Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr13 ID=Chr13-JGI_221_v2.0
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: 58321163
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 747533 characters in sequence are not A, C, G, or T
File 106 of 199
Found at i:32262194 original size:19 final size:19
Alignment explanation
Indices: 32262170--32262215 Score: 58
Period size: 19 Copynumber: 2.4 Consensus size: 19
32262160 AACGGTGTCT
* *
32262170 AATGCATATG-ATGTAATG
1 AATGCAAATGCATGAAATG
32262188 AAATGCAAATGCATGAAATG
1 -AATGCAAATGCATGAAATG
32262208 AATGCAAA
1 AATGCAAA
32262216 AAGAGACGTT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
19 17 0.71
20 7 0.29
ACGTcount: A:0.48, C:0.09, G:0.20, T:0.24
Consensus pattern (19 bp):
AATGCAAATGCATGAAATG
Found at i:32262680 original size:17 final size:17
Alignment explanation
Indices: 32262658--32262693 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
32262648 TTATATAATG
* *
32262658 AAATGTCATTCAGTCAA
1 AAATGTCATGCAGCCAA
32262675 AAATGTCATGCAGCCAA
1 AAATGTCATGCAGCCAA
32262692 AA
1 AA
32262694 CAAAACACAC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.44, C:0.19, G:0.14, T:0.22
Consensus pattern (17 bp):
AAATGTCATGCAGCCAA
Found at i:32264388 original size:3 final size:3
Alignment explanation
Indices: 32264380--32264432 Score: 72
Period size: 3 Copynumber: 17.3 Consensus size: 3
32264370 AGTAAATGAT
*
32264380 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATGGA AAA ATA AT-
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT--A ATA ATA ATA
32264426 ATA ATA A
1 ATA ATA A
32264433 GGGTGATAAT
Statistics
Matches: 45, Mismatches: 2, Indels: 6
0.85 0.04 0.11
Matches are distributed among these distances:
2 2 0.04
3 41 0.91
5 2 0.04
ACGTcount: A:0.66, C:0.00, G:0.04, T:0.30
Consensus pattern (3 bp):
ATA
Found at i:32270426 original size:27 final size:27
Alignment explanation
Indices: 32270396--32270456 Score: 113
Period size: 27 Copynumber: 2.3 Consensus size: 27
32270386 ATTATTTTGT
*
32270396 TTTGAAAAAGTTTTCAAATATATATGG
1 TTTGAAAAAGTTTTCAAATATATATCG
32270423 TTTGAAAAAGTTTTCAAATATATATCG
1 TTTGAAAAAGTTTTCAAATATATATCG
32270450 TTTGAAA
1 TTTGAAA
32270457 CTTATGTGCT
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 33 1.00
ACGTcount: A:0.41, C:0.05, G:0.13, T:0.41
Consensus pattern (27 bp):
TTTGAAAAAGTTTTCAAATATATATCG
Found at i:32281571 original size:19 final size:19
Alignment explanation
Indices: 32281525--32281572 Score: 71
Period size: 19 Copynumber: 2.6 Consensus size: 19
32281515 GTATATATTT
32281525 TAAA-TTTATTTAGGTAGA
1 TAAATTTTATTTAGGTAGA
*
32281543 TAAATATTATTTAGGTAGA
1 TAAATTTTATTTAGGTAGA
*
32281562 TAAGTTTTATT
1 TAAATTTTATT
32281573 CATATTCTAA
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
18 4 0.15
19 22 0.85
ACGTcount: A:0.38, C:0.00, G:0.15, T:0.48
Consensus pattern (19 bp):
TAAATTTTATTTAGGTAGA
Found at i:32290353 original size:135 final size:135
Alignment explanation
Indices: 32290086--32290345 Score: 376
Period size: 135 Copynumber: 1.9 Consensus size: 135
32290076 TTTAGTCTTT
* * *
32290086 TAAAGTGATATGCAACATTTATAACGTGATAAATTGTGCTATGTGGCATCCAAGGATTGGTCTAC
1 TAAAGTGATATGCAACACTTATAACATGATAAATTGTGCCATGTGGCATCCAAGGATTGGTCTAC
* * * * *
32290151 GCATCAAAAAATGTCATGTCAAATTTTCGTTAGAGATTTTAATATGAGTGATCAAAATGAACAAA
66 ACATCAAAAAATGTCATGTCAAATTTCCATTAGAGATTTTAATAGGAGTGACCAAAATGAACAAA
32290216 CTAAG
131 CTAAG
* * * * *
32290221 TAAAGTGGTATGCAACACTTATGACATGATAAATTGTGCCATGTGGCATCTAATGATTGGTTTAC
1 TAAAGTGATATGCAACACTTATAACATGATAAATTGTGCCATGTGGCATCCAAGGATTGGTCTAC
** *
32290286 ATGTCAAAAAATGTCATGTCAGATTTCCATTAGAGATTTTAATAGGAGTGACCAAAATGA
66 ACATCAAAAAATGTCATGTCAAATTTCCATTAGAGATTTTAATAGGAGTGACCAAAATGA
32290346 GTGAACTATG
Statistics
Matches: 109, Mismatches: 16, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
135 109 1.00
ACGTcount: A:0.37, C:0.13, G:0.19, T:0.32
Consensus pattern (135 bp):
TAAAGTGATATGCAACACTTATAACATGATAAATTGTGCCATGTGGCATCCAAGGATTGGTCTAC
ACATCAAAAAATGTCATGTCAAATTTCCATTAGAGATTTTAATAGGAGTGACCAAAATGAACAAA
CTAAG
Found at i:32291483 original size:32 final size:32
Alignment explanation
Indices: 32291442--32291509 Score: 93
Period size: 33 Copynumber: 2.1 Consensus size: 32
32291432 GAAATAGATA
*
32291442 CATGTGGC-AAAGAGAATAATTTTTGAGCAAAG
1 CATGTGGCAAAAAAGAATAATTTTTGAGC-AAG
* *
32291474 CATGTGGCAAAAAAGAGTAATTTTTTAGCAAG
1 CATGTGGCAAAAAAGAATAATTTTTGAGCAAG
32291506 CATG
1 CATG
32291510 GTTAGATATG
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
32 15 0.47
33 17 0.53
ACGTcount: A:0.40, C:0.10, G:0.24, T:0.26
Consensus pattern (32 bp):
CATGTGGCAAAAAAGAATAATTTTTGAGCAAG
Found at i:32294928 original size:11 final size:12
Alignment explanation
Indices: 32294902--32294926 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
32294892 TTCATCTATC
32294902 TTCTTTATTTTT
1 TTCTTTATTTTT
32294914 TTCTTTATTTTT
1 TTCTTTATTTTT
32294926 T
1 T
32294927 CTAATATTTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.08, C:0.08, G:0.00, T:0.84
Consensus pattern (12 bp):
TTCTTTATTTTT
Found at i:32296523 original size:42 final size:43
Alignment explanation
Indices: 32296477--32296562 Score: 147
Period size: 43 Copynumber: 2.0 Consensus size: 43
32296467 TTACCCATTC
32296477 TTTCAC-AAAAAAATGATATCAATGATATCCTTTCTACTATTG
1 TTTCACAAAAAAAATGATATCAATGATATCCTTTCTACTATTG
* *
32296519 TTTCACAAAAAAAATTATATCAATGATATTCTTTCTACTATTG
1 TTTCACAAAAAAAATGATATCAATGATATCCTTTCTACTATTG
32296562 T
1 T
32296563 CAAATCACAG
Statistics
Matches: 41, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
42 6 0.15
43 35 0.85
ACGTcount: A:0.38, C:0.15, G:0.06, T:0.41
Consensus pattern (43 bp):
TTTCACAAAAAAAATGATATCAATGATATCCTTTCTACTATTG
Found at i:32298281 original size:42 final size:42
Alignment explanation
Indices: 32298193--32298273 Score: 99
Period size: 42 Copynumber: 1.9 Consensus size: 42
32298183 CACGGTTTGC
* * * * *
32298193 TCACACGGTTGTGTATCCTTGTCACACGGGCATGTCTCTCAG
1 TCACACGGTAGTGTACCCCTGTCACACAGGCATGTCCCTCAG
* *
32298235 TCACACGGTAGTGTCCCCCTGTCACACAGGCGTGTCCCT
1 TCACACGGTAGTGTACCCCTGTCACACAGGCATGTCCCT
32298274 TATTCACATA
Statistics
Matches: 32, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
42 32 1.00
ACGTcount: A:0.16, C:0.33, G:0.23, T:0.27
Consensus pattern (42 bp):
TCACACGGTAGTGTACCCCTGTCACACAGGCATGTCCCTCAG
Found at i:32316816 original size:13 final size:13
Alignment explanation
Indices: 32316800--32316835 Score: 72
Period size: 13 Copynumber: 2.8 Consensus size: 13
32316790 AATCTTCTCT
32316800 ATTTTTCTTTGTA
1 ATTTTTCTTTGTA
32316813 ATTTTTCTTTGTA
1 ATTTTTCTTTGTA
32316826 ATTTTTCTTT
1 ATTTTTCTTT
32316836 ATTTTTTGTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 23 1.00
ACGTcount: A:0.14, C:0.08, G:0.06, T:0.72
Consensus pattern (13 bp):
ATTTTTCTTTGTA
Found at i:32350645 original size:16 final size:16
Alignment explanation
Indices: 32350624--32350680 Score: 87
Period size: 16 Copynumber: 3.6 Consensus size: 16
32350614 TTTGGTTCGC
*
32350624 TGTATTGGATTAGAGG
1 TGTAATGGATTAGAGG
*
32350640 TGTATTGGATTAGAGG
1 TGTAATGGATTAGAGG
*
32350656 TGTAATGGAATAGAGG
1 TGTAATGGATTAGAGG
32350672 TGTAATGGA
1 TGTAATGGA
32350681 AAAGCTGTGT
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 39 1.00
ACGTcount: A:0.30, C:0.00, G:0.37, T:0.33
Consensus pattern (16 bp):
TGTAATGGATTAGAGG
Found at i:32351047 original size:14 final size:15
Alignment explanation
Indices: 32350915--32351049 Score: 61
Period size: 15 Copynumber: 8.9 Consensus size: 15
32350905 TTTAAACATA
*
32350915 ATTATTATTAAATAT
1 ATTATAATTAAATAT
*
32350930 ATTTTAATTAAA-AT
1 ATTATAATTAAATAT
*
32350944 A-TATAATTTAATAT
1 ATTATAATTAAATAT
*
32350958 GAATTTACTCAAATCATAATAT
1 --A-TTA-T--AATTA-AATAT
* *
32350980 ATGATACTGTAAA-AT
1 ATTATAAT-TAAATAT
32350995 A-TA-AATTAACATA-
1 ATTATAATTAA-ATAT
*
32351008 ATTATTATTAAATAT
1 ATTATAATTAAATAT
32351023 ATTATAATTAAA-AT
1 ATTATAATTAAATAT
*
32351037 A-TATAATTTAATA
1 ATTATAATTAAATA
32351050 AAATTCTTAA
Statistics
Matches: 90, Mismatches: 14, Indels: 33
0.66 0.10 0.24
