTTACTCTATTGTGAACCTAGAATCCTCTAACTATGAATC
13442900 ATTTTCACTT
Statistics
Matches: 487, Mismatches: 123, Indels: 45
0.74 0.19 0.07
Matches are distributed among these distances:
80 1 0.00
81 64 0.13
82 124 0.25
83 293 0.60
84 5 0.01
ACGTcount: A:0.29, C:0.18, G:0.13, T:0.40
Consensus pattern (83 bp):
TTCAACTATGAATCATTTACTCTATTGTGAACCTAGAATCCTCTAACTATGAATCGTTTACTCTA
GTTATGAATCTAAAGTCT
Found at i:13442391 original size:124 final size:122
Alignment explanation
Indices: 13442183--13442534 Score: 388
Period size: 124 Copynumber: 2.9 Consensus size: 122
13442173 AAGTTAGAGA
* * *
13442183 CCTTCAACTATGAATCATTTACTCTATTGTCAACCTAGAGTCCTCTAACTATGAATTGTTTACTC
1 CCTTCAACTGTGAATCATTTACTCTATTGTCAA-CTAAAGTCCTCTAACTATGAATTGTTTACTT
* * * * *
13442248 TAGTTATGAACCTAAAGTCTTTCAATTATGAATCATTTACTCTGTTGTGAACCCAAAAT
65 TAGCTATGAATCTAGAGTCTTT-AACTATGAATCATTTACTCTGTTATGAACCCAAAAT
* * * * *
13442307 CCTTTAACTGTGAGTCATTTACTCTATTGTGCATCTAAAGTCCTCTAACTGTGAATCGTTTACTT
1 CCTTCAACTGTGAATCATTTACTCTATTGT-CAACTAAAGTCCTCTAACTATGAATTGTTTACTT
* * * * *
13442372 TAAG-TGTGAATCTAGAGTCTTTTAACTATGAATCATTTTCTCTGTTATGAATCCAGAGT
65 T-AGCTATGAATCTAGAGTC-TTTAACTATGAATCATTTACTCTGTTATGAACCCAAAAT
* * * *
13442431 -CTCCCAATTGTGAATCATTTACTCTAATGTAAACTAGAA-TCCTCTAACTATGAATTGTTTACT
1 CCT-TCAACTGTGAATCATTTACTCTATTGTCAACTA-AAGTCCTCTAACTATGAATTGTTTACT
**
13442494 TT-GCTATGAATCTAGAGTCCTTTAACCGTGAATCATTTACT
64 TTAGCTATGAATCTAGAGT-CTTTAACTATGAATCATTTACT
13442535 TTAGGTGTGA
Statistics
Matches: 191, Mismatches: 30, Indels: 16
0.81 0.13 0.07
Matches are distributed among these distances:
121 1 0.01
122 31 0.16
123 31 0.16
124 121 0.63
125 7 0.04
ACGTcount: A:0.29, C:0.20, G:0.12, T:0.39
Consensus pattern (122 bp):
CCTTCAACTGTGAATCATTTACTCTATTGTCAACTAAAGTCCTCTAACTATGAATTGTTTACTTT
AGCTATGAATCTAGAGTCTTTAACTATGAATCATTTACTCTGTTATGAACCCAAAAT
Found at i:13442545 original size:164 final size:165
Alignment explanation
Indices: 13442177--13442785 Score: 494
Period size: 165 Copynumber: 3.7 Consensus size: 165
13442167 GTTGTGAAGT
* * * * * * * * * * **
13442177 TAGAGACCTTCAACTATGAATCATTTACTCTA-TTGTCAACCTAGAGTCCTCTAACTATGAATTG
1 TAGAGTCCTTTAACTGTGAATCATTTACTTTAGGTGTGAATCTAGAGTCTTCAAATTATGAATCA
* * * * * ** * *
13442241 TTTACTCTAGTTATGAA-CCTAAAGTCTTTCAATTATGAATCATTTACTCTGTTGTGAACCCAAA
66 TTTTCTCT-GTTATGAATCC-AGAGTCCTCCAACTATGAATCATTTACTCTAATGTTAAACCAAA
* * * * * * * *
13442305 ATCCTTTAACTGTGAGTCATTTACTCTATTGTGCATC
129 ATCCTCTAACTATGAATCGTTTATTCTACTATGAATC
* * * * ** *
13442342 TAAAGTCCTCTAACTGTGAATCGTTTACTTTAAGTGTGAATCTAGAGTCTTTTAACTATGAATCA
1 TAGAGTCCTTTAACTGTGAATCATTTACTTTAGGTGTGAATCTAGAGTCTTCAAATTATGAATCA
* * * *
13442407 TTTTCTCTGTTATGAATCCAGAGT-CTCCCAATTGTGAATCATTTACTCTAATG-TAAACTAGAA
66 TTTTCTCTGTTATGAATCCAGAGTCCT-CCAACTATGAATCATTTACTCTAATGTTAAACCAAAA
* *
13442470 TCCTCTAACTATGAATTGTTTACTT-TGCTATGAATC
130 TCCTCTAACTATGAATCGTTTA-TTCTACTATGAATC
* * *
13442506 TAGAGTCCTTTAACCGTGAATCATTTACTTTAGGTGTGAATCCAGAATCTTCAAATTATGAAT-A
1 TAGAGTCCTTTAACTGTGAATCATTTACTTTAGGTGTGAATCTAGAGTCTTCAAATTATGAATCA
* * * * * **
13442570 TTTTACTTTGTTATGAATCTAGAGTCCTTCAACTATGAATTATTTACTCTATTGTTATCCCAAAA
66 TTTT-CTCTGTTATGAATCCAGAGTCCTCCAACTATGAATCATTTACTCTAATGTTAAACCAAAA
* * *
13442635 TCCTCTAACTATGAATCGTTTATTCTATTGTGAATT
130 TCCTCTAACTATGAATCGTTTATTCTACTATGAATC
* * * * * * * *
13442671 TAGAATCCTTCAATTATGAATCATTTACTGTAGTTATGAATCTAGAGTCTTCCAATTATGAATCA
1 TAGAGTCCTTTAACTGTGAATCATTTACTTTAGGTGTGAATCTAGAGTCTTCAAATTATGAATCA
* * * * * *
13442736 TTTTCTCTGTTGTAAATCTAAAGTCTTCCAACT-TAGAATCGTTTACTCTA
66 TTTTCTCTGTTATGAATCCAGAGTCCTCCAACTAT-GAATCATTTACTCTA
13442786 GTTGTGAATC
Statistics
Matches: 354, Mismatches: 80, Indels: 20
0.78 0.18 0.04
Matches are distributed among these distances:
163 5 0.01
164 126 0.36
165 184 0.52
166 39 0.11
ACGTcount: A:0.30, C:0.18, G:0.12, T:0.40
Consensus pattern (165 bp):
TAGAGTCCTTTAACTGTGAATCATTTACTTTAGGTGTGAATCTAGAGTCTTCAAATTATGAATCA
TTTTCTCTGTTATGAATCCAGAGTCCTCCAACTATGAATCATTTACTCTAATGTTAAACCAAAAT
CCTCTAACTATGAATCGTTTATTCTACTATGAATC
Found at i:13442775 original size:124 final size:124
Alignment explanation
Indices: 13442522--13442805 Score: 310
Period size: 124 Copynumber: 2.3 Consensus size: 124
13442512 CCTTTAACCG
* * * *
13442522 TGAATCATTTACTTTAGGTGTGAATCCAGAATCTTCAAATTATGAATATTTTACTTTGTTATGAA
1 TGAATCGTTTACTCTAGTTGTGAATCCAGAATCTTCAAATTATGAATATTTTACTTAGTTATGAA
* * *
13442587 TCTAGAGTCCTTCAACTATGAATTATTTACTCTATTGTTATCCCAAAATCCTCTAACTA
66 TCTAGAGTCCTTCAACTATGAATCATTTACTCTATTGTAATCCCAAAATCCTCCAACTA
* **
13442646 TGAATCGTTTATTCTA-TTGTGAATTTAGAATCCTTC-AATTATGAATCA-TTTACTGTAGTTAT
1 TGAATCGTTTACTCTAGTTGTGAATCCAGAAT-CTTCAAATTATGAAT-ATTTTACT-TAGTTAT
* * * * * *
13442708 GAATCTAGAGT-CTTCCAATTATGAATCATTTTCTCTGTTGTAAAT-CTAAAGTCTTCCAACT-
63 GAATCTAGAGTCCTT-CAACTATGAATCATTTACTCTATTGT-AATCCCAAAATCCTCCAACTA
* *
13442769 TAGAATCGTTTACTCTAGTTGTGAATCCTGAGTCTTC
1 T-GAATCGTTTACTCTAGTTGTGAATCCAGAATCTTC
13442806 CAACTATGTT
Statistics
Matches: 132, Mismatches: 21, Indels: 14
0.79 0.13 0.08
Matches are distributed among these distances:
123 32 0.24
124 87 0.66
125 13 0.10
ACGTcount: A:0.29, C:0.17, G:0.12, T:0.42
Consensus pattern (124 bp):
TGAATCGTTTACTCTAGTTGTGAATCCAGAATCTTCAAATTATGAATATTTTACTTAGTTATGAA
TCTAGAGTCCTTCAACTATGAATCATTTACTCTATTGTAATCCCAAAATCCTCCAACTA
Found at i:13442905 original size:41 final size:41
Alignment explanation
Indices: 13442187--13442903 Score: 310
Period size: 41 Copynumber: 17.4 Consensus size: 41
13442177 TAGAGACCTT
* * *
13442187 CAACTATGAATCATTTACTCTATTGTCAACCTAGAGTCCTC
1 CAACTATGAATCATTTACTCTATTGTGAATCTAGAGTTCTC
* ** * * * *
13442228 TAACTATGAATTGTTTACTCTAGTTATGAACCTAAAG-TCTTT
1 CAACTATGAATCATTTACTCTA-TTGTGAATCTAGAGTTC-TC
* * * * * * * *
13442270 CAATTATGAATCATTTACTCTGTTGTGAACCCAAAATCCTT
1 CAACTATGAATCATTTACTCTATTGTGAATCTAGAGTTCTC
* * * * * *
13442311 TAACTGTGAGTCATTTACTCTATTGTGCATCTAAAGTCCTC
1 CAACTATGAATCATTTACTCTATTGTGAATCTAGAGTTCTC
* * * * * *
13442352 TAACTGTGAATCGTTTACTTTAAGTGTGAATCTAGAG-TCTTT
1 CAACTATGAATCATTTACTCT-ATTGTGAATCTAGAGTTC-TC
* * * * *
13442394 TAACTATGAATCATTTTCTCTGTTATGAATCCAGAG-TCTCC
1 CAACTATGAATCATTTACTCTATTGTGAATCTAGAGTTCT-C
* * * * * *
13442435 CAATTGTGAATCATTTACTCTAATGT-AAACTAGAATCCTC
1 CAACTATGAATCATTTACTCTATTGTGAATCTAGAGTTCTC
* ** * ** * * *
13442475 TAACTATGAATTGTTTACTTTGCTATGAATCTAGAGTCCTT
1 CAACTATGAATCATTTACTCTATTGTGAATCTAGAGTTCTC
* ** * * * *
13442516 TAACCGTGAATCATTTACTTTAGGTGTGAATCCAGA-ATCTTC
1 CAACTATGAATCATTTACTCTA-TTGTGAATCTAGAGTTC-TC
* * * * * * *
13442558 AAATTATGAAT-ATTTTACTTTGTTATGAATCTAGAGTCCTT
1 CAACTATGAATCA-TTTACTCTATTGTGAATCTAGAGTTCTC