Matches are distributed among these distances:
12 3 0.03
13 21 0.23
14 16 0.18
15 29 0.32
16 5 0.06
17 1 0.01
18 3 0.03
19 3 0.03
20 1 0.01
21 3 0.03
22 5 0.06
ACGTcount: A:0.50, C:0.04, G:0.02, T:0.44
Consensus pattern (15 bp):
ATTATAATTAAATAT
Found at i:32351064 original size:44 final size:43
Alignment explanation
Indices: 32350975--32351065 Score: 103
Period size: 44 Copynumber: 2.1 Consensus size: 43
32350965 CTCAAATCAT
* * *
32350975 AATATATGATACTGTAAAATATAAATTAACATAATTATTATTA
1 AATATATGATAATGTAAAATATAAATTAACAAAATTATTAATA
* * *
32351018 AATATATTATAAT-TAAAATATATAATTTAATAAAATTCTTAATA
1 AATATATGATAATGTAAAATATA-AA-TTAACAAAATTATTAATA
32351062 AATA
1 AATA
32351066 AAATTCTTCT
Statistics
Matches: 40, Mismatches: 6, Indels: 3
0.82 0.12 0.06
Matches are distributed among these distances:
42 9 0.22
43 13 0.32
44 18 0.45
ACGTcount: A:0.54, C:0.03, G:0.02, T:0.41
Consensus pattern (43 bp):
AATATATGATAATGTAAAATATAAATTAACAAAATTATTAATA
Found at i:32351154 original size:15 final size:16
Alignment explanation
Indices: 32351134--32351169 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 16
32351124 AATAATTAAT
32351134 ATTAA-ATATGATTTA
1 ATTAATATATGATTTA
32351149 ATTAAATATATGATTTA
1 ATT-AATATATGATTTA
32351166 ATTA
1 ATTA
32351170 TAACTAATAT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
15 3 0.16
16 3 0.16
17 13 0.68
ACGTcount: A:0.47, C:0.00, G:0.06, T:0.47
Consensus pattern (16 bp):
ATTAATATATGATTTA
Found at i:32351159 original size:17 final size:20
Alignment explanation
Indices: 32351138--32351183 Score: 71
Period size: 17 Copynumber: 2.5 Consensus size: 20
32351128 ATTAATATTA
32351138 AATATGATTTAATTA-AA-T
1 AATATGATTTAATTATAACT
32351156 -ATATGATTTAATTATAACT
1 AATATGATTTAATTATAACT
32351175 AATATGATT
1 AATATGATT
32351184 ATAGTTTATG
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
17 14 0.56
18 2 0.08
19 1 0.04
20 8 0.32
ACGTcount: A:0.46, C:0.02, G:0.07, T:0.46
Consensus pattern (20 bp):
AATATGATTTAATTATAACT
Found at i:32351300 original size:93 final size:92
Alignment explanation
Indices: 32351190--32351384 Score: 286
Period size: 93 Copynumber: 2.1 Consensus size: 92
32351180 GATTATAGTT
* * *
32351190 TATGAATTTGTATAATTTAAAATAA-TAATTATTACATATAATT-TAATAATAATATATAATTTC
1 TATGAATTTATACAATTTAAAATAATTAA-TATTAAATATAATTAT-ATAATAATATATAATTTC
* *
32351253 ATAAAATTCTTGATAATAAAAATTTTCTTA
64 ATAAAATTCTTAATAAT-AAAATGTTCTTA
* *
32351283 TATGAATTTATACAATTTAAAATAATTAATATTAAATATAATTATATAGTGATATATAATTTCAT
1 TATGAATTTATACAATTTAAAATAATTAATATTAAATATAATTATATAATAATATATAATTTCAT
32351348 AAAATTCTTAATAATAAAATGTTCTTA
66 AAAATTCTTAATAATAAAATGTTCTTA
32351375 TATGAATTTA
1 TATGAATTTA
32351385 CTAAAATCAA
Statistics
Matches: 93, Mismatches: 7, Indels: 5
0.89 0.07 0.05
Matches are distributed among these distances:
92 21 0.23
93 68 0.73
94 4 0.04
ACGTcount: A:0.47, C:0.04, G:0.04, T:0.45
Consensus pattern (92 bp):
TATGAATTTATACAATTTAAAATAATTAATATTAAATATAATTATATAATAATATATAATTTCAT
AAAATTCTTAATAATAAAATGTTCTTA
Found at i:32353097 original size:15 final size:15
Alignment explanation
Indices: 32353077--32353107 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
32353067 ATATTATGTA
32353077 TAATTGAGGTAAAAT
1 TAATTGAGGTAAAAT
32353092 TAATTGAGGTAAAAT
1 TAATTGAGGTAAAAT
32353107 T
1 T
32353108 TGAAGGTTGG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.45, C:0.00, G:0.19, T:0.35
Consensus pattern (15 bp):
TAATTGAGGTAAAAT
Found at i:32358500 original size:23 final size:23
Alignment explanation
Indices: 32358470--32358514 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
32358460 TGAAGCTATA
*
32358470 ATTAATAAAAGAATTTTAAAAAT
1 ATTAATAAAAGAATTTGAAAAAT
**
32358493 ATTAATAATTGAATTTGAAAAA
1 ATTAATAAAAGAATTTGAAAAA
32358515 GTAGAGTGAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.58, C:0.00, G:0.07, T:0.36
Consensus pattern (23 bp):
ATTAATAAAAGAATTTGAAAAAT
Found at i:32359117 original size:29 final size:29
Alignment explanation
Indices: 32359062--32359117 Score: 69
Period size: 29 Copynumber: 2.0 Consensus size: 29
32359052 ATATTTTAAT
* **
32359062 TATTTTATATTATTATTAGGTTATTTTTG
1 TATTTTATATTATTAATAAATTATTTTTG
*
32359091 TATTTTATATTTTTAATAAATT-TTTTT
1 TATTTTATATTATTAATAAATTATTTTT
32359118 ATTTATCACT
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
28 5 0.22
29 18 0.78
ACGTcount: A:0.27, C:0.00, G:0.05, T:0.68
Consensus pattern (29 bp):
TATTTTATATTATTAATAAATTATTTTTG
Found at i:32359165 original size:18 final size:18
Alignment explanation
Indices: 32359142--32359178 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
32359132 CCAAAATTTT
* *
32359142 ATTTTAATATTTTTATTC
1 ATTTTAACATTATTATTC
32359160 ATTTTAACATTATTATTC
1 ATTTTAACATTATTATTC
32359178 A
1 A
32359179 AATTTCTTCG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.32, C:0.08, G:0.00, T:0.59
Consensus pattern (18 bp):
ATTTTAACATTATTATTC
Found at i:32361139 original size:10 final size:11
Alignment explanation
Indices: 32361121--32361168 Score: 55
Period size: 10 Copynumber: 4.4 Consensus size: 11
32361111 AACTAAAATT
*
32361121 AAAATTAAAA-
1 AAAAGTAAAAG
32361131 AAAAGTAAAAAG
1 AAAAGT-AAAAG
32361143 AAATAGTAAAAG
1 AAA-AGTAAAAG
32361155 AAAA-TAAAAG
1 AAAAGTAAAAG
32361165 AAAA
1 AAAA
32361169 CTAATGTGAT
Statistics
Matches: 34, Mismatches: 1, Indels: 6
0.83 0.02 0.15
Matches are distributed among these distances:
10 15 0.44
11 5 0.15
12 11 0.32
13 3 0.09
ACGTcount: A:0.77, C:0.00, G:0.10, T:0.12
Consensus pattern (11 bp):
AAAAGTAAAAG
Found at i:32362466 original size:85 final size:85
Alignment explanation
Indices: 32362345--32362577 Score: 295
Period size: 85 Copynumber: 2.7 Consensus size: 85
32362335 TTTTTGTGGG
* * *
32362345 TGCACAACATATTTGAATATTAAACAAACTACCACTTGGTTTATGATCAAACCACATATTTGCAG
1 TGCACAACATATTTGCATATTAAACAAACTGCCACTTGGTTCATGATCAAACCACATATTTGCAG
* * *
32362410 TTATTGCCACTTTTTATGAA
66 TTACTACCACTTGTTATGAA
* * **
32362430 TGCACAACATATTTTCATATTAAACAAACTGCCACTTAGTTCATGATTGAACCACATATTTGCAG
1 TGCACAACATATTTGCATATTAAACAAACTGCCACTTGGTTCATGATCAAACCACATATTTGCAG
* *
32362495 TTACTACCACTTGTTGTGAG
66 TTACTACCACTTGTTATGAA
* * * * **
32362515 TGCACAACATATTTGCAGACTAAACAAACTGTCACTTGGTTCATAATTGAACCACACTATTTG
1 TGCACAACATATTTGCATATTAAACAAACTGCCACTTGGTTCATGATCAAACCACA-TATTTG
32362578 TAGATTAAAC
Statistics
Matches: 129, Mismatches: 18, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
85 123 0.95
86 6 0.05
ACGTcount: A:0.34, C:0.21, G:0.12, T:0.33
Consensus pattern (85 bp):
TGCACAACATATTTGCATATTAAACAAACTGCCACTTGGTTCATGATCAAACCACATATTTGCAG
TTACTACCACTTGTTATGAA
Found at i:32369789 original size:14 final size:14
Alignment explanation
Indices: 32369770--32369812 Score: 59
Period size: 14 Copynumber: 3.1 Consensus size: 14
32369760 TTATCGACAT
32369770 ACATACATGCAAAA
1 ACATACATGCAAAA
*
32369784 ACATACATGTAAAA
1 ACATACATGCAAAA
* *
32369798 ATATACATACAAAA
1 ACATACATGCAAAA
32369812 A
1 A
32369813 TTAGATGCAT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
14 25 1.00
ACGTcount: A:0.60, C:0.16, G:0.05, T:0.19
Consensus pattern (14 bp):
ACATACATGCAAAA
Found at i:32376153 original size:19 final size:19
Alignment explanation
Indices: 32376107--32376154 Score: 78
Period size: 19 Copynumber: 2.5 Consensus size: 19
32376097 AGGGCCACAC
* *
32376107 GGCCGTGTAGAAGTGCCTA
1 GGCCGTGTGGAAATGCCTA
32376126 GGCCGTGTGGAAATGCCTA
1 GGCCGTGTGGAAATGCCTA
32376145 GGCCGTGTGG
1 GGCCGTGTGG
32376155 GGTCAACACG
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
19 27 1.00
ACGTcount: A:0.17, C:0.21, G:0.42, T:0.21
Consensus pattern (19 bp):
GGCCGTGTGGAAATGCCTA
Found at i:32376203 original size:22 final size:22
Alignment explanation
Indices: 32376160--32376237 Score: 106
Period size: 22 Copynumber: 3.6 Consensus size: 22
32376150 TGTGGGGTCA
*
32376160 ACACGCCCATGTGAA-GGAGGC
1 ACACGCCCGTGTGAAGGGAGGC
32376181 ACACGCCCGTGTGAAGGGAGGC
1 ACACGCCCGTGTGAAGGGAGGC
* *
32376203 ACATGCCTGTGTGAAGGGAGGC
1 ACACGCCCGTGTGAAGGGAGGC
*
32376225 ACGCG-CCGTGTGA
1 ACACGCCCGTGTGA
32376238 CCCAAGAACA
Statistics
Matches: 50, Mismatches: 6, Indels: 2