* * * * * *
13442599 CAACTATGAATTATTTACTCTATTGT-TATCCCAAAATCCTC
1 CAACTATGAATCATTTACTCTATTGTGAAT-CTAGAGTTCTC
* * * * * * *
13442640 TAACTATGAATCGTTTATTCTATTGTGAATTTAGAATCCTT
1 CAACTATGAATCATTTACTCTATTGTGAATCTAGAGTTCTC
* * *
13442681 CAATTATGAATCATTTACTGTAGTTATGAATCTAGAG-TCTTC
1 CAACTATGAATCATTTACTCTA-TTGTGAATCTAGAGTTC-TC
* * * * *
13442723 CAATTATGAATCATTTTCTCTGTTGTAAATCTAAAG-TCTTC
1 CAACTATGAATCATTTACTCTATTGTGAATCTAGAGTTC-TC
*
13442764 CAACT-TAGAATCGTTTACTCTAGTTGTGAATCCT-GAG-TCTTC
1 CAACTAT-GAATCATTTACTCTA-TTGTGAAT-CTAGAGTTC-TC
** ** *
13442806 CAACTATGTTTTGTTTACTCTATTTTGAAT-TCAGAG-TCTTC
1 CAACTATGAATCATTTACTCTATTGTGAATCT-AGAGTTC-TC
* * * * *
13442847 CAACTAGGAGTCGTTTTCTCTAATGTGAATCTAGAGTTCTC
1 CAACTATGAATCATTTACTCTATTGTGAATCTAGAGTTCTC
13442888 CAACTATGAATCATTT
1 CAACTATGAATCATTT
13442904 TCACTTAATG
Statistics
Matches: 507, Mismatches: 144, Indels: 50
0.72 0.21 0.07
Matches are distributed among these distances:
39 1 0.00
40 28 0.06
41 320 0.63
42 155 0.31
43 3 0.01
ACGTcount: A:0.29, C:0.18, G:0.13, T:0.40
Consensus pattern (41 bp):
CAACTATGAATCATTTACTCTATTGTGAATCTAGAGTTCTC
Found at i:13443003 original size:21 final size:20
Alignment explanation
Indices: 13442975--13443013 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
13442965 TTTAAAAACC
*
13442975 AAAAACAAAAAATAAAAATA
1 AAAAACAAAAAACAAAAATA
13442995 AAAAGACAAAAAACAAAAA
1 AAAA-ACAAAAAACAAAAA
13443014 ACCTAAAACA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 4 0.24
21 13 0.76
ACGTcount: A:0.85, C:0.08, G:0.03, T:0.05
Consensus pattern (20 bp):
AAAAACAAAAAACAAAAATA
Found at i:13443044 original size:12 final size:12
Alignment explanation
Indices: 13442975--13443045 Score: 52
Period size: 14 Copynumber: 5.4 Consensus size: 12
13442965 TTTAAAAACC
13442975 AAAAACAAAAAA
1 AAAAACAAAAAA
*
13442987 TAAAAATAAAAAGACA
1 -AAAAA-CAAAA-A-A
13443003 AAAAACAAAAAA
1 AAAAACAAAAAA
*
13443015 CCTAAAACAAAAAA
1 --AAAAACAAAAAA
* *
13443029 AAAAACCAAAAC
1 AAAAACAAAAAA
13443041 AAAAA
1 AAAAA
13443046 TGAAAACAAC
Statistics
Matches: 47, Mismatches: 6, Indels: 11
0.73 0.09 0.17
Matches are distributed among these distances:
12 15 0.32
13 6 0.13
14 19 0.40
15 6 0.13
16 1 0.02
ACGTcount: A:0.82, C:0.13, G:0.01, T:0.04
Consensus pattern (12 bp):
AAAAACAAAAAA
Found at i:13443052 original size:18 final size:19
Alignment explanation
Indices: 13442968--13443045 Score: 77
Period size: 20 Copynumber: 3.9 Consensus size: 19
13442958 ATCTTGTTTT
*
13442968 AAAAACCAAAAACAAAAAA
1 AAAAACCTAAAACAAAAAA
***
13442987 TAAAAATAAAAAGACAAAAAACA
1 -AAAAACCTAAA-AC-AAAAA-A
13443010 AAAAACCTAAAACAAAAAA
1 AAAAACCTAAAACAAAAAA
13443029 AAAAACC-AAAACAAAAA
1 AAAAACCTAAAACAAAAA
13443046 TGAAAACAAC
Statistics
Matches: 50, Mismatches: 5, Indels: 8
0.79 0.08 0.13
Matches are distributed among these distances:
18 10 0.20
19 8 0.16
20 14 0.28
21 4 0.08
22 13 0.26
23 1 0.02
ACGTcount: A:0.81, C:0.14, G:0.01, T:0.04
Consensus pattern (19 bp):
AAAAACCTAAAACAAAAAA
Found at i:13444499 original size:22 final size:21
Alignment explanation
Indices: 13444469--13444526 Score: 62
Period size: 22 Copynumber: 2.7 Consensus size: 21
13444459 AGATATCATT
*
13444469 TTTTTCATTACATTTCATATCA
1 TTTTCCATTA-ATTTCATATCA
* *
13444491 TTTTCCATTAGTTTTCATATTA
1 TTTTCCATTA-ATTTCATATCA
*
13444513 TTTTCCTTTAATTT
1 TTTTCCATTAATTT
13444527 TTTCCTTTTT
Statistics
Matches: 30, Mismatches: 6, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
21 3 0.10
22 27 0.90
ACGTcount: A:0.22, C:0.16, G:0.02, T:0.60
Consensus pattern (21 bp):
TTTTCCATTAATTTCATATCA
Found at i:13444527 original size:22 final size:22
Alignment explanation
Indices: 13444481--13444527 Score: 67
Period size: 22 Copynumber: 2.1 Consensus size: 22
13444471 TTTCATTACA
*
13444481 TTTCATATCATTTTCCATTAGT
1 TTTCATATCATTTTCCATTAAT
* *
13444503 TTTCATATTATTTTCCTTTAAT
1 TTTCATATCATTTTCCATTAAT
13444525 TTT
1 TTT
13444528 TTCCTTTTTT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.21, C:0.15, G:0.02, T:0.62
Consensus pattern (22 bp):
TTTCATATCATTTTCCATTAAT
Found at i:13445431 original size:7 final size:7
Alignment explanation
Indices: 13445419--13445586 Score: 86
Period size: 7 Copynumber: 24.9 Consensus size: 7
13445409 AATTCCCAAA
13445419 CCTAAAC
1 CCTAAAC
13445426 CCTAAA-
1 CCTAAAC
*
13445432 CCTTAAC
1 CCTAAAC
13445439 CCATAAAC
1 CC-TAAAC
*
13445447 CCTAAAT
1 CCTAAAC
*
13445454 CCTAAAT
1 CCTAAAC
*
13445461 CATAAA-
1 CCTAAAC
*
13445467 CC-AAAT
1 CCTAAAC
13445473 CCTAAA-
1 CCTAAAC
*
13445479 CCAAAAC
1 CCTAAAC
*
13445486 CCTAAAT
1 CCTAAAC
13445493 CCTAAA-
1 CCTAAAC
13445499 --TGAAAC
1 CCT-AAAC
*
13445505 CCTAAAA
1 CCTAAAC
13445512 CCTAAAC
1 CCTAAAC
*
13445519 CTTAAAC
1 CCTAAAC
13445526 CC--AAC
1 CCTAAAC
*
13445531 CCTAAAT
1 CCTAAAC
*
13445538 CTTAAAAAC
1 CCT--AAAC
**
13445547 TTTAAAC
1 CCTAAAC
* *
13445554 CTTAAAT
1 CCTAAAC
13445561 CCTAAAC
1 CCTAAAC
13445568 CCTAAAC
1 CCTAAAC
*
13445575 TCT-AAC
1 CCTAAAC
13445581 CCTAAA
1 CCTAAA
13445587 TATAACCTTA
Statistics
Matches: 125, Mismatches: 22, Indels: 28
0.71 0.13 0.16
Matches are distributed among these distances:
4 1 0.01
5 11 0.09
6 18 0.14
7 83 0.66
8 7 0.06
9 5 0.04
ACGTcount: A:0.46, C:0.32, G:0.01, T:0.21
Consensus pattern (7 bp):
CCTAAAC
Found at i:13445506 original size:19 final size:19
Alignment explanation
Indices: 13445443--13445517 Score: 82
Period size: 19 Copynumber: 3.9 Consensus size: 19
13445433 CTTAACCCAT
13445443 AAACCCTAAATCCTAAATCA
1 AAACCCTAAATCCTAAAT-A
*
13445463 TAAA-CC-AAATCCTAAACCA
1 -AAACCCTAAATCCTAAA-TA
*
13445482 AAACCCTAAATCCTAAATG
1 AAACCCTAAATCCTAAATA
*
13445501 AAACCCTAAAACCTAAA
1 AAACCCTAAATCCTAAA
13445518 CCTTAAACCC
Statistics
Matches: 47, Mismatches: 4, Indels: 8
0.80 0.07 0.14
Matches are distributed among these distances:
18 3 0.06
19 29 0.62
20 12 0.26
21 3 0.06
ACGTcount: A:0.52, C:0.29, G:0.01, T:0.17
Consensus pattern (19 bp):
AAACCCTAAATCCTAAATA
Found at i:13445516 original size:39 final size:40
Alignment explanation
Indices: 13445422--13445527 Score: 128
Period size: 39 Copynumber: 2.7 Consensus size: 40
13445412 TCCCAAACCT
*
13445422 AAACCCT-AAACCTTAACCCATAAACCCTAAATCCTAAATC
1 AAACCCTAAAACC-TAAACCATAAACCCTAAATCCTAAATC
* * *
13445462 ATAAACC-AAATCCTAAACCA-AAACCCTAAATCCTAAATG
1 A-AACCCTAAAACCTAAACCATAAACCCTAAATCCTAAATC
*
13445501 AAACCCTAAAACCTAAACCTTAAACCC
1 AAACCCTAAAACCTAAACCATAAACCC
13445528 AACCCTAAAT
Statistics
Matches: 55, Mismatches: 7, Indels: 8
0.79 0.10 0.11
Matches are distributed among these distances:
38 4 0.07
39 30 0.55
40 13 0.24
41 8 0.15
ACGTcount: A:0.48, C:0.33, G:0.01, T:0.18
Consensus pattern (40 bp):
AAACCCTAAAACCTAAACCATAAACCCTAAATCCTAAATC
Found at i:13446585 original size:23 final size:24
Alignment explanation
Indices: 13446559--13446605 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
13446549 AAATTTATGT
13446559 ATTTAT-TTTAATAATTAATAAAA
1 ATTTATGTTTAATAATTAATAAAA
** *
13446582 ATTTATGTTTGCTTATTAATAAAA
1 ATTTATGTTTAATAATTAATAAAA
13446606 TGTCATCGTC
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
23 6 0.30
24 14 0.70
ACGTcount: A:0.45, C:0.02, G:0.04, T:0.49
Consensus pattern (24 bp):
ATTTATGTTTAATAATTAATAAAA
Found at i:13446601 original size:31 final size:30
Alignment explanation
Indices: 13446543--13446603 Score: 79
Period size: 31 Copynumber: 2.0 Consensus size: 30
13446533 CAAAATTTTT
*
13446543 TTAAAAAAATTTATGTATTTATTTTAATAA
1 TTAAAAAAATTTATGTATTGATTTTAATAA
*
13446573 TTAATAAAAATTTATGT-TTGCTTATTAATAA
1 TTAA-AAAAATTTATGTATTGATT-TTAATAA
13446604 AATGTCATCG
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
30 8 0.30
31 19 0.70
ACGTcount: A:0.44, C:0.02, G:0.05, T:0.49
Consensus pattern (30 bp):
TTAAAAAAATTTATGTATTGATTTTAATAA
Found at i:13447646 original size:21 final size:21
Alignment explanation
Indices: 13447616--13447658 Score: 77
Period size: 21 Copynumber: 2.0 Consensus size: 21
13447606 GATATAAAAA
13447616 GAGATGGAAACTTAACTTCTG
1 GAGATGGAAACTTAACTTCTG
*
13447637 GAGATTGAAACTTAACTTCTG
1 GAGATGGAAACTTAACTTCTG
13447658 G
1 G
13447659 TTTTTTAATT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.33, C:0.14, G:0.23, T:0.30
Consensus pattern (21 bp):
GAGATGGAAACTTAACTTCTG
Found at i:13449035 original size:50 final size:51
Alignment explanation
Indices: 13448971--13449171 Score: 239
Period size: 50 Copynumber: 3.9 Consensus size: 51
13448961 TTTTAATAAT
* *
13448971 AAAAGCTCCTCTAAGTAGAGGCTTAACAACTTTAAAAATCTCATCTTGAAA
1 AAAAGCTCCTCTAAGTAGAGGCTCAACAACTTTAAAAATCTCATCTTAAAA
* * *
13449022 AAAA-CTCCTCTAAGTAGAAGCTCAACAACTTTAAAAATTTTATCTTCAAAA
1 AAAAGCTCCTCTAAGTAGAGGCTCAACAACTTTAAAAATCTCATCTT-AAAA
* * * *
13449073 AAAAGCTCCTTTAGGTAGAGACTCAACTACTTTAAAGAAT-TCAT-TTAAAA
1 AAAAGCTCCTCTAAGTAGAGGCTCAACAACTTTAAA-AATCTCATCTTAAAA
*
13449123 AAAAGCTTCTCTAAGTAGAGGCAT-AACAACTTTAAAAATTCTTCATCTT
1 AAAAGCTCCTCTAAGTAGAGGC-TCAACAACTTTAAAAA-TC-TCATCTT
13449172 GTCTCAAAAC
Statistics
Matches: 126, Mismatches: 16, Indels: 14
0.81 0.10 0.09
Matches are distributed among these distances:
49 2 0.02
50 72 0.57
51 14 0.11
52 33 0.26
53 5 0.04
ACGTcount: A:0.42, C:0.18, G:0.10, T:0.30
Consensus pattern (51 bp):
AAAAGCTCCTCTAAGTAGAGGCTCAACAACTTTAAAAATCTCATCTTAAAA
Found at i:13449151 original size:102 final size:104
Alignment explanation
Indices: 13448971--13449171 Score: 268
Period size: 102 Copynumber: 2.0 Consensus size: 104
13448961 TTTTAATAAT
* * *
13448971 AAAAGCTCCTCTAAGTAGAGGCTTAACAACTTTAAAAATCTCATCTTGAAAAAAACTCCTCTAAG
1 AAAAGCTCCTCTAAGTAGAGACTCAACAACTTTAAAAATCTCATCTTAAAAAAAACTCCTCTAAG
13449036 TAGAAGCTCAACAACTTTAAAAATT-TT-ATCTTCAAAA
66 TAGAAGCTCAACAACTTTAAAAATTCTTCATCTTCAAAA
* * * *
13449073 AAAAGCTCCTTTAGGTAGAGACTCAACTACTTTAAAGAAT-TCAT-TTAAAAAAAAGCTTCTCTA
1 AAAAGCTCCTCTAAGTAGAGACTCAACAACTTTAAA-AATCTCATCTTAAAAAAAA-CTCCTCTA
*
13449136 AGTAGAGGCAT-AACAACTTTAAAAATTCTTCATCTT
64 AGTAGAAGC-TCAACAACTTTAAAAATTCTTCATCTT
13449172 GTCTCAAAAC
Statistics
Matches: 86, Mismatches: 8, Indels: 8
0.84 0.08 0.08
Matches are distributed among these distances:
101 9 0.10
102 66 0.77
103 6 0.07
104 5 0.06
ACGTcount: A:0.42, C:0.18, G:0.10, T:0.30
Consensus pattern (104 bp):
AAAAGCTCCTCTAAGTAGAGACTCAACAACTTTAAAAATCTCATCTTAAAAAAAACTCCTCTAAG
TAGAAGCTCAACAACTTTAAAAATTCTTCATCTTCAAAA
Found at i:13451814 original size:50 final size:50
Alignment explanation
Indices: 13451755--13451849 Score: 181
Period size: 50 Copynumber: 1.9 Consensus size: 50
13451745 AGAAACTCGA
13451755 CTATTACACTTTTCTTAATTATCTTTTAAATTACATAGATAATATTTCGG
1 CTATTACACTTTTCTTAATTATCTTTTAAATTACATAGATAATATTTCGG
*
13451805 CTATTACACTTTTCTTAATTATCTTTTAAGTTACATAGATAATAT
1 CTATTACACTTTTCTTAATTATCTTTTAAATTACATAGATAATAT
13451850 CATATTCTGA
Statistics
Matches: 44, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
50 44 1.00
ACGTcount: A:0.33, C:0.14, G:0.05, T:0.48
Consensus pattern (50 bp):
CTATTACACTTTTCTTAATTATCTTTTAAATTACATAGATAATATTTCGG
Found at i:13463325 original size:21 final size:20
Alignment explanation
Indices: 13463301--13463344 Score: 52
Period size: 21 Copynumber: 2.1 Consensus size: 20
13463291 TTTTTCTTAC
* *
13463301 ATTTTTAGTAATTTTTTAATT
1 ATTTATAGTAATTATTT-ATT
*
13463322 ATTTATATTAATTATTTATT
1 ATTTATAGTAATTATTTATT
13463342 ATT
1 ATT
13463345 AATTTCGTTC
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
20 6 0.30
21 14 0.70
ACGTcount: A:0.32, C:0.00, G:0.02, T:0.66
Consensus pattern (20 bp):
ATTTATAGTAATTATTTATT
Found at i:13463334 original size:13 final size:14
Alignment explanation
Indices: 13463316--13463348 Score: 59
Period size: 13 Copynumber: 2.4 Consensus size: 14
13463306 TAGTAATTTT
13463316 TTAATTATTTA-TA
1 TTAATTATTTATTA
13463329 TTAATTATTTATTA
1 TTAATTATTTATTA
13463343 TTAATT
1 TTAATT
13463349 TCGTTCATTC
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 11 0.58
14 8 0.42
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (14 bp):
TTAATTATTTATTA
Found at i:13464378 original size:3 final size:3
Alignment explanation
Indices: 13464372--13464409 Score: 67
Period size: 3 Copynumber: 12.3 Consensus size: 3
13464362 AAGAAAAATA
13464372 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AATT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA-T AAT A
13464410 CAAAATGGGT
Statistics
Matches: 34, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
3 31 0.91
4 3 0.09
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
AAT
Found at i:13465927 original size:14 final size:14
Alignment explanation
Indices: 13465906--13465939 Score: 52
Period size: 14 Copynumber: 2.4 Consensus size: 14
13465896 TCATGCTTCG
13465906 TTTTTTCTTT-TTT
1 TTTTTTCTTTATTT
13465919 TTTTGTTCTTTATTT
1 TTTT-TTCTTTATTT
13465934 TTTTTT
1 TTTTTT
13465940 TATGGATGAA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
13 4 0.21
14 8 0.42
15 7 0.37
ACGTcount: A:0.03, C:0.06, G:0.03, T:0.88
Consensus pattern (14 bp):
TTTTTTCTTTATTT
Found at i:13472015 original size:97 final size:97
Alignment explanation
Indices: 13471884--13472079 Score: 257
Period size: 97 Copynumber: 2.0 Consensus size: 97
13471874 ACAGGAATAC
* * * * *
13471884 AACAAAATATGGATAGACAGTTAGTAGAACTAAAACAGATATTAGCAAGTTTGACAAAAGAAAAA
1 AACAAAATATGAAGAGACAATTAGTAGAACTAAAACAAATATTAGCAAGTTTAACAAAAGAAAAA