0.86 0.10 0.03
Matches are distributed among these distances:
21 21 0.42
22 29 0.58
ACGTcount: A:0.23, C:0.26, G:0.38, T:0.13
Consensus pattern (22 bp):
ACACGCCCGTGTGAAGGGAGGC
Found at i:32386774 original size:19 final size:19
Alignment explanation
Indices: 32386750--32386804 Score: 60
Period size: 19 Copynumber: 2.9 Consensus size: 19
32386740 TATGAATATG
32386750 AATGATTGATAATTACTGA
1 AATGATTGATAATTACTGA
* *
32386769 AATGATATGAT-ATTAGTTA
1 AATGAT-TGATAATTACTGA
32386788 AATG-TTGATGAATTACT
1 AATGATTGAT-AATTACT
32386805 ATTCTGAAAT
Statistics
Matches: 30, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
17 4 0.13
18 1 0.03
19 21 0.70
20 4 0.13
ACGTcount: A:0.40, C:0.04, G:0.16, T:0.40
Consensus pattern (19 bp):
AATGATTGATAATTACTGA
Found at i:32391440 original size:18 final size:18
Alignment explanation
Indices: 32391404--32391447 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
32391394 AGTGAAATTT
**
32391404 ATATGAAAATCCCTGAAGG
1 ATAT-AAAATCCCAAAAGG
*
32391423 ATTTAAAATCCCAAAAGG
1 ATATAAAATCCCAAAAGG
32391441 ATATAAA
1 ATATAAA
32391448 GTTTCTCGAG
Statistics
Matches: 21, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
18 18 0.86
19 3 0.14
ACGTcount: A:0.50, C:0.14, G:0.14, T:0.23
Consensus pattern (18 bp):
ATATAAAATCCCAAAAGG
Found at i:32394164 original size:18 final size:18
Alignment explanation
Indices: 32394138--32394213 Score: 77
Period size: 18 Copynumber: 4.2 Consensus size: 18
32394128 ATTTAAATTT
32394138 AAATT-AAAAATATATAA
1 AAATTCAAAAATATATAA
*
32394155 AAATTCAAAAAT-TATTA
1 AAATTCAAAAATATATAA
*
32394172 AAATTTATAAAATAATATAA
1 AAATTCA-AAAAT-ATATAA
*
32394192 AATACTCAAAAA-ATATAA
1 AA-ATTCAAAAATATATAA
32394210 AAAT
1 AAAT
32394214 ATATTTAAAA
Statistics
Matches: 48, Mismatches: 6, Indels: 10
0.75 0.09 0.16
Matches are distributed among these distances:
17 16 0.33
18 19 0.40
20 10 0.21
21 3 0.06
ACGTcount: A:0.66, C:0.04, G:0.00, T:0.30
Consensus pattern (18 bp):
AAATTCAAAAATATATAA
Found at i:32395464 original size:37 final size:37
Alignment explanation
Indices: 32395417--32395487 Score: 124
Period size: 37 Copynumber: 1.9 Consensus size: 37
32395407 ATTACCCGAA
* *
32395417 TTGAATCACTACATAATTAAAAATATTACGTAATTCT
1 TTGAATCACTACATAATTAAAAACATTACATAATTCT
32395454 TTGAATCACTACATAATTAAAAACATTACATAAT
1 TTGAATCACTACATAATTAAAAACATTACATAAT
32395488 AGTATGAAAA
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
37 32 1.00
ACGTcount: A:0.46, C:0.14, G:0.04, T:0.35
Consensus pattern (37 bp):
TTGAATCACTACATAATTAAAAACATTACATAATTCT
Found at i:32401869 original size:39 final size:39
Alignment explanation
Indices: 32401783--32401891 Score: 175
Period size: 39 Copynumber: 2.8 Consensus size: 39
32401773 ACTTAAGAGT
* *
32401783 TAGACTTTAGTTTTATTTTTATTGGGTT-GGCAATTGGG
1 TAGACTTTAGTTTTAGTTTTATTGGGTTGGGTAATTGGG
*
32401821 TAGACTTTAGTTTTAGTTTTATTGGGTTGGGTGATTGGG
1 TAGACTTTAGTTTTAGTTTTATTGGGTTGGGTAATTGGG
*
32401860 TAGACTTTAGTTTTAGTTTTATTGAGTTGGGT
1 TAGACTTTAGTTTTAGTTTTATTGGGTTGGGT
32401892 TGGATATTTT
Statistics
Matches: 66, Mismatches: 4, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
38 27 0.41
39 39 0.59
ACGTcount: A:0.17, C:0.04, G:0.28, T:0.50
Consensus pattern (39 bp):
TAGACTTTAGTTTTAGTTTTATTGGGTTGGGTAATTGGG
Found at i:32408073 original size:31 final size:33
Alignment explanation
Indices: 32408027--32408088 Score: 101
Period size: 31 Copynumber: 1.9 Consensus size: 33
32408017 TCAAACCCAT
32408027 TTTAACGGTAGTGTGACTAAAATTAACAACTTA
1 TTTAACGGTAGTGTGACTAAAATTAACAACTTA
*
32408060 TTTAAC-G-AGTGTGACTAAAATTGACAACT
1 TTTAACGGTAGTGTGACTAAAATTAACAACT
32408089 CATATAACAG
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
31 21 0.75
32 1 0.04
33 6 0.21
ACGTcount: A:0.39, C:0.13, G:0.16, T:0.32
Consensus pattern (33 bp):
TTTAACGGTAGTGTGACTAAAATTAACAACTTA
Found at i:32408106 original size:31 final size:31
Alignment explanation
Indices: 32408040--32408116 Score: 86
Period size: 31 Copynumber: 2.5 Consensus size: 31
32408030 AACGGTAGTG
* * **
32408040 TGACTAAAATTAACAACTTATTTAACGAGTG
1 TGACTAAAATTAACAACTCATATAACGAGAA
*
32408071 TGACTAAAATTGACAACTCATATAAC-AGCAA
1 TGACTAAAATTAACAACTCATATAACGAG-AA
32408102 TGACTAAAA-TAACAA
1 TGACTAAAATTAACAA
32408117 ATTTTTTGTA
Statistics
Matches: 39, Mismatches: 6, Indels: 3
0.81 0.12 0.06
Matches are distributed among these distances:
30 7 0.18
31 32 0.82
ACGTcount: A:0.48, C:0.16, G:0.10, T:0.26
Consensus pattern (31 bp):
TGACTAAAATTAACAACTCATATAACGAGAA
Found at i:32413284 original size:34 final size:38
Alignment explanation
Indices: 32413243--32413313 Score: 96
Period size: 34 Copynumber: 2.0 Consensus size: 38
32413233 ATCAAAGTTA
**
32413243 AATTGGTTTGTGTAA-CAAAAA-AA-AAA-AGTTAATT
1 AATTGGTTCATGTAACCAAAAATAACAAAGAGTTAATT
32413277 AATTGGTTCATGTAACCAAAAATAACAAAGAGTTAAT
1 AATTGGTTCATGTAACCAAAAATAACAAAGAGTTAAT
32413314 GTTTCAAAAT
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
34 13 0.42
35 6 0.19
36 2 0.06
37 3 0.10
38 7 0.23
ACGTcount: A:0.49, C:0.07, G:0.14, T:0.30
Consensus pattern (38 bp):
AATTGGTTCATGTAACCAAAAATAACAAAGAGTTAATT
Found at i:32416090 original size:3 final size:3
Alignment explanation
Indices: 32416082--32416112 Score: 62
Period size: 3 Copynumber: 10.3 Consensus size: 3
32416072 TTAATTTAAA
32416082 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
32416113 TTGATATATT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:32416539 original size:16 final size:16
Alignment explanation
Indices: 32416520--32416564 Score: 56
Period size: 16 Copynumber: 2.8 Consensus size: 16
32416510 TTTACTATAT
32416520 TATTATTTTAATA-TTA
1 TATTA-TTTAATACTTA
* *
32416536 TATTATATAATACTTT
1 TATTATTTAATACTTA
32416552 TATTATTTAATAC
1 TATTATTTAATAC
32416565 ATTAGCAATA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
15 6 0.24
16 19 0.76
ACGTcount: A:0.38, C:0.04, G:0.00, T:0.58
Consensus pattern (16 bp):
TATTATTTAATACTTA
Found at i:32417389 original size:125 final size:124
Alignment explanation
Indices: 32417260--32417515 Score: 356
Period size: 125 Copynumber: 2.1 Consensus size: 124
32417250 AAATAGTGGG
** * *
32417260 AAATCGCTTCTACCAGGATGCTATTTGAGAAAAAATTGTGAAATAGTGGCC-TCGTGGACGCGAT
1 AAATCGCTGATACCAGGATGCTATATGAGAAAAAATTGTGAAATAG-CGCCGTCGTGGACGCGAT
* *
32417324 TTCGCTACAG-TGGTCATGTA-AGAAATAATTTTTTTTTGACTTTTACTGAGCAAATAGTATA
65 ATCGCTACAGTTGGTCATGTAGA-AAATAA-TTTTTTTTGACGTTT-CTGAGCAAATAGTATA
* *
32417385 AAATCGCTGATACCAGGATGCTATATGAGAAGAAATTGTGAAATCGCGCCGTCGTGGACGCGATA
1 AAATCGCTGATACCAGGATGCTATATGAGAAAAAATTGTGAAATAGCGCCGTCGTGGACGCGATA
* * *
32417450 TCGCTCCAGTTGGTCATGTAGAAAATAATTTTTTTTGACGTTTCTGAGCAAATAGTGTC
66 TCGCTACAGTTGGTCATGTAGAAAATAATTTTTTTTGACGTTTCTGAGCAAATAGTATA
32417509 AAATCGC
1 AAATCGC
32417516 GCCCTCGTGG
Statistics
Matches: 117, Mismatches: 11, Indels: 7
0.87 0.08 0.05
Matches are distributed among these distances:
124 24 0.21
125 76 0.65
126 16 0.14
127 1 0.01
ACGTcount: A:0.30, C:0.16, G:0.22, T:0.31
Consensus pattern (124 bp):
AAATCGCTGATACCAGGATGCTATATGAGAAAAAATTGTGAAATAGCGCCGTCGTGGACGCGATA
TCGCTACAGTTGGTCATGTAGAAAATAATTTTTTTTGACGTTTCTGAGCAAATAGTATA
Found at i:32419749 original size:28 final size:28
Alignment explanation
Indices: 32419718--32419843 Score: 207
Period size: 28 Copynumber: 4.5 Consensus size: 28
32419708 TAGGGTTCAT
*
32419718 TTTTTAATTAAATTAAATTAGGTTAGGG
1 TTTTTAATTAAATTAAGTTAGGTTAGGG
32419746 TTTTTAATTAAATTAAGTTAGGTTAGGG
1 TTTTTAATTAAATTAAGTTAGGTTAGGG
32419774 TTTTTAATTAAATTAAGTTAGGTTAGGG
1 TTTTTAATTAAATTAAGTTAGGTTAGGG
* *
32419802 TTTTTAATTAATTTAGGTTAGGGTTAGGG
1 TTTTTAATTAAATTAAGTTA-GGTTAGGG
*
32419831 TTTTTAATCAAAT
1 TTTTTAATTAAAT
32419844 AATGTCAAAA
Statistics
Matches: 92, Mismatches: 5, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
28 73 0.79
29 19 0.21
ACGTcount: A:0.32, C:0.01, G:0.20, T:0.48
Consensus pattern (28 bp):
TTTTTAATTAAATTAAGTTAGGTTAGGG
Found at i:32421969 original size:14 final size:15
Alignment explanation
Indices: 32421952--32421985 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
32421942 AATAAATATC