* * * * *
13471949 GGGATTGTTGAAACATATAAGCCAAGGGAGGA
66 AGGATTATCGAAACACACAAGCCAAGGGAGGA
* * *
13471981 AACAGAATATGAAGAGACAATTAGTAGAATTAAAACAAATATTAGCGAGTTTAACAAAAGAAAAA
1 AACAAAATATGAAGAGACAATTAGTAGAACTAAAACAAATATTAGCAAGTTTAACAAAAGAAAAA
* *
13472046 AGGATTATCGAAACACACAGGGCAAGGGAGGA
66 AGGATTATCGAAACACACAAGCCAAGGGAGGA
13472078 AA
1 AA
13472080 TAGCTATTAA
Statistics
Matches: 84, Mismatches: 15, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
97 84 1.00
ACGTcount: A:0.51, C:0.10, G:0.22, T:0.18
Consensus pattern (97 bp):
AACAAAATATGAAGAGACAATTAGTAGAACTAAAACAAATATTAGCAAGTTTAACAAAAGAAAAA
AGGATTATCGAAACACACAAGCCAAGGGAGGA
Found at i:13474891 original size:12 final size:13
Alignment explanation
Indices: 13474872--13474904 Score: 57
Period size: 13 Copynumber: 2.5 Consensus size: 13
13474862 AAAAGCAAAG
13474872 AGAAAAAATAAAA
1 AGAAAAAATAAAA
*
13474885 AGGAAAAATAAAA
1 AGAAAAAATAAAA
13474898 AGAAAAA
1 AGAAAAA
13474905 TTAACAAAAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.82, C:0.00, G:0.12, T:0.06
Consensus pattern (13 bp):
AGAAAAAATAAAA
Found at i:13474915 original size:9 final size:8
Alignment explanation
Indices: 13474900--13474944 Score: 58
Period size: 9 Copynumber: 5.6 Consensus size: 8
13474890 AAATAAAAAG
13474900 AAAAATTA
1 AAAAATTA
13474908 ACAAAATTA
1 A-AAAATTA
13474917 ACAAAATT-
1 A-AAAATTA
13474925 AAAAATT-
1 AAAAATTA
13474932 AAAAATTA
1 AAAAATTA
13474940 AAAAA
1 AAAAA
13474945 GATTGAATGG
Statistics
Matches: 35, Mismatches: 0, Indels: 4
0.90 0.00 0.10
Matches are distributed among these distances:
7 13 0.37
8 7 0.20
9 15 0.43
ACGTcount: A:0.73, C:0.04, G:0.00, T:0.22
Consensus pattern (8 bp):
AAAAATTA
Found at i:13474935 original size:6 final size:7
Alignment explanation
Indices: 13474874--13474943 Score: 54
Period size: 7 Copynumber: 9.7 Consensus size: 7
13474864 AAGCAAAGAG
*
13474874 AAAAAAT
1 AAAAATT
**
13474881 AAAAAGG
1 AAAAATT
13474888 AAAAA-T
1 AAAAATT
*
13474894 AAAAA-G
1 AAAAATT
13474900 AAAAATT
1 AAAAATT
13474907 AACAAAATT
1 -A-AAAATT
13474916 AACAAAATT
1 -A-AAAATT
13474925 AAAAATT
1 AAAAATT
13474932 AAAAATT
1 AAAAATT
13474939 AAAAA
1 AAAAA
13474944 AGATTGAATG
Statistics
Matches: 55, Mismatches: 5, Indels: 6
0.83 0.08 0.09
Matches are distributed among these distances:
6 10 0.18
7 28 0.51
8 2 0.04
9 15 0.27
ACGTcount: A:0.76, C:0.03, G:0.04, T:0.17
Consensus pattern (7 bp):
AAAAATT
Found at i:13504352 original size:17 final size:17
Alignment explanation
Indices: 13504332--13504364 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
13504322 TTTTTTTAAA
13504332 AATAATAAT-AATAAAGT
1 AATAA-AATAAATAAAGT
13504349 AATAAAATAAATAAAG
1 AATAAAATAAATAAAG
13504365 ATAAAACAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 3 0.20
17 12 0.80
ACGTcount: A:0.70, C:0.00, G:0.06, T:0.24
Consensus pattern (17 bp):
AATAAAATAAATAAAGT
Found at i:13504397 original size:19 final size:17
Alignment explanation
Indices: 13504365--13504402 Score: 58
Period size: 19 Copynumber: 2.1 Consensus size: 17
13504355 ATAAATAAAG
13504365 ATAAAACAAAATAAAAT
1 ATAAAACAAAATAAAAT
13504382 ATAAATACACAAATAAAAT
1 ATAAA-ACA-AAATAAAAT
13504401 AT
1 AT
13504403 GCATACCTAT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 5 0.26
18 3 0.16
19 11 0.58
ACGTcount: A:0.71, C:0.08, G:0.00, T:0.21
Consensus pattern (17 bp):
ATAAAACAAAATAAAAT
Found at i:13516184 original size:21 final size:20
Alignment explanation
Indices: 13516127--13516185 Score: 55
Period size: 21 Copynumber: 2.8 Consensus size: 20
13516117 TGTGAAATAC
*
13516127 TTTTGTGAAATATGTTTATTG
1 TTTTGTGAAATAT-TTTATTA
* * *
13516148 TTGTGCTTAAACATTTTATTAA
1 TTTTG-TGAAATATTTTATT-A
13516170 TTTTGTGAAATATTTT
1 TTTTGTGAAATATTTT
13516186 GGATATTGTG
Statistics
Matches: 29, Mismatches: 7, Indels: 4
0.73 0.17 0.10
Matches are distributed among these distances:
21 19 0.66
22 10 0.34
ACGTcount: A:0.27, C:0.03, G:0.14, T:0.56
Consensus pattern (20 bp):
TTTTGTGAAATATTTTATTA
Found at i:13518019 original size:16 final size:16
Alignment explanation
Indices: 13518000--13518034 Score: 61
Period size: 16 Copynumber: 2.2 Consensus size: 16
13517990 TTTGATGACA
*
13518000 TATCTTTAACAATTGG
1 TATCCTTAACAATTGG
13518016 TATCCTTAACAATTGG
1 TATCCTTAACAATTGG
13518032 TAT
1 TAT
13518035 GAGCTTGTAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.31, C:0.14, G:0.11, T:0.43
Consensus pattern (16 bp):
TATCCTTAACAATTGG
Found at i:13518677 original size:37 final size:38
Alignment explanation
Indices: 13518636--13518707 Score: 128
Period size: 37 Copynumber: 1.9 Consensus size: 38
13518626 TTTATGTTAG
*
13518636 ATTAGGATGCATAAATTGAGG-GGAGTTTTGCCATTGA
1 ATTAGGATGCACAAATTGAGGAGGAGTTTTGCCATTGA
13518673 ATTAGGATGCACAAATTGAGGAGGAGTTTTGCCAT
1 ATTAGGATGCACAAATTGAGGAGGAGTTTTGCCAT
13518708 GCATTGTTTT
Statistics
Matches: 33, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
37 20 0.61
38 13 0.39
ACGTcount: A:0.31, C:0.10, G:0.29, T:0.31
Consensus pattern (38 bp):
ATTAGGATGCACAAATTGAGGAGGAGTTTTGCCATTGA
Found at i:13522698 original size:185 final size:186
Alignment explanation
Indices: 13522489--13522842 Score: 536
Period size: 186 Copynumber: 1.9 Consensus size: 186
13522479 TCTACTAAAA
13522489 ACGCCTTCAATAATTTTCTTTTAAAAATTGTTTGGAATTATTAAAGGCATCTTCT-ATAAAAAAA
1 ACGCCTTCAATAATTTTCTTTTAAAAATTGTTTGGAA-TATTAAAGGCATCTTCTAATAAAAAAA
* * *
13522553 TGCCTTTAATATTTCACTACT-AAATTTTAAG-GGGTTATTGAAGGCGTTTATTCGAAAAAAATA
65 -GCCTTCAATATTCCACTACTAAAATTTTAAGACGGTTATTGAAGGCGTTTATTCGAAAAAAATA
* * * *
13522616 CCTTTACTAATTTGTTCTAATTTTTGAAGGAATTTATTGAAGGCACTTTATGCATTAT
129 CCATCACTAATTCGTTCTAATTTTTGAAAGAATTTATTGAAGGCACTTTATGCATTAT
*
13522674 ACGCCTTCAATAA-TTTCTTTTTAAAAATTGTTTGGAATATTAAAGGCATCTTCTAATAGAAAAA
1 ACGCCTTCAATAATTTTC-TTTTAAAAATTGTTTGGAATATTAAAGGCATCTTCTAATAAAAAAA
** * *
13522738 GCCTTCAATATTCCACTACTAAAATTTTAAGACGGTTATTGAAGGCGTTTATTTTAGAAAAATGC
65 GCCTTCAATATTCCACTACTAAAATTTTAAGACGGTTATTGAAGGCGTTTATTCGAAAAAAATAC
*
13522803 CATCGCTAATTCGTTCTAATTTTTGAAAGAATTTATTGAA
130 CATCACTAATTCGTTCTAATTTTTGAAAGAATTTATTGAA
13522843 CGCTTTTTTA
Statistics
Matches: 152, Mismatches: 13, Indels: 7
0.88 0.08 0.04
Matches are distributed among these distances:
184 39 0.26
185 50 0.33
186 63 0.41
ACGTcount: A:0.35, C:0.13, G:0.13, T:0.40
Consensus pattern (186 bp):
ACGCCTTCAATAATTTTCTTTTAAAAATTGTTTGGAATATTAAAGGCATCTTCTAATAAAAAAAG
CCTTCAATATTCCACTACTAAAATTTTAAGACGGTTATTGAAGGCGTTTATTCGAAAAAAATACC
ATCACTAATTCGTTCTAATTTTTGAAAGAATTTATTGAAGGCACTTTATGCATTAT
Found at i:13522887 original size:124 final size:125