32421952 TAAAAATA-CATAAA
1 TAAAAATATCATAAA
*
32421966 TAAAAATATCTTAAA
1 TAAAAATATCATAAA
32421981 TAAAA
1 TAAAA
32421986 TTTAAAATTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 8 0.44
15 10 0.56
ACGTcount: A:0.68, C:0.06, G:0.00, T:0.26
Consensus pattern (15 bp):
TAAAAATATCATAAA
Found at i:32422135 original size:29 final size:30
Alignment explanation
Indices: 32422084--32422141 Score: 100
Period size: 30 Copynumber: 2.0 Consensus size: 30
32422074 TGAAAATATT
*
32422084 AAAAATTTTAAAATTATTTTTAAAAAAATA
1 AAAAATTTTAAAATTATTCTTAAAAAAATA
32422114 AAAAATTTTAAAATT-TTCTTAAAAAAAT
1 AAAAATTTTAAAATTATTCTTAAAAAAAT
32422142 GAAATTTAAT
Statistics
Matches: 27, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
29 12 0.44
30 15 0.56
ACGTcount: A:0.59, C:0.02, G:0.00, T:0.40
Consensus pattern (30 bp):
AAAAATTTTAAAATTATTCTTAAAAAAATA
Found at i:32422212 original size:22 final size:22
Alignment explanation
Indices: 32422182--32422223 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
32422172 ATTTGGAGAT
*
32422182 TTTTTGAAGGAAATTGAGAGGA
1 TTTTGGAAGGAAATTGAGAGGA
*
32422204 TTTTGGAAGGAATTTGAGAG
1 TTTTGGAAGGAAATTGAGAG
32422224 TTTGAGAGAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.33, C:0.00, G:0.33, T:0.33
Consensus pattern (22 bp):
TTTTGGAAGGAAATTGAGAGGA
Found at i:32422231 original size:30 final size:30
Alignment explanation
Indices: 32422195--32422253 Score: 91
Period size: 30 Copynumber: 2.0 Consensus size: 30
32422185 TTGAAGGAAA
* * *
32422195 TTGAGAGGATTTTGGAAGGAATTTGAGAGT
1 TTGAGAGAATTTTGGAAGAAAATTGAGAGT
32422225 TTGAGAGAATTTTGGAAGAAAATTGAGAG
1 TTGAGAGAATTTTGGAAGAAAATTGAGAG
32422254 AATTTTTGAA
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.36, C:0.00, G:0.34, T:0.31
Consensus pattern (30 bp):
TTGAGAGAATTTTGGAAGAAAATTGAGAGT
Found at i:32422248 original size:52 final size:51
Alignment explanation
Indices: 32422173--32422275 Score: 136
Period size: 52 Copynumber: 2.0 Consensus size: 51
32422163 TTAATATGGA
* * * *
32422173 TTTGGAGATTTTTTGAAGGAAATTGAGAGGATTTTGGAA-GGAATTTGAGAG
1 TTTGGAGAATTTTGGAAGAAAATTGAGAGAATTTTGGAAGGGAA-TTGAGAG
*
32422224 TTTGAGAGAATTTTGGAAGAAAATTGAGAGAATTTTTGAAGGGAATTGAGAG
1 TTTG-GAGAATTTTGGAAGAAAATTGAGAGAATTTTGGAAGGGAATTGAGAG
32422276 AATTTTTGAA
Statistics
Matches: 45, Mismatches: 5, Indels: 3
0.85 0.09 0.06
Matches are distributed among these distances:
51 4 0.09
52 37 0.82
53 4 0.09
ACGTcount: A:0.35, C:0.00, G:0.32, T:0.33
Consensus pattern (51 bp):
TTTGGAGAATTTTGGAAGAAAATTGAGAGAATTTTGGAAGGGAATTGAGAG
Found at i:32422250 original size:22 final size:22
Alignment explanation
Indices: 32422225--32422294 Score: 113
Period size: 22 Copynumber: 3.2 Consensus size: 22
32422215 ATTTGAGAGT
* *
32422225 TTGAGAGAATTTTGGAAGAAAA
1 TTGAGAGAATTTTTGAAGGAAA
*
32422247 TTGAGAGAATTTTTGAAGGGAA
1 TTGAGAGAATTTTTGAAGGAAA
32422269 TTGAGAGAATTTTTGAAGGAAA
1 TTGAGAGAATTTTTGAAGGAAA
32422291 TTGA
1 TTGA
32422295 TATTGAATTT
Statistics
Matches: 44, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
22 44 1.00
ACGTcount: A:0.40, C:0.00, G:0.29, T:0.31
Consensus pattern (22 bp):
TTGAGAGAATTTTTGAAGGAAA
Found at i:32428394 original size:9 final size:9
Alignment explanation
Indices: 32428380--32428404 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
32428370 CCCTTACTTT
32428380 AACTCGATA
1 AACTCGATA
32428389 AACTCGATA
1 AACTCGATA
32428398 AACTCGA
1 AACTCGA
32428405 GTCTACGGAC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.44, C:0.24, G:0.12, T:0.20
Consensus pattern (9 bp):
AACTCGATA
Found at i:32431338 original size:17 final size:17
Alignment explanation
Indices: 32431310--32431344 Score: 54
Period size: 16 Copynumber: 2.1 Consensus size: 17
32431300 TGGTGTCAAG
32431310 AAAAGAGAAATAAAATAA
1 AAAAGAGAAAT-AAATAA
32431328 AAAAGAG-AATAAATAA
1 AAAAGAGAAATAAATAA
32431344 A
1 A
32431345 GAATGGAGAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 7 0.41
17 3 0.18
18 7 0.41
ACGTcount: A:0.77, C:0.00, G:0.11, T:0.11
Consensus pattern (17 bp):
AAAAGAGAAATAAATAA
Found at i:32432579 original size:8 final size:8
Alignment explanation
Indices: 32432548--32432608 Score: 51
Period size: 8 Copynumber: 8.2 Consensus size: 8
32432538 TAAAATGTTT
32432548 AAATAT-A
1 AAATATAA
*
32432555 AAATTTAA
1 AAATATAA
*
32432563 TAA-ATAA
1 AAATATAA
32432570 AAATATAA
1 AAATATAA
*
32432578 AAATAT-T
1 AAATATAA
32432585 AAATAT--
1 AAATATAA
*
32432591 AAATTTAA
1 AAATATAA
32432599 AAATATAA
1 AAATATAA
32432607 AA
1 AA
32432609 TTTTTAAAAA
Statistics
Matches: 43, Mismatches: 7, Indels: 7
0.75 0.12 0.12
Matches are distributed among these distances:
6 5 0.12
7 16 0.37
8 22 0.51
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (8 bp):
AAATATAA
Found at i:32432579 original size:37 final size:36
Alignment explanation
Indices: 32432530--32432629 Score: 107
Period size: 37 Copynumber: 2.7 Consensus size: 36
32432520 GTAAATATTA
*
32432530 AAAAATATT-AAAATGTTTAAATATAAAATTTAATAAAT
1 AAAAATATTAAAAAT-ATTAAATAT-AAATTTAA-AAAT
32432568 AAAAATA-TAAAAATATTAAATATAAATTTAAAAAT
1 AAAAATATTAAAAATATTAAATATAAATTTAAAAAT
* *
32432603 ATAAAATTTTTAAAAA-ATTAAAAATAA
1 A-AAAA-TATTAAAAATATTAAATATAA
32432630 TATATGAAGT
Statistics
Matches: 55, Mismatches: 3, Indels: 9
0.82 0.04 0.13
Matches are distributed among these distances:
35 5 0.09
36 12 0.22
37 20 0.36
38 18 0.33
ACGTcount: A:0.65, C:0.00, G:0.01, T:0.34
Consensus pattern (36 bp):
AAAAATATTAAAAATATTAAATATAAATTTAAAAAT
Found at i:32432589 original size:21 final size:21
Alignment explanation
Indices: 32432548--32432609 Score: 70
Period size: 21 Copynumber: 2.9 Consensus size: 21
32432538 TAAAATGTTT
* *
32432548 AAATATAAAATTTAATAAATAA
1 AAATATAAAA-ATATTAAATAA
*
32432570 AAATATAAAAATATTAAATAT
1 AAATATAAAAATATTAAATAA
* *
32432591 AAATTTAAAAATATAAAAT
1 AAATATAAAAATATTAAAT
32432610 TTTTAAAAAA
Statistics
Matches: 35, Mismatches: 5, Indels: 1
0.85 0.12 0.02
Matches are distributed among these distances:
21 25 0.71
22 10 0.29
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (21 bp):
AAATATAAAAATATTAAATAA
Found at i:32432611 original size:15 final size:15
Alignment explanation
Indices: 32432548--32432608 Score: 63
Period size: 15 Copynumber: 4.1 Consensus size: 15
32432538 TAAAATGTTT
*
32432548 AAATATAAAATTTAA
1 AAATATAAAATATAA
32432563 TAAATA-AAAATATAA
1 -AAATATAAAATATAA
*
32432578 AAATATTAAATATAA
1 AAATATAAAATATAA
**
32432593 ATTTA-AAAATATAA
1 AAATATAAAATATAA
32432607 AA
1 AA
32432609 TTTTTAAAAA
Statistics
Matches: 38, Mismatches: 6, Indels: 4
0.79 0.12 0.08
Matches are distributed among these distances:
14 14 0.37
15 19 0.50
16 5 0.13
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (15 bp):
AAATATAAAATATAA
Found at i:32433349 original size:19 final size:21
Alignment explanation
Indices: 32433308--32433350 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
32433298 TTTAAAAATA
*
32433308 AAAAATTATATAAAAGTAGAT
1 AAAAATGATATAAAAGTAGAT
32433329 AAAAATGATAT-AAAG-AGAT
1 AAAAATGATATAAAAGTAGAT
32433348 AAA
1 AAA
32433351 GTTAGAGAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 7 0.33
20 4 0.19
21 10 0.48
ACGTcount: A:0.65, C:0.00, G:0.12, T:0.23
Consensus pattern (21 bp):
AAAAATGATATAAAAGTAGAT
Found at i:32441808 original size:98 final size:98
Alignment explanation
Indices: 32441639--32441835 Score: 358
Period size: 98 Copynumber: 2.0 Consensus size: 98
32441629 GATAATTACC
*
32441639 CTTAATTTAAATATTTACCATCCTTAGTTAAGAATACCTTTTCGGTCTCATCTTCACTAAGGATT
1 CTTAATTTAAATATTTACCATCCTTAGTTAAGAATACCTTTTCGATCTCATCTTCACTAAGGATT
32441704 ACCACTTAAGATACCCTCTCGGTCTCACCTAGG
66 ACCACTTAAGATACCCTCTCGGTCTCACCTAGG
* *
32441737 CTTAATTTAAGTATTTACCATCCTTAGTTAATAATACCTTTTCGATCTCATCTTCACTAAGGATT
1 CTTAATTTAAATATTTACCATCCTTAGTTAAGAATACCTTTTCGATCTCATCTTCACTAAGGATT
*
32441802 ACCACTTAAGATACCCTTTCGGTCTCACCTAGG
66 ACCACTTAAGATACCCTCTCGGTCTCACCTAGG
32441835 C
1 C
32441836 AAACAAATAC
Statistics
Matches: 95, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
98 95 1.00
ACGTcount: A:0.27, C:0.25, G:0.11, T:0.37
Consensus pattern (98 bp):