Alignment explanation
Indices: 13522739--13522976 Score: 336
Period size: 124 Copynumber: 1.9 Consensus size: 125
13522729 ATAGAAAAAG
* * * **
13522739 CCTTCAATATTCCACTACTAAAATTTTAAGACGGTTATTGAAGGCGTTTATTTTAGAAAAATGCC
1 CCTTCAATATTCCACTACTAAAATTTTAAAACGGTTATTGAAGACATTTATTCCAGAAAAATG-C
*
13522804 A-TCGCTAATTCGTTCTAATTTTTGAAAGAATTTATTGAACGC-TTTTTTAGTAAAATACA
65 ATTCACTAATTCGTTCTAATTTTTGAAAGAATTTATTGAACGCGTTTTTTAGTAAAATACA
* * * *
13522863 CCTTCAGTATTTCACTACTAAAATTTTAAAATGGTTATTGAAGACATTTATTCCAGAAAAATGTA
1 CCTTCAATATTCCACTACTAAAATTTTAAAACGGTTATTGAAGACATTTATTCCAGAAAAATGCA
* * *
13522928 TTCACTAATTTGTTCTAATTTTTGAAGGAATTTATTGAAGGCGTTTTTT
66 TTCACTAATTCGTTCTAATTTTTGAAAGAATTTATTGAACGCGTTTTTT
13522977 TATAGAATAT
Statistics
Matches: 99, Mismatches: 13, Indels: 3
0.86 0.11 0.03
Matches are distributed among these distances:
123 1 0.01
124 92 0.93
125 6 0.06
ACGTcount: A:0.33, C:0.13, G:0.13, T:0.41
Consensus pattern (125 bp):
CCTTCAATATTCCACTACTAAAATTTTAAAACGGTTATTGAAGACATTTATTCCAGAAAAATGCA
TTCACTAATTCGTTCTAATTTTTGAAAGAATTTATTGAACGCGTTTTTTAGTAAAATACA
Found at i:13523415 original size:239 final size:238
Alignment explanation
Indices: 13522848--13523480 Score: 706
Period size: 240 Copynumber: 2.6 Consensus size: 238
13522838 TTGAACGCTT
* ** * *
13522848 TTTTAGT-AAAATACACCTTCAGTATTTCACTACTAAAATTTTAAAATGGTTATTGAAGACATTT
1 TTTTAGTGAAAA-ACACCTTCAATATTTCACTACTAAAATTTTAAGGTGGTTATTGAAGGCGTTT
* * ** * *
13522912 ATTCCAGAAAAATGTATTCACTAATTTGTTCTAATTTTTGAAGGAATTTATTGAAGGCGTTTTTT
65 TTTCAAGAAAAATGCCTTCACTAATTTGTTCTAATTTTTGAA-GAATTTATTGAAGGTGTTTTTG
* * **
13522977 TATAGAATATGCCTTCAATAATTTTTGTACAAAATTATTGAAGGTGTTTTTTTGAAAACAAACGC
129 CAT--AATACGCCTTCAATAATTTTTGTACAAAATTATTGAAGGTCATTTTTTGAAAACAAACGC
13523042 ATTCAATAATTTCCTTTTAAAAATTATTTGGAATTATTAAAGGCATA
192 ATTCAATAATTTCCTTTTAAAAATTATTTGGAATTATTAAAGGCATA
* ** * * * * *
13523089 TTCTAGTG-AAAATGCCTTTAATATTCCACCACTAAAATTTT--GGAATGGTTATTAAAGGTGTT
1 TTTTAGTGAAAAACACCTTCAATATTTCACTACTAAAATTTTAAGG--TGGTTATTGAAGGCGTT
* * *
13523151 TATTCCAAGAAAACA--CCTTCACTAATTCGTTCTAATTTTTGAAGAAATTTATTGGAGGTGCTT
64 T-TTTCAAGAAAA-ATGCCTTCACTAATTTGTTCTAATTTTTGAAG-AATTTATTGAAGGTG-TT
* *
13523214 TTTGCATTATACGCCTTCAATAATTTTTTTACAAAATTATTGAAGG-CATTTTTT-AAGAACAAA
125 TTTGCATAATACGCCTTCAATAATTTTTGTACAAAATTATTGAAGGTCATTTTTTGAA-AACAAA
* * * * * *
13523277 TGCCTTTAATAATTTCCTTTTAAAAATTTTTTGGGATTATTAAAGGCATC
189 CGCATTCAATAATTTCCTTTTAAAAATTATTTGGAATTATTAAAGGCATA
* * *
13523327 TTTTAGTGAAAAACACCCTCAATATTTCACTACTAACATTTTAAGGTGGTTAGTGAAGGCGTTTT
1 TTTTAGTGAAAAACACCTTCAATATTTCACTACTAAAATTTTAAGGTGGTTATTGAAGGCGTTTT
* * * * *
13523392 TTCTAGAAAAATGCCTTCACTAATTTGCTATAATTTTTGGAATGAATTTATTAAAAGTGTTTTCT
66 TTCAAGAAAAATGCCTTCACTAATTTGTTCTAATTTTT-GAA-GAATTTATTGAAGGTGTTTT-T
13523457 GCATAATACGCCTTCAATAATTTT
128 GCATAATACGCCTTCAATAATTTT
13523481 CCTTTTTTTT
Statistics
Matches: 322, Mismatches: 54, Indels: 33
0.79 0.13 0.08
Matches are distributed among these distances:
237 3 0.01
238 72 0.22
239 104 0.32
240 115 0.36
241 27 0.08
242 1 0.00
ACGTcount: A:0.34, C:0.12, G:0.13, T:0.41
Consensus pattern (238 bp):
TTTTAGTGAAAAACACCTTCAATATTTCACTACTAAAATTTTAAGGTGGTTATTGAAGGCGTTTT
TTCAAGAAAAATGCCTTCACTAATTTGTTCTAATTTTTGAAGAATTTATTGAAGGTGTTTTTGCA
TAATACGCCTTCAATAATTTTTGTACAAAATTATTGAAGGTCATTTTTTGAAAACAAACGCATTC
AATAATTTCCTTTTAAAAATTATTTGGAATTATTAAAGGCATA
Found at i:13525774 original size:21 final size:21
Alignment explanation
Indices: 13525745--13525789 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
13525735 ATAAGTTTAA
*
13525745 TATTAATTT-GTTTATTATATT
1 TATTAATTTAGTTT-TAATATT
*
13525766 TATTGATTTAGTTTTAATATT
1 TATTAATTTAGTTTTAATATT
13525787 TAT
1 TAT
13525790 ATTTCATTAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
21 17 0.81
22 4 0.19
ACGTcount: A:0.29, C:0.00, G:0.07, T:0.64
Consensus pattern (21 bp):
TATTAATTTAGTTTTAATATT
Found at i:13527712 original size:126 final size:127
Alignment explanation
Indices: 13527444--13527712 Score: 287
Period size: 126 Copynumber: 2.1 Consensus size: 127
13527434 AACAAAATGT
* * * * *
13527444 TATTGAAGGTGTTTTTGACCAAAACAGCCTTCAATAATACCCACCTAAAACTTTGTTGTGTTGAA
1 TATTGAAGGTGTTTTTGACCAAAAAAGCCTTCAATAATACCCAACTAAAAATTTATTGTGTAGAA
** *** * * * *
13527509 TATTAAAGGCGTTTTTGGCCAAAAATACCTTCAAGAATCTGTTCCAACTTTTTTGTATGGAT
66 TATTAAAGGCACTTTCAACCAAAAACACCTTCAAAAATCCGTTCCAACTTTTTTGTATGGAC
**
13527571 TATTGAAGGCATTTTTGA-CAAAAAATGCCTTCAATAAT-CCCAACTAAAAATTTATTGAT-TAG
1 TATTGAAGGTGTTTTTGACCAAAAAA-GCCTTCAATAATACCCAACTAAAAATTTATTG-TGTAG
* * * *
13527633 ATTATTGAAGGCACTTTCAACCAAAAACGCCTTCAAAAATCCGTTCCATA-TTTTTTTTATGGAC
64 AATATTAAAGGCACTTTCAACCAAAAACACCTTCAAAAATCCGTTCCA-ACTTTTTTGTATGGAC
13527697 TATT-AAGTGTGTTTTT
1 TATTGAAG-GTGTTTTT
13527713 AGTAAGAAAA
Statistics
Matches: 116, Mismatches: 22, Indels: 9
0.79 0.15 0.06
Matches are distributed among these distances:
125 3 0.03
126 83 0.72
127 30 0.26
ACGTcount: A:0.33, C:0.17, G:0.14, T:0.37
Consensus pattern (127 bp):
TATTGAAGGTGTTTTTGACCAAAAAAGCCTTCAATAATACCCAACTAAAAATTTATTGTGTAGAA
TATTAAAGGCACTTTCAACCAAAAACACCTTCAAAAATCCGTTCCAACTTTTTTGTATGGAC
Found at i:13528001 original size:125 final size:124
Alignment explanation
Indices: 13527749--13528246 Score: 390
Period size: 125 Copynumber: 4.1 Consensus size: 124
13527739 TAACAAAATG
* * * * * *
13527749 TTATTGAAAGCGTTTTTTATCAAAATCGCCTTTAATAATCCCACCTAAAAATTTATTGTGTGGAA
1 TTATTGAAGGCATTTTTTATAAAAATCGCCTTCAATAATCCCAACTAAAAATTTATTGT-TGGAT
* * ** * * * *
13527814 TATTAAAGGCATTTTGGGGCAAATACGCTTTCAAGAATCCGTTTCAACTTTTTTGTAT-GA
65 TATTAAAGGCGTTTTTGACCAAAAATGCCTTCAAGAATCCATTTCAACTTTTTT-TATGGA
* *
13527874 TTATTGAAGGCATTTTTTATAAAAATCGCCTTCAATAATCCTAAGTAAAAATTTATTGATTGGAT
1 TTATTGAAGGCATTTTTTATAAAAATCGCCTTCAATAATCCCAACTAAAAATTTATTG-TTGGAT
* * * *
13527939 TATTGAAGG-GTTTTTGGCCAAAAATGCCTTCAATAATCCATTCCATA-TTTTTCTTATGGA
65 TATTAAAGGCGTTTTTGACCAAAAATGCCTTCAAGAATCCATTTCA-ACTTTTT-TTATGGA
* * * *
13527999 TTATT-AAGGGCA-TTTTTAGCAAGAAAAT-GCCTTGAGTAAT-CC--CTAACAAA---A-TGCT
1 TTATTGAA-GGCATTTTTTA--TA-AAAATCGCCTTCAATAATCCCAACTAA-AAATTTATTGTT
* * * * *
13528054 --ATTA--AAA-GTG-TTTTGACCAAAACTGCCTTTAATAATCCATTTCAACTTTTTGTATGGA
61 GGATTATTAAAGGCGTTTTTGACCAAAAATGCCTTCAAGAATCCATTTCAACTTTTTTTATGGA
* * *
13528112 TTATTGAAGGCATTTTTTACAAAAATCACCTTCAATAATCCCACCTAAAAATTTATTGATTGGAT
1 TTATTGAAGGCATTTTTTATAAAAATCGCCTTCAATAATCCCAACTAAAAATTTATTG-TTGGAT
* * * ** *
13528177 TATTGAAGGCGCTTTTGACCAAAAATACCTTCAAGAATCTGTTTCATA-TTTTTCCTATGGA
65 TATTAAAGGCGTTTTTGACCAAAAATGCCTTCAAGAATCCATTTCA-ACTTTTT-TTATGGA
13528238 TTATT-AAGG
1 TTATTGAAGG
13528247 GTTCAATATT