CTTAATTTAAATATTTACCATCCTTAGTTAAGAATACCTTTTCGATCTCATCTTCACTAAGGATT
ACCACTTAAGATACCCTCTCGGTCTCACCTAGG
Found at i:32446471 original size:45 final size:45
Alignment explanation
Indices: 32446409--32446494 Score: 145
Period size: 45 Copynumber: 1.9 Consensus size: 45
32446399 TTATATGCCT
* *
32446409 AAAATGAGTAAGACCATAGTTGAAAGATGTTATGACATCATGATA
1 AAAATGAGTAAGACCATAGCTGAAAGATGCTATGACATCATGATA
*
32446454 AAAATGAGTAAGACCATAGCTGAAAGATGCTATGGCATCAT
1 AAAATGAGTAAGACCATAGCTGAAAGATGCTATGACATCAT
32446495 ATGAAAGCAT
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
45 38 1.00
ACGTcount: A:0.43, C:0.12, G:0.21, T:0.24
Consensus pattern (45 bp):
AAAATGAGTAAGACCATAGCTGAAAGATGCTATGACATCATGATA
Found at i:32447876 original size:4 final size:4
Alignment explanation
Indices: 32447867--32447894 Score: 56
Period size: 4 Copynumber: 7.0 Consensus size: 4
32447857 TCTTATATAG
32447867 TTAA TTAA TTAA TTAA TTAA TTAA TTAA
1 TTAA TTAA TTAA TTAA TTAA TTAA TTAA
32447895 AATTAACTTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (4 bp):
TTAA
Found at i:32448317 original size:27 final size:26
Alignment explanation
Indices: 32448283--32448335 Score: 97
Period size: 27 Copynumber: 2.0 Consensus size: 26
32448273 GTTATATAGG
32448283 AAACATCCATTAAAATAGTTTCCCTA
1 AAACATCCATTAAAATAGTTTCCCTA
32448309 AAACTATCCATTAAAATAGTTTCCCTA
1 AAAC-ATCCATTAAAATAGTTTCCCTA
32448336 GTTCGTAATG
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
26 4 0.15
27 22 0.85
ACGTcount: A:0.42, C:0.23, G:0.04, T:0.32
Consensus pattern (26 bp):
AAACATCCATTAAAATAGTTTCCCTA
Found at i:32449689 original size:5 final size:6
Alignment explanation
Indices: 32449675--32449699 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
32449665 CTTGGTTTGC
32449675 TTTTCT TTTTCT TTTTCT TTTTCT T
1 TTTTCT TTTTCT TTTTCT TTTTCT T
32449700 CTACTGGGAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.00, C:0.16, G:0.00, T:0.84
Consensus pattern (6 bp):
TTTTCT
Found at i:32452034 original size:26 final size:26
Alignment explanation
Indices: 32451998--32452051 Score: 108
Period size: 26 Copynumber: 2.1 Consensus size: 26
32451988 GATGACTGTA
32451998 AACCACCACTCGTATGCCCAAATATC
1 AACCACCACTCGTATGCCCAAATATC
32452024 AACCACCACTCGTATGCCCAAATATC
1 AACCACCACTCGTATGCCCAAATATC
32452050 AA
1 AA
32452052 TCATATTAGC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 28 1.00
ACGTcount: A:0.37, C:0.37, G:0.07, T:0.19
Consensus pattern (26 bp):
AACCACCACTCGTATGCCCAAATATC
Found at i:32469904 original size:12 final size:12
Alignment explanation
Indices: 32469884--32469917 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
32469874 TTCATTATTT
32469884 TTATGTTTTTCC
1 TTATGTTTTTCC
* *
32469896 TTGTGTTTTTCT
1 TTATGTTTTTCC
32469908 TTATGTTTTT
1 TTATGTTTTT
32469918 ATTTGCGAAC
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.06, C:0.09, G:0.12, T:0.74
Consensus pattern (12 bp):
TTATGTTTTTCC
Found at i:32472392 original size:35 final size:35
Alignment explanation
Indices: 32472325--32472483 Score: 115
Period size: 35 Copynumber: 4.5 Consensus size: 35
32472315 CCTTTTTGAG
* * * *
32472325 GTGTCGCCCCAAAAGACCTATATAATGTTTACACC
1 GTGTCGCCCCGAAGGACCTATATATTATTTACACC
*
32472360 GTGTCGCCCCGAAGGACCTATATATTAATTACA-C
1 GTGTCGCCCCGAAGGACCTATATATTATTTACACC
** * * * **
32472394 G-GTACTATCTCAAAGGACCTATATATTGTTTACATG
1 GTGT-C-GCCCCGAAGGACCTATATATTATTTACACC
* * * * * *
32472430 GTATCGCCCCGAATGACTTATATGTCATTTACACG
1 GTGTCGCCCCGAAGGACCTATATATTATTTACACC
*
32472465 GTGTTGCCCCGAAGGACCT
1 GTGTCGCCCCGAAGGACCT
32472484 GTTGATAATC
Statistics
Matches: 93, Mismatches: 27, Indels: 8
0.73 0.21 0.06
Matches are distributed among these distances:
33 2 0.02
34 3 0.03
35 85 0.91
36 2 0.02
37 1 0.01
ACGTcount: A:0.28, C:0.25, G:0.18, T:0.29
Consensus pattern (35 bp):
GTGTCGCCCCGAAGGACCTATATATTATTTACACC
Found at i:32472452 original size:70 final size:70
Alignment explanation
Indices: 32472334--32472466 Score: 176
Period size: 70 Copynumber: 1.9 Consensus size: 70
32472324 GGTGTCGCCC
* *
32472334 CAAAAGACCTATATAATGTTTACACCGTGTCGCCCCGAAGGACCTATATATTAATTACACGGTAC
1 CAAAAGACCTATATAATGTTTACACCGTATCGCCCCGAAGGACCTATATATCAATTACACGGTAC
32472399 TATCT
66 TATCT
* * ** * * * *
32472404 CAAAGGACCTATATATTGTTTACATGGTATCGCCCCGAATGACTTATATGTCATTTACACGGT
1 CAAAAGACCTATATAATGTTTACACCGTATCGCCCCGAAGGACCTATATATCAATTACACGGT
32472467 GTTGCCCCGA
Statistics
Matches: 53, Mismatches: 10, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
70 53 1.00
ACGTcount: A:0.31, C:0.23, G:0.16, T:0.31
Consensus pattern (70 bp):
CAAAAGACCTATATAATGTTTACACCGTATCGCCCCGAAGGACCTATATATCAATTACACGGTAC
TATCT
Found at i:32472480 original size:70 final size:70
Alignment explanation
Indices: 32472324--32472483 Score: 167
Period size: 70 Copynumber: 2.3 Consensus size: 70
32472314 CCCTTTTTGA
* * * *
32472324 GGTGTCGCCCCAAAAGACCTATATAATGTTTACACCGTGTCGCCCCGAAGGACCTATATATTAAT
1 GGTGTTGCCCCAAAGGACCTATATAATGTTTACACCGTATCGCCCCGAAGGACCTATATATCAAT
32472389 TACAC
66 TACAC
** ** * * ** * * * *
32472394 GGTACTATCTCAAAGGACCTATATATTGTTTACATGGTATCGCCCCGAATGACTTATATGTCATT
1 GGTGTTGCCCCAAAGGACCTATATAATGTTTACACCGTATCGCCCCGAAGGACCTATATATCAAT
32472459 TACAC
66 TACAC
*
32472464 GGTGTTGCCCCGAAGGACCT
1 GGTGTTGCCCCAAAGGACCT
32472484 GTTGATAATC
Statistics
Matches: 68, Mismatches: 22, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
70 68 1.00
ACGTcount: A:0.28, C:0.25, G:0.19, T:0.29
Consensus pattern (70 bp):
GGTGTTGCCCCAAAGGACCTATATAATGTTTACACCGTATCGCCCCGAAGGACCTATATATCAAT
TACAC
Found at i:32478139 original size:28 final size:29
Alignment explanation
Indices: 32478095--32478161 Score: 102
Period size: 28 Copynumber: 2.3 Consensus size: 29
32478085 ACATCCTTCA
32478095 TTCTCTTTTCCTTTTTTC-CTTTTTCTTGC
1 TTCTCTTTTCCTTTTTTCTC-TTTTCTTGC
*
32478124 TTCTCTTTTCC-TTTTTCTCTTTTCTTTC
1 TTCTCTTTTCCTTTTTTCTCTTTTCTTGC
32478152 TTCTCTTTTC
1 TTCTCTTTTC
32478162 TTTCATCCCA
Statistics
Matches: 36, Mismatches: 1, Indels: 3
0.90 0.03 0.08
Matches are distributed among these distances:
28 24 0.67
29 12 0.33
ACGTcount: A:0.00, C:0.28, G:0.01, T:0.70
Consensus pattern (29 bp):
TTCTCTTTTCCTTTTTTCTCTTTTCTTGC
Found at i:32478147 original size:7 final size:7
Alignment explanation
Indices: 32478095--32478162 Score: 54
Period size: 7 Copynumber: 9.6 Consensus size: 7
32478085 ACATCCTTCA
32478095 TTCTCTT
1 TTCTCTT
32478102 TTC-CTT
1 TTCTCTT
*
32478108 TTTTCCTT
1 TTCT-CTT
32478116 TT-TCTT
1 TTCTCTT
32478122 GCTTCTCTT
1 --TTCTCTT
32478131 TTC-CTTT
1 TTCTC-TT
32478138 TTCTCTT
1 TTCTCTT
32478145 TTCT-TT
1 TTCTCTT
32478151 CTTCTCTT
1 -TTCTCTT
32478159 TTCT
1 TTCT
32478163 TTCATCCCAC
Statistics
Matches: 51, Mismatches: 1, Indels: 18
0.73 0.01 0.26
Matches are distributed among these distances:
6 11 0.22
7 26 0.51
8 10 0.20
9 4 0.08
ACGTcount: A:0.00, C:0.28, G:0.01, T:0.71
Consensus pattern (7 bp):
TTCTCTT
Found at i:32478164 original size:14 final size:14
Alignment explanation
Indices: 32478095--32478165 Score: 83
Period size: 14 Copynumber: 5.0 Consensus size: 14
32478085 ACATCCTTCA
*
32478095 TTCTCTTTTCCTTTT
1 TTCTCTTTT-CTTTC
*
32478110 TTC-CTTTTTCTTGC
1 TTCTC-TTTTCTTTC
32478124 TTCTCTTTTCCTTT-
1 TTCTCTTTT-CTTTC
32478138 TTCTCTTTTCTTTC
1 TTCTCTTTTCTTTC
32478152 TTCTCTTTTCTTTC
1 TTCTCTTTTCTTTC
32478166 ATCCCACCTG
Statistics
Matches: 49, Mismatches: 3, Indels: 9
0.80 0.05 0.15
Matches are distributed among these distances:
13 4 0.08
14 34 0.69
15 11 0.22
ACGTcount: A:0.00, C:0.28, G:0.01, T:0.70
Consensus pattern (14 bp):
TTCTCTTTTCTTTC
Found at i:32494572 original size:19 final size:19
Alignment explanation
Indices: 32494548--32494588 Score: 82
Period size: 19 Copynumber: 2.2 Consensus size: 19
32494538 AATTCCCTAG
32494548 GAAATTTTGTGTTGAAAAT
1 GAAATTTTGTGTTGAAAAT
32494567 GAAATTTTGTGTTGAAAAT
1 GAAATTTTGTGTTGAAAAT
32494586 GAA
1 GAA
32494589 TAATTGCCTA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.39, C:0.00, G:0.22, T:0.39
Consensus pattern (19 bp):
GAAATTTTGTGTTGAAAAT
Found at i:32504379 original size:21 final size:21
Alignment explanation
Indices: 32504352--32504400 Score: 89
Period size: 21 Copynumber: 2.3 Consensus size: 21
32504342 CATGGAAGTC
32504352 CCATAACCATTGAGTCAAAAT
1 CCATAACCATTGAGTCAAAAT
*
32504373 TCATAACCATTGAGTCAAAAT
1 CCATAACCATTGAGTCAAAAT
32504394 CCATAAC
1 CCATAAC
32504401 TTGTATAGTG
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.43, C:0.24, G:0.08, T:0.24
Consensus pattern (21 bp):
CCATAACCATTGAGTCAAAAT
Found at i:32508759 original size:89 final size:87
Alignment explanation
Indices: 32508658--32508852 Score: 205
Period size: 89 Copynumber: 2.2 Consensus size: 87
32508648 AAAATTGGTG
* * * * * *
32508658 TATTAATAGCATATTTGTTGTATATTGAATATTTGGCCATAAT-AGAAATGTCTTGAATTTAAAT
1 TATTAATGGCATATTAGGTGTAAATTGAATATTTGACCATAATGAAAAATGTCTTGAATTT-AAT
*
32508722 GGCTTGTGTTTATGGGAAATTGCTA
65 GGCTTATGTTTAT-GG-AATTGCTA
* * * * * *
32508747 TATTGATGGCATATGAGGTGTAAATTGAATATTTGATCATGATGGAAAAAATGTCTTTAATTTGA
1 TATTAATGGCATATTAGGTGTAAATTGAATATTTGACCATAAT-G-AAAAATGTCTTGAATTTAA
*
32508812 TGGCTTATGTTTATGGAATTGGTA
64 TGGCTTATGTTTATGGAATTGCTA
32508836 TATTAATGGC-TATTAGG
1 TATTAATGGCATATTAGG
32508853 AGTATACTGA
Statistics
Matches: 87, Mismatches: 16, Indels: 7
0.79 0.15 0.06
Matches are distributed among these distances:
88 6 0.07
89 50 0.57
90 2 0.02
91 14 0.16
92 15 0.17
ACGTcount: A:0.31, C:0.06, G:0.22, T:0.42
Consensus pattern (87 bp):
TATTAATGGCATATTAGGTGTAAATTGAATATTTGACCATAATGAAAAATGTCTTGAATTTAATG
GCTTATGTTTATGGAATTGCTA
Found at i:32510825 original size:12 final size:12
Alignment explanation
Indices: 32510808--32510832 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
32510798 TTACGGAGCG
32510808 AGAAGAAAGAGA
1 AGAAGAAAGAGA
32510820 AGAAGAAAGAGA
1 AGAAGAAAGAGA
32510832 A
1 A
32510833 TGGTATGCTA
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:0.68, C:0.00, G:0.32, T:0.00
Consensus pattern (12 bp):
AGAAGAAAGAGA
Found at i:32511065 original size:27 final size:28
Alignment explanation
Indices: 32511035--32511138 Score: 102
Period size: 32 Copynumber: 3.5 Consensus size: 28
32511025 TGTCTTGAAT
32511035 TTGTTAGATATTG-ATTATGTTTTAAGC
1 TTGTTAGATATTGTATTATGTTTTAAGC
32511062 TTGTTAGATATTGAATTTATTATGTTTTAAGC
1 TTGTTAGATATTG----TATTATGTTTTAAGC
* *
32511094 ATGTTGGATATTGAATTTATTATGTTTTAAGC
1 TTGTTAGATATTG----TATTATGTTTTAAGC
*
32511126 TTGTTGGATATTG
1 TTGTTAGATATTG
32511139 AAATTATTGA
Statistics
Matches: 69, Mismatches: 3, Indels: 5
0.90 0.04 0.06
Matches are distributed among these distances:
27 13 0.19
32 56 0.81
ACGTcount: A:0.26, C:0.03, G:0.19, T:0.52
Consensus pattern (28 bp):
TTGTTAGATATTGTATTATGTTTTAAGC
Found at i:32511087 original size:32 final size:32
Alignment explanation
Indices: 32511048--32511146 Score: 171
Period size: 32 Copynumber: 3.1 Consensus size: 32
32511038 TTAGATATTG
*
32511048 ATTATGTTTTAAGCTTGTTAGATATTGAATTT
1 ATTATGTTTTAAGCTTGTTGGATATTGAATTT
*
32511080 ATTATGTTTTAAGCATGTTGGATATTGAATTT
1 ATTATGTTTTAAGCTTGTTGGATATTGAATTT
*
32511112 ATTATGTTTTAAGCTTGTTGGATATTGAAATT
1 ATTATGTTTTAAGCTTGTTGGATATTGAATTT
32511144 ATT
1 ATT
32511147 GACAATGACA
Statistics
Matches: 63, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
32 63 1.00
ACGTcount: A:0.28, C:0.03, G:0.17, T:0.52
Consensus pattern (32 bp):
ATTATGTTTTAAGCTTGTTGGATATTGAATTT
Found at i:32512398 original size:16 final size:16
Alignment explanation
Indices: 32512378--32512414 Score: 60
Period size: 16 Copynumber: 2.4 Consensus size: 16
32512368 AACAATTTAA
32512378 AATATA-AT-TTTATT
1 AATATATATATTTATT
32512392 AATATATATATTTATT
1 AATATATATATTTATT
32512408 AATATAT
1 AATATAT
32512415 GTAAAAATAG
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
14 6 0.29
15 2 0.10
16 13 0.62
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (16 bp):
AATATATATATTTATT
Found at i:32512538 original size:20 final size:20
Alignment explanation
Indices: 32512495--32512540 Score: 76
Period size: 19 Copynumber: 2.4 Consensus size: 20
32512485 CATCCAAACA
*
32512495 CCAAAAAAGTAAATCATTTT
1 CCAAAAAAGTAAACCATTTT
32512515 -CAAAAAAGTAAACCATTTT
1 CCAAAAAAGTAAACCATTTT
32512534 CCAAAAA
1 CCAAAAA
32512541 TCATTTTCCA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
19 18 0.75
20 6 0.25
ACGTcount: A:0.54, C:0.17, G:0.04, T:0.24
Consensus pattern (20 bp):
CCAAAAAAGTAAACCATTTT
Found at i:32512561 original size:14 final size:14
Alignment explanation
Indices: 32512528--32512554 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
32512518 AAAAGTAAAC
32512528 CATTTTCCAAAAAT
1 CATTTTCCAAAAAT
32512542 CATTTTCCAAAAA
1 CATTTTCCAAAAA
32512555 ATATTTTACT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.44, C:0.22, G:0.00, T:0.33
Consensus pattern (14 bp):
CATTTTCCAAAAAT
Found at i:32515299 original size:25 final size:25
Alignment explanation
Indices: 32515250--32515302 Score: 65
Period size: 25 Copynumber: 2.1 Consensus size: 25
32515240 TTTATGTGTT
*
32515250 TATTTTTTAATTTTATTAAATAATA
1 TATTTTTTAATTTTATTAAAAAATA
32515275 TATTTTTATAA-TTT-TTAAGAAAATA
1 TATTTTT-TAATTTTATTAA-AAAATA
32515300 TAT
1 TAT
32515303 ATTTGCTGAT
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
24 4 0.16
25 18 0.72
26 3 0.12
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.57
Consensus pattern (25 bp):
TATTTTTTAATTTTATTAAAAAATA
Found at i:32520666 original size:23 final size:23
Alignment explanation
Indices: 32520599--32520668 Score: 79
Period size: 23 Copynumber: 3.0 Consensus size: 23
32520589 TTCGTTTAAG
*
32520599 TTAAATGAACTTGTTTGTGAACA
1 TTAAATGAACATGTTTGTGAACA
* *
32520622 TTAAA-CAATCATGTTTGCGAACA
1 TTAAATGAA-CATGTTTGTGAACA
**
32520645 TTAAATGAACATGTTCATGAACA
1 TTAAATGAACATGTTTGTGAACA
32520668 T
1 T
32520669 ATAGTTGACC
Statistics
Matches: 38, Mismatches: 7, Indels: 4
0.78 0.14 0.08
Matches are distributed among these distances:
22 2 0.05
23 34 0.89
24 2 0.05
ACGTcount: A:0.39, C:0.13, G:0.14, T:0.34
Consensus pattern (23 bp):
TTAAATGAACATGTTTGTGAACA
Found at i:32542344 original size:46 final size:46
Alignment explanation
Indices: 32542277--32542550 Score: 213
Period size: 46 Copynumber: 6.3 Consensus size: 46
32542267 ATTATACAGG
*
32542277 TCTTATCTCCCTGAGATTACAGTGGAGCAGACCGAAGAATTGCAGA
1 TCTTATCTCCCTGAGATTACAGTGGAGCAGATCGAAGAATTGCAGA
* * * * *
32542323 TCTTATCTCCCTAAGATTACAGCGGAGCAGATCAAAG-ATGGTA-A
1 TCTTATCTCCCTGAGATTACAGTGGAGCAGATCGAAGAATTGCAGA
* * ** *
32542367 TCCTATCTCCTTGAGATTACAGTGGAGTGGAT--TA-AA--G--GA
1 TCTTATCTCCCTGAGATTACAGTGGAGCAGATCGAAGAATTGCAGA
* * ** * *
32542406 TCTTATCTCTCTGA-AGTTACAGTAGAGTGGATC---GTA-T-CAGG
1 TCTTATCTCCCTGAGA-TTACAGTGGAGCAGATCGAAGAATTGCAGA
*
32542447 TCTTATCTCCCTGAGATTACAGTGGAGCAGACCGAAGAATTGCAGA
1 TCTTATCTCCCTGAGATTACAGTGGAGCAGATCGAAGAATTGCAGA
* * * * *
32542493 TCTTATCTCCCTTAGATTACAGCGGAGCAGATCAAAG-ATAGTA-A
1 TCTTATCTCCCTGAGATTACAGTGGAGCAGATCGAAGAATTGCAGA
32542537 TCTTATCTCCCTGA
1 TCTTATCTCCCTGA
32542551 AGTTGCAGCA
Statistics
Matches: 181, Mismatches: 33, Indels: 30
0.74 0.14 0.12
Matches are distributed among these distances:
38 1 0.01
39 28 0.15
40 1 0.01
41 27 0.15
42 3 0.02
44 43 0.24
45 9 0.05
46 69 0.38
ACGTcount: A:0.30, C:0.20, G:0.22, T:0.28
Consensus pattern (46 bp):
TCTTATCTCCCTGAGATTACAGTGGAGCAGATCGAAGAATTGCAGA
Found at i:32542426 original size:39 final size:40
Alignment explanation
Indices: 32542370--32542473 Score: 124
Period size: 41 Copynumber: 2.6 Consensus size: 40
32542360 ATGGTAATCC
*
32542370 TATCTCCTTGAGATTACAGTGGAGTGGAT-TA-AAGGATCT
1 TATCTCCCTGAGATTACAGTGGAGTGGATCTATAAGG-TCT
* * *
32542409 TATCTCTCTGA-AGTTACAGTAGAGTGGATCGTATCAGGTCT
1 TATCTCCCTGAGA-TTACAGTGGAGTGGATC-TATAAGGTCT
32542450 TATCTCCCTGAGATTACAGTGGAG
1 TATCTCCCTGAGATTACAGTGGAG
32542474 CAGACCGAAG
Statistics
Matches: 54, Mismatches: 6, Indels: 8
0.79 0.09 0.12
Matches are distributed among these distances:
38 1 0.02
39 24 0.44
41 25 0.46
42 4 0.07
ACGTcount: A:0.26, C:0.16, G:0.25, T:0.33
Consensus pattern (40 bp):
TATCTCCCTGAGATTACAGTGGAGTGGATCTATAAGGTCT
Found at i:32542467 original size:41 final size:39
Alignment explanation
Indices: 32542370--32542469 Score: 114