Statistics
Matches: 299, Mismatches: 44, Indels: 60
0.74 0.11 0.15
Matches are distributed among these distances:
111 5 0.02
112 10 0.03
113 18 0.06
114 47 0.16
115 7 0.02
117 5 0.02
118 2 0.01
119 2 0.01
120 2 0.01
121 5 0.02
123 5 0.02
124 48 0.16
125 114 0.38
126 24 0.08
127 5 0.02
ACGTcount: A:0.33, C:0.15, G:0.14, T:0.38
Consensus pattern (124 bp):
TTATTGAAGGCATTTTTTATAAAAATCGCCTTCAATAATCCCAACTAAAAATTTATTGTTGGATT
ATTAAAGGCGTTTTTGACCAAAAATGCCTTCAAGAATCCATTTCAACTTTTTTTATGGA
Found at i:13528048 original size:303 final size:303
Alignment explanation
Indices: 13527377--13528091 Score: 949
Period size: 303 Copynumber: 2.3 Consensus size: 303
13527367 AAAAAAAGAC
*
13527377 TTTTTTTATGGGATTACTGAA-GGCATTTTTAGCAAGAAAATACCTTGAATAATCCCTAACAAAA
1 TTTTTTTAT-GGATTA-TTAAGGGCATTTTTAGCAAGAAAATACCTTGAATAATCCCTAACAAAA
* * * * *
13527441 TGTTATTGAAGGTGTTTTTGACCAAAACAGCCTTCAATAATACCCACCTAAAACTTTGTTGTGTT
64 TGTTATTGAAAGTGTTTTTGACCAAAACAGCCTTTAATAAT-CCCACCTAAAAATTTATTGTGTG
* * *
13527506 GAATATTAAAGGCGTTTTTGGCCAAAAATACCTTCAAGAATCTGTTCCAACTTTTTTGTATGGAT
128 GAATATTAAAGGCATTTTGGGCC-AAAATACCTTCAAGAATCCGTTCCAACTTTTTTGTATGGAT
13527571 TATTGAAGGCATTTTTGACAAAAAATGCCTTCAATAATCCCAACTAAAAATTTATTGATTAGATT
192 TATTGAAGGCATTTTTGACAAAAAATGCCTTCAATAATCCCAACTAAAAATTTATTGATTAGATT
*
13527636 ATTGAAGGCACTTTCAACCAAAAACGCCTTCAAAAATCCGTTCCATA
257 ATTGAAGGCACTTTCAACCAAAAACGCCTTCAAAAATCCATTCCATA
* * ** * *
13527683 TTTTTTTTATGGACTATTAAGTGTGTTTTTAGTAAGAAAATACCTTGAATAATCCTTAACAAAAT
1 -TTTTTTTATGGATTATTAAGGGCATTTTTAGCAAGAAAATACCTTGAATAATCCCTAACAAAAT
* * *
13527748 GTTATTGAAAGCGTTTTTTATCAAAATC-GCCTTTAATAATCCCACCTAAAAATTTATTGTGTGG
65 GTTATTGAAAGTGTTTTTGACCAAAA-CAGCCTTTAATAATCCCACCTAAAAATTTATTGTGTGG
* *
13527812 AATATTAAAGGCATTTTGGGGC-AAATACGCTTTCAAGAATCCGTTTCAACTTTTTTGTAT-GAT
129 AATATTAAAGGCATTTTGGGCCAAAATAC-C-TTCAAGAATCCGTTCCAACTTTTTTGTATGGAT
* * * * *
13527875 TATTGAAGGCATTTTTTA-TAAAAATCGCCTTCAATAATCCTAAGTAAAAATTTATTGATTGGAT
192 TATTGAAGGCATTTTTGACAAAAAAT-GCCTTCAATAATCCCAACTAAAAATTTATTGATTAGAT
** *** * *
13527939 TATTGAAGG-GTTTTTGGCCAAAAATGCCTTCAATAATCCATTCCATA
256 TATTGAAGGCACTTTCAACCAAAAACGCCTTCAAAAATCCATTCCATA
* *
13527986 TTTTTCTTATGGATTATTAAGGGCATTTTTAGCAAGAAAATGCCTTGAGTAATCCCTAACAAAAT
1 TTTTT-TTATGGATTATTAAGGGCATTTTTAGCAAGAAAATACCTTGAATAATCCCTAACAAAAT
* * *
13528051 GCTATTAAAAGTG-TTTTGACCAAAACTGCCTTTAATAATCC
65 GTTATTGAAAGTGTTTTTGACCAAAACAGCCTTTAATAATCC
13528092 ATTTCAACTT
Statistics
Matches: 355, Mismatches: 46, Indels: 19
0.85 0.11 0.05
Matches are distributed among these distances:
301 1 0.00
302 29 0.08
303 103 0.29
304 65 0.18
305 70 0.20
306 77 0.22
307 10 0.03
ACGTcount: A:0.34, C:0.16, G:0.14, T:0.36
Consensus pattern (303 bp):
TTTTTTTATGGATTATTAAGGGCATTTTTAGCAAGAAAATACCTTGAATAATCCCTAACAAAATG
TTATTGAAAGTGTTTTTGACCAAAACAGCCTTTAATAATCCCACCTAAAAATTTATTGTGTGGAA
TATTAAAGGCATTTTGGGCCAAAATACCTTCAAGAATCCGTTCCAACTTTTTTGTATGGATTATT
GAAGGCATTTTTGACAAAAAATGCCTTCAATAATCCCAACTAAAAATTTATTGATTAGATTATTG
AAGGCACTTTCAACCAAAAACGCCTTCAAAAATCCATTCCATA
Found at i:13530577 original size:20 final size:19
Alignment explanation
Indices: 13530553--13530597 Score: 54
Period size: 20 Copynumber: 2.3 Consensus size: 19
13530543 AATTAATATA
*
13530553 AAATAATAATTTATATTATT
1 AAATAAAAATTTAT-TTATT
*
13530573 TAATAAAAAATTTATTTATT
1 AAAT-AAAAATTTATTTATT
13530593 AAATA
1 AAATA
13530598 TATATAAGGT
Statistics
Matches: 21, Mismatches: 3, Indels: 3
0.78 0.11 0.11
Matches are distributed among these distances:
19 1 0.05
20 11 0.52
21 9 0.43
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (19 bp):
AAATAAAAATTTATTTATT
Found at i:13532028 original size:30 final size:31
Alignment explanation
Indices: 13531958--13532028 Score: 101
Period size: 30 Copynumber: 2.4 Consensus size: 31
13531948 ATACATGCAT
*
13531958 TGCATCCCA-TCCCTATCAATGTATAGTACA
1 TGCATCCCATTCCCTATCAATGGATAGTACA
* *
13531988 TGCATCCCATTCCC-ATTAATGGATAGTATA
1 TGCATCCCATTCCCTATCAATGGATAGTACA
13532018 TGCATCCCATT
1 TGCATCCCATT
13532029 TTATGCACAT
Statistics
Matches: 37, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
30 33 0.89
31 4 0.11
ACGTcount: A:0.28, C:0.28, G:0.11, T:0.32
Consensus pattern (31 bp):
TGCATCCCATTCCCTATCAATGGATAGTACA
Found at i:13537507 original size:14 final size:13
Alignment explanation
Indices: 13537484--13537546 Score: 65
Period size: 14 Copynumber: 4.6 Consensus size: 13
13537474 TTCACTCAGT
13537484 AAAA-AAAAAAAG
1 AAAAGAAAAAAAG
13537496 AAGAAGAAAAAAAAG
1 AA-AAG-AAAAAAAG
*
13537511 AAAAGAGAAAAAAT
1 AAAAGA-AAAAAAG
*
13537525 AAAAGAAAAAAAT
1 AAAAGAAAAAAAG
13537538 AAAACGAAA
1 AAAA-GAAA
13537547 GGAAGAAAAA
Statistics
Matches: 45, Mismatches: 1, Indels: 8
0.83 0.02 0.15
Matches are distributed among these distances:
12 2 0.04
13 14 0.31
14 19 0.42
15 10 0.22
ACGTcount: A:0.83, C:0.02, G:0.13, T:0.03
Consensus pattern (13 bp):
AAAAGAAAAAAAG
Found at i:13537507 original size:15 final size:14
Alignment explanation
Indices: 13537487--13537536 Score: 73
Period size: 14 Copynumber: 3.5 Consensus size: 14
13537477 ACTCAGTAAA
13537487 AAAAAAAAGAAGAAG
1 AAAAAAAAGAA-AAG
13537502 AAAAAAAAGAAAAG
1 AAAAAAAAGAAAAG
* *
13537516 AGAAAAAATAAAAG
1 AAAAAAAAGAAAAG
13537530 AAAAAAA
1 AAAAAAA
13537537 TAAAACGAAA
Statistics
Matches: 32, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
14 21 0.66
15 11 0.34
ACGTcount: A:0.84, C:0.00, G:0.14, T:0.02
Consensus pattern (14 bp):
AAAAAAAAGAAAAG
Found at i:13537508 original size:19 final size:18
Alignment explanation
Indices: 13537484--13537533 Score: 66
Period size: 19 Copynumber: 2.7 Consensus size: 18
13537474 TTCACTCAGT
13537484 AAAAAAA-AAAAGAAGAAGA
1 AAAAAAAGAAAAG-AGAA-A
13537503 AAAAAAAGAAAAGAGAAA
1 AAAAAAAGAAAAGAGAAA
13537521 AAATAAAAGAAAA
1 AAA-AAAAGAAAA
13537534 AAATAAAACG
Statistics
Matches: 29, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
18 4 0.14
19 20 0.69
20 5 0.17
ACGTcount: A:0.84, C:0.00, G:0.14, T:0.02
Consensus pattern (18 bp):
AAAAAAAGAAAAGAGAAA
Found at i:13537509 original size:20 final size:18
Alignment explanation
Indices: 13537484--13537534 Score: 57
Period size: 20 Copynumber: 2.6 Consensus size: 18
13537474 TTCACTCAGT
13537484 AAAAAAAAAAAGAAGAAGAA
1 AAAAAAAAAAAG-AGAA-AA
*
13537504 AAAAAAGAAAAGAGAAAA
1 AAAAAAAAAAAGAGAAAA
13537522 AATAAAAGAAAAA
1 AA-AAAA-AAAAA
13537535 AATAAAACGA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
18 4 0.15
19 8 0.30
20 15 0.56
ACGTcount: A:0.84, C:0.00, G:0.14, T:0.02
Consensus pattern (18 bp):
AAAAAAAAAAAGAGAAAA
Found at i:13537529 original size:34 final size:34
Alignment explanation