Period size: 39 Copynumber: 2.5 Consensus size: 39
32542360 ATGGTAATCC
* *
32542370 TATCTCCTTGAGATTACAGTGGAGTGGATTAAAGGATCT
1 TATCTCCCTGAGATTACAGTAGAGTGGATTAAAGGATCT
* *
32542409 TATCTCTCTGA-AGTTACAGTAGAGTGGATCGTATCAGG-TCT
1 TATCTCCCTGAGA-TTACAGTAGAGTGGAT--TA-AAGGATCT
32542450 TATCTCCCTGAGATTACAGT
1 TATCTCCCTGAGATTACAGT
32542470 GGAGCAGACC
Statistics
Matches: 51, Mismatches: 5, Indels: 8
0.80 0.08 0.12
Matches are distributed among these distances:
38 1 0.02
39 24 0.47
41 22 0.43
42 4 0.08
ACGTcount: A:0.26, C:0.17, G:0.23, T:0.34
Consensus pattern (39 bp):
TATCTCCCTGAGATTACAGTAGAGTGGATTAAAGGATCT
Found at i:32542571 original size:170 final size:173
Alignment explanation
Indices: 32542273--32542633 Score: 559
Period size: 170 Copynumber: 2.1 Consensus size: 173
32542263 GTTCATTATA
32542273 CAGGTCTTATCTCCCTGAGATTACAGTGGAGCAGACCGAAGAATTGCAGATCTTATCTCCCTAAG
1 CAGGTCTTATCTCCCTGAGATTACAGTGGAGCAGACCGAAGAATTGCAGATCTTATCTCCCTAAG
* * ** *
32542338 ATTACAGCGGAGCAGATCAAAGATGGTAATCCTATCTCCTTGAGATTACAGTGGAGTGGATT-AA
66 ATTACAGCGGAGCAGATCAAAGATAGTAATCCTATCTCCCTGAGATTACAGCAGAGCGGATTAAA
*
32542402 -A-GGATCTTATCTCTCTGAAGTTACAGTAGAGTGGATCGTAT
131 CACAGATCTTATCTCTCTGAAGTTACAGTAGAGTGGATCGTAT
*
32542443 CAGGTCTTATCTCCCTGAGATTACAGTGGAGCAGACCGAAGAATTGCAGATCTTATCTCCCTTAG
1 CAGGTCTTATCTCCCTGAGATTACAGTGGAGCAGACCGAAGAATTGCAGATCTTATCTCCCTAAG
* *
32542508 ATTACAGCGGAGCAGATCAAAGATAGTAATCTTATCTCCCTGA-AGTTGCAGCAGAGCGGATTAA
66 ATTACAGCGGAGCAGATCAAAGATAGTAATCCTATCTCCCTGAGA-TTACAGCAGAGCGGATT-A
32542572 AACCACAGATCTTATCTCTCTGAAGTTACAGTAGAGTGGATCGTAT
129 AA-CACAGATCTTATCTCTCTGAAGTTACAGTAGAGTGGATCGTAT
* * *
32542618 CATGCCTTATATCCCT
1 CAGGTCTTATCTCCCT
32542634 AATGTTGCAG
Statistics
Matches: 173, Mismatches: 12, Indels: 7
0.90 0.06 0.04
Matches are distributed among these distances:
169 1 0.01
170 117 0.68
172 2 0.01
174 1 0.01
175 52 0.30
ACGTcount: A:0.29, C:0.21, G:0.22, T:0.28
Consensus pattern (173 bp):
CAGGTCTTATCTCCCTGAGATTACAGTGGAGCAGACCGAAGAATTGCAGATCTTATCTCCCTAAG
ATTACAGCGGAGCAGATCAAAGATAGTAATCCTATCTCCCTGAGATTACAGCAGAGCGGATTAAA
CACAGATCTTATCTCTCTGAAGTTACAGTAGAGTGGATCGTAT
Found at i:32544117 original size:3 final size:3
Alignment explanation
Indices: 32544111--32544144 Score: 68
Period size: 3 Copynumber: 11.3 Consensus size: 3
32544101 AGCATTTTCT
32544111 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
32544145 AATATAATTG
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:32550113 original size:23 final size:24
Alignment explanation
Indices: 32550078--32550135 Score: 70
Period size: 24 Copynumber: 2.5 Consensus size: 24
32550068 TTATTTTGAC
*
32550078 TTTTTAGAA-TTTA-AAAATAT-A
1 TTTTTAGAATTTTATAAAAAATCA
32550099 TATTTTAGAATTTTATAAAAAATCA
1 T-TTTTAGAATTTTATAAAAAATCA
32550124 TTTTTA-AATTTT
1 TTTTTAGAATTTT
32550136 TATATATAAT
Statistics
Matches: 32, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
21 1 0.03
22 8 0.25
23 10 0.31
24 11 0.34
25 2 0.06
ACGTcount: A:0.43, C:0.02, G:0.03, T:0.52
Consensus pattern (24 bp):
TTTTTAGAATTTTATAAAAAATCA
Found at i:32550257 original size:7 final size:7
Alignment explanation
Indices: 32550236--32550289 Score: 53
Period size: 7 Copynumber: 7.9 Consensus size: 7
32550226 CAAAAATATT
32550236 TTTAATA
1 TTTAATA
32550243 TTTAAATA
1 TTT-AATA
32550251 TTTAATA
1 TTTAATA
32550258 TTATAAT-
1 TT-TAATA
32550265 TTTAA-A
1 TTTAATA
32550271 TTTTAA-A
1 -TTTAATA
32550278 TTTAA-A
1 TTTAATA
32550284 TTTAAT
1 TTTAAT
32550290 GTTTTTATTT
Statistics
Matches: 42, Mismatches: 0, Indels: 10
0.81 0.00 0.19
Matches are distributed among these distances:
6 14 0.33
7 17 0.40
8 11 0.26
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (7 bp):
TTTAATA
Found at i:32552065 original size:17 final size:17
Alignment explanation
Indices: 32552023--32552059 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 17
32552013 AAGGTGATTC
*
32552023 TTTCATTTTCATTTTCT
1 TTTCCTTTTCATTTTCT
*
32552040 TTTCCTTTTCCTTTTCT
1 TTTCCTTTTCATTTTCT
32552057 TTT
1 TTT
32552060 TGTTTTTTAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.05, C:0.22, G:0.00, T:0.73
Consensus pattern (17 bp):
TTTCCTTTTCATTTTCT
Found at i:32552718 original size:21 final size:21
Alignment explanation
Indices: 32552694--32552733 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
32552684 TATTAAATTG
32552694 ATTAATTTTAATAGTATTACC
1 ATTAATTTTAATAGTATTACC
* * *
32552715 ATTATTTTTACTATTATTA
1 ATTAATTTTAATAGTATTA
32552734 TTATTATTAT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.35, C:0.07, G:0.03, T:0.55
Consensus pattern (21 bp):
ATTAATTTTAATAGTATTACC
Found at i:32552734 original size:3 final size:3
Alignment explanation
Indices: 32552715--32552954 Score: 189
Period size: 3 Copynumber: 80.0 Consensus size: 3
32552705 TAGTATTACC
* *
32552715 ATT ATT TTT ACT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
* * * * * *
32552763 AAT ATT ACT ATT ACT ATT ATT -GT ATTT ATT TTT ATT ACTT ACT -TT
1 ATT ATT ATT ATT ATT ATT ATT ATT A-TT ATT ATT ATT A-TT ATT ATT
* * * * * *
32552808 ATT ATT ATT GTT ATC ATT ATT ATA ATT AAT ATT AAT ATT AAT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
* * * * *
32552856 ATT GTT ATT ATT ACT ATT ACT ATT ACTT -TT ATT ATT ACT AAT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT A-TT ATT ATT ATT ATT ATT ATT
* * ** ** * *
32552901 ATT ATT TTT ATT TTT ACC ACA ATT ATT AAT ATT AAT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
32552949 ATT ATT
1 ATT ATT
32552955 TTTAAATTGT
Statistics
Matches: 181, Mismatches: 50, Indels: 12
0.74 0.21 0.05
Matches are distributed among these distances:
2 4 0.02
3 170 0.94
4 7 0.04
ACGTcount: A:0.33, C:0.05, G:0.01, T:0.60
Consensus pattern (3 bp):
ATT
Found at i:32553110 original size:17 final size:17
Alignment explanation
Indices: 32553066--32553113 Score: 53
Period size: 17 Copynumber: 2.8 Consensus size: 17
32553056 TTAATTAGTT
*
32553066 TTTTTATTTTTATTTTA
1 TTTTTATTCTTATTTTA
* *
32553083 TTATTCA-TCTTATTTTG
1 TT-TTTATTCTTATTTTA
32553100 TTTTTATTCTTATT
1 TTTTTATTCTTATT
32553114 ATTCCTTTTT
Statistics
Matches: 25, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
16 3 0.12
17 19 0.76
18 3 0.12
ACGTcount: A:0.17, C:0.06, G:0.02, T:0.75
Consensus pattern (17 bp):
TTTTTATTCTTATTTTA
Found at i:32558338 original size:19 final size:19
Alignment explanation
Indices: 32558314--32558351 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
32558304 TCATCCAGTG
32558314 CAGAGAATCCATTATCTAA
1 CAGAGAATCCATTATCTAA
32558333 CAGAGAATCCATTATCTAA
1 CAGAGAATCCATTATCTAA
32558352 TCATAGTGAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.42, C:0.21, G:0.11, T:0.26
Consensus pattern (19 bp):
CAGAGAATCCATTATCTAA
Found at i:32565291 original size:44 final size:44
Alignment explanation
Indices: 32565234--32565652 Score: 207
Period size: 44 Copynumber: 9.5 Consensus size: 44
32565224 CTTATATCCT
* *
32565234 TGAAGTTACAGTGGAGCAGATTAAAGTCAATCATCCTATCTCCC
1 TGAAGTTGCAGTGGAGCAGATTAAAGTAAATCATCCTATCTCCC
* *
32565278 TGAAGTTGTAGTGGAGCGGATTAAAGTTACAAGTC-T--TATCTCCC
1 TGAAGTTGCAGTGGAGCAGATTAAAG-TA-AA-TCATCCTATCTCCC
* * * * *
32565322 TGAGGTTGCAGTAGAGCAGATTGAAG-AAAGCAAGTCTTATC-CCTC
1 TGAAGTTGCAGTGGAGCAGATTAAAGTAAATC-A-TCCTATCTCC-C
* * * * * *
32565367 TGAAGTTGCAGTGG-GACAAACTGAAGT-AACCAGCCTTATCTCTC
1 TGAAGTTGCAGTGGAG-CAGATTAAAGTAAATCATCC-TATCTCCC
* * *** **
32565411 TGAAGTTGCAGTGGAGCAGACTGAAG-ATGGCGAATTTTATCTCCC
1 TGAAGTTGCAGTGGAGCAGATTAAAGTAAATC--ATCCTATCTCCC
** * ** *
32565456 TGAAGTTGCAGTAAAGCGGATTAAAGT-TGTAAGTCCTATCTCCC
1 TGAAGTTGCAGTGGAGCAGATTAAAGTAAATCA-TCCTATCTCCC
* * * * * *
32565500 TGAAGGTACAGTGGAGCAGACTGAAG-AAAGCAAATCTTATCTCCC
1 TGAAGTTGCAGTGGAGCAGATTAAAGTAAATC--ATCCTATCTCCC
* * * *
32565545 TGAAGTTGTAGTAGAGCAGATTGAAG-AAACCAATCCTATCTCCC
1 TGAAGTTGCAGTGGAGCAGATTAAAGTAAATC-ATCCTATCTCCC
* * * * *
32565589 TGAAGTTGCAGTGGAGCGGATTAAA-T-GATGGATCTTATCTCTC
1 TGAAGTTGCAGTGGAGCAGATTAAAGTAAAT-CATCCTATCTCCC
* *
32565632 TGAAGTTGCAGTAGAGTAGAT
1 TGAAGTTGCAGTGGAGCAGAT
32565653 CACATCAGAC
Statistics
Matches: 285, Mismatches: 66, Indels: 49