Indices: 13537484--13537557 Score: 89
Period size: 34 Copynumber: 2.2 Consensus size: 34
13537474 TTCACTCAGT
13537484 AAAAAAAAAAAGAAGAAGAAA-AAAAAGAAAAG-AG
1 AAAAAAAAAAAGAA-AA-AAATAAAAAGAAAAGAAG
* * *
13537518 AAAAAATAAAAGAAAAAAATAAAACGAAAGGAAG
1 AAAAAAAAAAAGAAAAAAATAAAAAGAAAAGAAG
13537552 AAAAAA
1 AAAAAA
13537558 GAGGAAAAAA
Statistics
Matches: 35, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
32 3 0.09
33 11 0.31
34 21 0.60
ACGTcount: A:0.81, C:0.01, G:0.15, T:0.03
Consensus pattern (34 bp):
AAAAAAAAAAAGAAAAAAATAAAAAGAAAAGAAG
Found at i:13538868 original size:21 final size:22
Alignment explanation
Indices: 13538842--13538884 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
13538832 AAATATTTTT
13538842 TGAAAAAAAT-AAAAAATGAAA
1 TGAAAAAAATAAAAAAATGAAA
13538863 TGAAAAAAATAAAAAAATGAAA
1 TGAAAAAAATAAAAAAATGAAA
13538885 AGAGGTCTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
21 10 0.48
22 11 0.52
ACGTcount: A:0.77, C:0.00, G:0.09, T:0.14
Consensus pattern (22 bp):
TGAAAAAAATAAAAAAATGAAA
Found at i:13539632 original size:22 final size:22
Alignment explanation
Indices: 13539604--13539661 Score: 82
Period size: 22 Copynumber: 2.6 Consensus size: 22
13539594 TGAAATCTTT
13539604 AAGACTTCTGGGCATAATTTTC
1 AAGACTTCTGGGCATAATTTTC
* *
13539626 AAGACTTCCGGGCGTAATTTTC
1 AAGACTTCTGGGCATAATTTTC
13539648 AAGACCTT-TGGGCA
1 AAGA-CTTCTGGGCA
13539662 AAACATTTTA
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
22 28 0.90
23 3 0.10
ACGTcount: A:0.26, C:0.21, G:0.22, T:0.31
Consensus pattern (22 bp):
AAGACTTCTGGGCATAATTTTC
Found at i:13539956 original size:22 final size:22
Alignment explanation
Indices: 13539931--13540010 Score: 92
Period size: 22 Copynumber: 3.6 Consensus size: 22
13539921 AAAGATTTGA
*
13539931 AATCTCTAAGACCTTCGAGCAT
1 AATCTTTAAGACCTTCGAGCAT
* *
13539953 AATCTTTGAGACCTTTGAGCAT
1 AATCTTTAAGACCTTCGAGCAT
*
13539975 AATCTTTAAGACC-TCTAGGCAT
1 AATCTTTAAGACCTTCGA-GCAT
13539997 AAT-TTTGAAGACCT
1 AATCTTT-AAGACCT
13540011 CCAGGTAAAA
Statistics
Matches: 49, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
21 5 0.10
22 44 0.90
ACGTcount: A:0.31, C:0.21, G:0.15, T:0.33
Consensus pattern (22 bp):
AATCTTTAAGACCTTCGAGCAT
Found at i:13549406 original size:16 final size:17
Alignment explanation
Indices: 13549330--13549431 Score: 57
Period size: 18 Copynumber: 5.6 Consensus size: 17
13549320 TACAAGAATG
13549330 TCATGCAAATATATTAGTTA
1 TCATGCAAATATA-TA--TA
*
13549350 TCATGC-AATA-ATAACAA
1 TCATGCAAATATAT-A-TA
*
13549367 TCATGTAAATATATAATA
1 TCATGCAAATATAT-ATA
*
13549385 TAATGCAAATATAT-TA
1 TCATGCAAATATATATA
*
13549401 TCATGCAATAATATAAAATA
1 TCATGC-A-AATAT-ATATA
*
13549421 CCATGCAAATA
1 TCATGCAAATA
13549432 AATTAATAAC
Statistics
Matches: 66, Mismatches: 9, Indels: 16
0.73 0.10 0.18
Matches are distributed among these distances:
16 7 0.11
17 8 0.12
18 28 0.42
19 10 0.15
20 13 0.20
ACGTcount: A:0.49, C:0.12, G:0.07, T:0.32
Consensus pattern (17 bp):
TCATGCAAATATATATA
Found at i:13549413 original size:18 final size:17
Alignment explanation
Indices: 13549330--13549415 Score: 59
Period size: 17 Copynumber: 4.8 Consensus size: 17
13549320 TACAAGAATG
13549330 TCATGCAAATATATTAGTTA
1 TCATGCAAA-ATA-TA-TTA
**
13549350 TCATGCAATAATA-ACAA
1 TCATGCAA-AATATATTA
* *
13549367 TCATGTAAATATATAATA
1 TCATGCAAA-ATATATTA
*
13549385 TAATGC-AAATATATTA
1 TCATGCAAAATATATTA
13549401 TCATGCAATAATATA
1 TCATGCAA-AATATA
13549416 AAATACCATG
Statistics
Matches: 52, Mismatches: 9, Indels: 12
0.71 0.12 0.16
Matches are distributed among these distances:
16 13 0.25
17 14 0.27
18 13 0.25
20 11 0.21
21 1 0.02
ACGTcount: A:0.48, C:0.10, G:0.07, T:0.35
Consensus pattern (17 bp):
TCATGCAAAATATATTA
Found at i:13549781 original size:32 final size:32
Alignment explanation
Indices: 13549739--13549838 Score: 112
Period size: 32 Copynumber: 3.4 Consensus size: 32
13549729 TAACAACGTA
13549739 AATCATGCAAATAAACATGCAATTAAATATAT
1 AATCATGCAAATAAACATGCAATTAAATATAT
*
13549771 AATCAGGC-----AA-AT--AA-T-AATATAT
1 AATCATGCAAATAAACATGCAATTAAATATAT
*
13549793 AGTCATGCAAATAAACATGCAATTAAATATAT
1 AATCATGCAAATAAACATGCAATTAAATATAT
13549825 AATCATGCAAATAA
1 AATCATGCAAATAA
13549839 TAATACATAA
Statistics
Matches: 54, Mismatches: 4, Indels: 20
0.69 0.05 0.26
Matches are distributed among these distances:
22 13 0.24
23 1 0.02
24 2 0.04
26 2 0.04
27 4 0.07
28 2 0.04
30 2 0.04
31 1 0.02
32 27 0.50
ACGTcount: A:0.53, C:0.12, G:0.08, T:0.27
Consensus pattern (32 bp):
AATCATGCAAATAAACATGCAATTAAATATAT
Found at i:13549792 original size:22 final size:22
Alignment explanation
Indices: 13549764--13549806 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
13549754 CATGCAATTA
13549764 AATATATAATCAGGCAAATAAT
1 AATATATAATCAGGCAAATAAT
* *
13549786 AATATATAGTCATGCAAATAA
1 AATATATAATCAGGCAAATAA
13549807 ACATGCAATT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.53, C:0.09, G:0.09, T:0.28
Consensus pattern (22 bp):
AATATATAATCAGGCAAATAAT
Found at i:13549811 original size:54 final size:54
Alignment explanation
Indices: 13549695--13549857 Score: 229
Period size: 54 Copynumber: 3.0 Consensus size: 54
13549685 AAAAAAAATT
* * * * **
13549695 AATAATCATGTAATTAAATATATAATCATGCAATTAACAACGTA-AATCATGCA
1 AATAAACATGCAATTAAATATATAATCATGCAAATAATAATATATAATCATGCA
* *
13549748 AATAAACATGCAATTAAATATATAATCAGGCAAATAATAATATATAGTCATGCA
1 AATAAACATGCAATTAAATATATAATCATGCAAATAATAATATATAATCATGCA
*
13549802 AATAAACATGCAATTAAATATATAATCATGCAAATAATAATACATAAATCATGCA
1 AATAAACATGCAATTAAATATATAATCATGCAAATAATAATATAT-AATCATGCA
13549857 A
1 A
13549858 TCATGTGAAA
Statistics
Matches: 97, Mismatches: 11, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
53 37 0.38
54 51 0.53
55 9 0.09
ACGTcount: A:0.52, C:0.12, G:0.07, T:0.28
Consensus pattern (54 bp):
AATAAACATGCAATTAAATATATAATCATGCAAATAATAATATATAATCATGCA
Found at i:13549831 original size:20 final size:20
Alignment explanation
Indices: 13549696--13549858 Score: 74
Period size: 20 Copynumber: 8.7 Consensus size: 20
13549686 AAAAAAATTA
*
13549696 ATAATCATGTAATTAAATAT
1 ATAATCATGCAATTAAATAT
13549716 ATAATCATGCAATTAACA-ACGT
1 ATAATCATGCAATTAA-ATA--T
13549738 A-AATCATGC-----AA-AT
1 ATAATCATGCAATTAAATAT
13549751 A-AA-CATGCAATTAAATAT
1 ATAATCATGCAATTAAATAT
* *
13549769 ATAATCAGGCAAATAATAATAT
1 ATAATCATGC-AATTA-AATAT
*
13549791 ATAGTCATGC-----AA-AT
1 ATAATCATGCAATTAAATAT
13549805 A-AA-CATGCAATTAAATAT
1 ATAATCATGCAATTAAATAT
* *
13549823 ATAATCATGCAAATAATAATAC
1 ATAATCATGC-AATTA-AATAT
13549845 ATAAATCATGCAAT
1 AT-AATCATGCAAT
13549859 CATGTGAAAA
Statistics
Matches: 111, Mismatches: 8, Indels: 46
0.67 0.05 0.28
Matches are distributed among these distances:
12 10 0.09
13 5 0.05
14 3 0.03
15 4 0.04
16 1 0.01
17 4 0.04
18 6 0.05
19 4 0.04
20 25 0.23
21 17 0.15
22 24 0.22
23 8 0.07
ACGTcount: A:0.52, C:0.12, G:0.07, T:0.29
Consensus pattern (20 bp):
ATAATCATGCAATTAAATAT
Found at i:13554552 original size:71 final size:70
Alignment explanation
Indices: 13554454--13554585 Score: 183
Period size: 71 Copynumber: 1.9 Consensus size: 70
13554444 AAGATTTGAC
* * * * * * *
13554454 TGGTCAAGATGAAGAATACTGAATACTCTTGAATTGTCAGCACCGTATCAACCTTATTAAAAGAC
1 TGGTCAAGACGAAGAATACTGAATACTCTTCAACTGTCAACAACGTATCAACATCATTAAAAGAC
13554519 CTAAA
66 CTAAA
*
13554524 TGGTCAAGACGAAGCAATAGTGAATACTCTTCAACTGTCAACAACGTATCAACATCATTAAA
1 TGGTCAAGACGAAG-AATACTGAATACTCTTCAACTGTCAACAACGTATCAACATCATTAAA
13554586 TATGAAACAC
Statistics
Matches: 53, Mismatches: 8, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
70 13 0.25
71 40 0.75
ACGTcount: A:0.39, C:0.20, G:0.15, T:0.26
Consensus pattern (70 bp):
TGGTCAAGACGAAGAATACTGAATACTCTTCAACTGTCAACAACGTATCAACATCATTAAAAGAC
CTAAA
Found at i:13558178 original size:21 final size:21
Alignment explanation
Indices: 13558154--13558194 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
13558144 ATTGGTCACG
*
13558154 GCTTGTGTCGGCTTGATCAAT
1 GCTTGTGTCGGCTCGATCAAT
* *
13558175 GCTTGTTTTGGCTCGATCAA
1 GCTTGTGTCGGCTCGATCAA
13558195 AGCTGATTCG
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.15, C:0.20, G:0.27, T:0.39
Consensus pattern (21 bp):
GCTTGTGTCGGCTCGATCAAT
Found at i:13559193 original size:24 final size:23
Alignment explanation
Indices: 13559151--13559196 Score: 74
Period size: 24 Copynumber: 2.0 Consensus size: 23
13559141 TATTTAAAAA
13559151 ATAAAATAAATAGACAGAATAAC
1 ATAAAATAAATAGACAGAATAAC
*
13559174 ATAAAATAAAATAGATAGAATAA
1 ATAAAAT-AAATAGACAGAATAA
13559197 TAAGGAAAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
23 7 0.33
24 14 0.67
ACGTcount: A:0.67, C:0.04, G:0.09, T:0.20
Consensus pattern (23 bp):
ATAAAATAAATAGACAGAATAAC
Found at i:13559977 original size:17 final size:18
Alignment explanation
Indices: 13559955--13559993 Score: 53
Period size: 17 Copynumber: 2.2 Consensus size: 18
13559945 ACACAATCTA
*
13559955 TTAATACTTTT-CAAATT
1 TTAATACTTTTAAAAATT
*
13559972 TTAATATTTTTAAAAATT
1 TTAATACTTTTAAAAATT
13559990 TTAA
1 TTAA
13559994 ATTTATTATT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
17 10 0.53
18 9 0.47
ACGTcount: A:0.41, C:0.05, G:0.00, T:0.54
Consensus pattern (18 bp):
TTAATACTTTTAAAAATT
Found at i:13560003 original size:24 final size:26
Alignment explanation
Indices: 13559953--13560012 Score: 70
Period size: 24 Copynumber: 2.4 Consensus size: 26
13559943 AAACACAATC
* *
13559953 TATTAATACTTTTCAAATTTTAATAT
1 TATTAAAAATTTTCAAATTTTAATAT
* *
13559979 TTTTAAAAATTTT-AAA-TTTATTAT
1 TATTAAAAATTTTCAAATTTTAATAT
13560003 TATTAAAAAT
1 TATTAAAAAT
13560013 AACATGCAAG
Statistics
Matches: 29, Mismatches: 5, Indels: 2
0.81 0.14 0.06
Matches are distributed among these distances:
24 16 0.55
25 3 0.10
26 10 0.34
ACGTcount: A:0.43, C:0.03, G:0.00, T:0.53
Consensus pattern (26 bp):
TATTAAAAATTTTCAAATTTTAATAT
Found at i:13560797 original size:15 final size:17
Alignment explanation
Indices: 13560766--13560807 Score: 61
Period size: 15 Copynumber: 2.6 Consensus size: 17
13560756 ATATTTTAAA
13560766 TATTTAATAAGTAATTT
1 TATTTAATAAGTAATTT
13560783 TATTTAAT-A-TAATTT
1 TATTTAATAAGTAATTT
*
13560798 TATTTTATAA
1 TATTTAATAA
13560808 ATTACTAAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
15 13 0.57
16 2 0.09
17 8 0.35
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.57
Consensus pattern (17 bp):
TATTTAATAAGTAATTT
Found at i:13566066 original size:21 final size:20
Alignment explanation
Indices: 13566024--13566066 Score: 52
Period size: 19 Copynumber: 2.1 Consensus size: 20
13566014 TGACTTTTTA
*
13566024 GAAAAAGAAAATTTTGATTT
1 GAAAAAGAAAATTTTGAATT
13566044 GAAAAA-AAAATTTAATGAATT
1 GAAAAAGAAAATTT--TGAATT
13566065 GA
1 GA
13566067 TGAATGAAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
19 7 0.35
20 6 0.30
21 7 0.35
ACGTcount: A:0.56, C:0.00, G:0.14, T:0.30
Consensus pattern (20 bp):
GAAAAAGAAAATTTTGAATT
Found at i:13578518 original size:71 final size:71
Alignment explanation
Indices: 13578437--13578577 Score: 264
Period size: 71 Copynumber: 2.0 Consensus size: 71
13578427 ATTTAAATCA
**
13578437 AATAAATTAAATTTTGAATTCAATGATATTTTTGTACTTGTTATTATTCTATGTATCATTATTTA
1 AATAAATTAAATTTCAAATTCAATGATATTTTTGTACTTGTTATTATTCTATGTATCATTATTTA
13578502 TTATAG
66 TTATAG
13578508 AATAAATTAAATTTCAAATTCAATGATATTTTTGTACTTGTTATTATTCTATGTATCATTATTTA
1 AATAAATTAAATTTCAAATTCAATGATATTTTTGTACTTGTTATTATTCTATGTATCATTATTTA
13578573 TTATA
66 TTATA
13578578 AAATTTTTAA
Statistics
Matches: 68, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
71 68 1.00
ACGTcount: A:0.35, C:0.06, G:0.07, T:0.52
Consensus pattern (71 bp):
AATAAATTAAATTTCAAATTCAATGATATTTTTGTACTTGTTATTATTCTATGTATCATTATTTA
TTATAG
Found at i:13580034 original size:12 final size:12
Alignment explanation
Indices: 13580017--13580041 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
13580007 TACCTGATTG
13580017 ATTCAGAACGCA
1 ATTCAGAACGCA
13580029 ATTCAGAACGCA
1 ATTCAGAACGCA
13580041 A
1 A
13580042 ATTATTGCTG
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:0.44, C:0.24, G:0.16, T:0.16
Consensus pattern (12 bp):
ATTCAGAACGCA
Found at i:13582124 original size:18 final size:18
Alignment explanation
Indices: 13582101--13582156 Score: 94
Period size: 18 Copynumber: 3.1 Consensus size: 18
13582091 AGAACCCCAT
13582101 CTGGAGTAATCACTAGGC
1 CTGGAGTAATCACTAGGC
*
13582119 CTGGAGTAATCACTTGGC
1 CTGGAGTAATCACTAGGC
*
13582137 CGGGAGTAATCACTAGGC
1 CTGGAGTAATCACTAGGC
13582155 CT
1 CT
13582157 ATTACCCCAT
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 34 1.00
ACGTcount: A:0.25, C:0.23, G:0.29, T:0.23
Consensus pattern (18 bp):
CTGGAGTAATCACTAGGC
Found at i:13584244 original size:11 final size:10
Alignment explanation
Indices: 13584221--13584273 Score: 54
Period size: 11 Copynumber: 5.2 Consensus size: 10
13584211 GGTAGACATT
13584221 AAGAAAGAGA
1 AAGAAAGAGA
*
13584231 AAGAAGAAAGA
1 AAGAA-AGAGA
13584242 AAGAAAGAGA
1 AAGAAAGAGA
*
13584252 GAAGAAAGTG-
1 -AAGAAAGAGA
*
13584262 TAGAAAGAGA
1 AAGAAAGAGA
13584272 AA
1 AA
13584274 ACTCATAAGC
Statistics
Matches: 34, Mismatches: 6, Indels: 6
0.74 0.13 0.13
Matches are distributed among these distances:
9 7 0.21
10 10 0.29
11 17 0.50
ACGTcount: A:0.66, C:0.00, G:0.30, T:0.04
Consensus pattern (10 bp):
AAGAAAGAGA
Done.