0.71 0.17 0.12
Matches are distributed among these distances:
40 1 0.00
41 2 0.01
42 1 0.00
43 32 0.11
44 146 0.51
45 96 0.34
46 5 0.02
47 2 0.01
ACGTcount: A:0.30, C:0.18, G:0.25, T:0.27
Consensus pattern (44 bp):
TGAAGTTGCAGTGGAGCAGATTAAAGTAAATCATCCTATCTCCC
Found at i:32565476 original size:178 final size:176
Alignment explanation
Indices: 32565234--32565644 Score: 456
Period size: 178 Copynumber: 2.3 Consensus size: 176
32565224 CTTATATCCT
* * * * * * **
32565234 TGAAGTTACAGTGGAGCAGATTAAAGTCAAT-CATCCTATCTCCCTGAAGTTGTAGTGGAGCGGA
1 TGAAGTTGCAGTGGAGCAGACTAAA-T-GATGGATCTTATCTCCCTGAAGTTGCAGTAAAGCGGA
* * * *
32565298 TTAAAGTTACAAGTCTTATCTCCCTG-AGGTTGCAGTAGAGCAGATTGAAGAAAGCAAGTCTTAT
64 TTAAAGTTACAAGTCCTATCTCCCTGAAGG-TACAGTAGAGCAGACTGAAGAAAGCAAATCTTAT
* * *
32565362 C-CCTCTGAAGTTGCAGT-GGGACAAACTGAAGTAACC-AGCCTTATCTCTC
128 CTCC-CTGAAGTTGCAGTAGAG-CAAACTGAAGAAACCAAGCC-TATCTCCC
* *
32565411 TGAAGTTGCAGTGGAGCAGACTGAA-GATGGCGAATTTTATCTCCCTGAAGTTGCAGTAAAGCGG
1 TGAAGTTGCAGTGGAGCAGACTAAATGAT-G-G-ATCTTATCTCCCTGAAGTTGCAGTAAAGCGG
** *
32565475 ATTAAAGTTGTAAGTCCTATCTCCCTGAAGGTACAGTGGAGCAGACTGAAGAAAGCAAATCTTAT
63 ATTAAAGTTACAAGTCCTATCTCCCTGAAGGTACAGTAGAGCAGACTGAAGAAAGCAAATCTTAT
* * * *
32565540 CTCCCTGAAGTTGTAGTAGAGCAGATTGAAGAAACCAATCCTATCTCCC
128 CTCCCTGAAGTTGCAGTAGAGCAAACTGAAGAAACCAAGCCTATCTCCC
* * *
32565589 TGAAGTTGCAGTGGAGCGGATTAAATGATGGATCTTATCTCTCTGAAGTTGCAGTA
1 TGAAGTTGCAGTGGAGCAGACTAAATGATGGATCTTATCTCCCTGAAGTTGCAGTA
32565645 GAGTAGATCA
Statistics
Matches: 196, Mismatches: 29, Indels: 19
0.80 0.12 0.08
Matches are distributed among these distances:
174 2 0.01
176 23 0.12
177 23 0.12
178 135 0.69
179 13 0.07
ACGTcount: A:0.30, C:0.18, G:0.24, T:0.27
Consensus pattern (176 bp):
TGAAGTTGCAGTGGAGCAGACTAAATGATGGATCTTATCTCCCTGAAGTTGCAGTAAAGCGGATT
AAAGTTACAAGTCCTATCTCCCTGAAGGTACAGTAGAGCAGACTGAAGAAAGCAAATCTTATCTC
CCTGAAGTTGCAGTAGAGCAAACTGAAGAAACCAAGCCTATCTCCC
Found at i:32565496 original size:89 final size:88
Alignment explanation
Indices: 32565270--32565644 Score: 280
Period size: 89 Copynumber: 4.2 Consensus size: 88
32565260 TCAATCATCC
* ** * ** * *
32565270 TATCTCCCTGAAGTTGTAGTGGAGCGGATTAAAGTTA-CAAGTCTTATCTCCCTGAGGTTGCAGT
1 TATCTCCCTGAAGTTGCAGTAAAGCAGATTAAAGAAACCAA-TCCTATCTCCCTGAAGTTGCAGT
* * *
32565334 AGAGCAGATTGAAGAAAGC-AAGTCT
65 GGAGCAGACTGAAG-ATGCGAA-TCT
** * * * * * *
32565359 TATC-CCTCTGAAGTTGCAGT-GGGACAAACTGAAGTAACC-AGCCTTATCTCTCTGAAGTTGCA
1 TATCTCC-CTGAAGTTGCAGTAAAG-CAGATTAAAGAAACCAATCC-TATCTCCCTGAAGTTGCA
*
32565421 GTGGAGCAGACTGAAGATGGCGAATTT
63 GTGGAGCAGACTGAAGAT-GCGAATCT
* **** * *
32565448 TATCTCCCTGAAGTTGCAGTAAAGCGGATTAAAG-TTGTAAGTCCTATCTCCCTGAAGGTACAGT
1 TATCTCCCTGAAGTTGCAGTAAAGCAGATTAAAGAAACCAA-TCCTATCTCCCTGAAGTTGCAGT
* *
32565512 GGAGCAGACTGAAGAAAGCAAATCT
65 GGAGCAGACTGAAG-ATGCGAATCT
* * *
32565537 TATCTCCCTGAAGTTGTAGTAGAGCAGATTGAAGAAACCAATCCTATCTCCCTGAAGTTGCAGTG
1 TATCTCCCTGAAGTTGCAGTAAAGCAGATTAAAGAAACCAATCCTATCTCCCTGAAGTTGCAGTG
* * *
32565602 GAGCGGATTAAATGATG-G-ATCT
66 GAGCAGACTGAA-GATGCGAATCT
*
32565624 TATCTCTCTGAAGTTGCAGTA
1 TATCTCCCTGAAGTTGCAGTA
32565645 GAGTAGATCA
Statistics
Matches: 224, Mismatches: 49, Indels: 28
0.74 0.16 0.09
Matches are distributed among these distances:
87 23 0.10
88 6 0.03
89 183 0.82
90 12 0.05
ACGTcount: A:0.30, C:0.19, G:0.25, T:0.27
Consensus pattern (88 bp):
TATCTCCCTGAAGTTGCAGTAAAGCAGATTAAAGAAACCAATCCTATCTCCCTGAAGTTGCAGTG
GAGCAGACTGAAGATGCGAATCT
Found at i:32567084 original size:21 final size:21
Alignment explanation
Indices: 32567060--32567099 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
32567050 TATTAAATTG
32567060 ATTAATTTTAATAGTATTACC
1 ATTAATTTTAATAGTATTACC
* * *
32567081 ATTATTTTTACTATTATTA
1 ATTAATTTTAATAGTATTA
32567100 TTATTTTAAT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.35, C:0.07, G:0.03, T:0.55
Consensus pattern (21 bp):
ATTAATTTTAATAGTATTACC
Found at i:32567100 original size:3 final size:3
Alignment explanation
Indices: 32567081--32567291 Score: 144
Period size: 3 Copynumber: 71.0 Consensus size: 3
32567071 TAGTATTACC
* * * * *
32567081 ATT ATT TTT ACT ATT ATT ATT ATT -TT AAT ATT ACT ATT ACT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
* *
32567128 -GT ATTT ATT ATT ATT AATT ACT -TT ATT ATT ATT ATT ATT ATT ATT
1 ATT A-TT ATT ATT ATT -ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
** * * * * * *
32567173 ATT ACC ATT GTT ATA ATT AAT ATT AAT ATT ATT ATT GTT ATT ATT ACT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
* * * * *
32567221 ATT ACT ATT ACTT -TT ATT ATT ACT AAT ATT ATT ATT TTT ATT TTT
1 ATT ATT ATT A-TT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
** * *
32567266 ACC A-C AAT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT
32567292 TTTAAATTGT
Statistics
Matches: 157, Mismatches: 43, Indels: 16
0.73 0.20 0.07
Matches are distributed among these distances:
2 8 0.05
3 142 0.90
4 7 0.04
ACGTcount: A:0.33, C:0.06, G:0.01, T:0.60
Consensus pattern (3 bp):
ATT
Found at i:32574176 original size:31 final size:31
Alignment explanation
Indices: 32574141--32574239 Score: 92
Period size: 31 Copynumber: 3.1 Consensus size: 31
32574131 AGGTTGAATA
*
32574141 TTTTTATGTTAAATTTATTGGATATTGAAATTT
1 TTTTTATGTTAAATTTGTTGGATATTGAAA--T
* * * *
32574174 TTTTCTATTTTAAGTTTGTTGGATACTAAAAT
1 TTTT-TATGTTAAATTTGTTGGATATTGAAAT
* *
32574206 TTTATATGTTAAGA-TTGTTGGATGTTGAAAT
1 TTTTTATGTTAA-ATTTGTTGGATATTGAAAT
32574237 TTT
1 TTT
32574240 AATGCTTAGG
Statistics
Matches: 53, Mismatches: 11, Indels: 6
0.76 0.16 0.09
Matches are distributed among these distances:
31 24 0.45
32 4 0.08
33 4 0.08
34 21 0.40
ACGTcount: A:0.28, C:0.02, G:0.15, T:0.55
Consensus pattern (31 bp):
TTTTTATGTTAAATTTGTTGGATATTGAAAT
Found at i:32574206 original size:34 final size:33
Alignment explanation
Indices: 32574141--32574208 Score: 82
Period size: 34 Copynumber: 2.0 Consensus size: 33
32574131 AGGTTGAATA
* *
32574141 TTTTTATGTTAAATTTATTGGATATTGAAATTT
1 TTTTTATGTTAAATTTATTGGATACTAAAATTT
* * *
32574174 TTTTCTATTTTAAGTTTGTTGGATACTAAAATTT
1 TTTT-TATGTTAAATTTATTGGATACTAAAATTT
32574208 T
1 T
32574209 ATATGTTAAG
Statistics
Matches: 29, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
33 4 0.14
34 25 0.86
ACGTcount: A:0.28, C:0.03, G:0.12, T:0.57
Consensus pattern (33 bp):
TTTTTATGTTAAATTTATTGGATACTAAAATTT
Found at i:32574255 original size:31 final size:31
Alignment explanation
Indices: 32574174--32574255 Score: 85
Period size: 31 Copynumber: 2.6 Consensus size: 31
32574164 ATTGAAATTT
* *
32574174 TTTTCTATTTTAAGTTTGTTGGATACTAAAA
1 TTTTATATGTTAAGTTTGTTGGATACTAAAA
* ** *
32574205 TTTTATATGTTAAGATTGTTGGATGTTGAAA
1 TTTTATATGTTAAGTTTGTTGGATACTAAAA
*
32574236 TTTTA-ATGCTTAGGTTTGTT
1 TTTTATATG-TTAAGTTTGTT
32574256 AAGTATTGAC
Statistics
Matches: 42, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
30 3 0.07
31 39 0.93
ACGTcount: A:0.26, C:0.04, G:0.18, T:0.52
Consensus pattern (31 bp):
TTTTATATGTTAAGTTTGTTGGATACTAAAA
Found at i:32578881 original size:23 final size:23
Alignment explanation
Indices: 32578855--32578906 Score: 77
Period size: 23 Copynumber: 2.3 Consensus size: 23
32578845 CTAAAGAGGT
*
32578855 AGAATGAATTGCACCGTAGTGCC
1 AGAATGAATTGCACCATAGTGCC
*
32578878 AGAATGAGTTGCACCATAGTGCC
1 AGAATGAATTGCACCATAGTGCC
*
32578901 ATAATG
1 AGAATG
32578907 CTCCCACCAA
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.33, C:0.19, G:0.25, T:0.23
Consensus pattern (23 bp):
AGAATGAATTGCACCATAGTGCC
Found at i:32582149 original size:31 final size:32
Alignment explanation
Indices: 32582101--32582161 Score: 88
Period size: 31 Copynumber: 1.9 Consensus size: 32
32582091 CAACCCAATT
* *
32582101 ACTTAAATAAAAAACTTTCGACTTGTTCAACG
1 ACTTAAATAAAAAACTTTCGAATAGTTCAACG
*
32582133 ACTTAAAT-GAAAACTTTCGAATAGTTCAA
1 ACTTAAATAAAAAACTTTCGAATAGTTCAA
32582162 TGACCATTTT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
31 18 0.69
32 8 0.31
ACGTcount: A:0.43, C:0.16, G:0.10, T:0.31
Consensus pattern (32 bp):
ACTTAAATAAAAAACTTTCGAATAGTTCAACG
Found at i:32583720 original size:26 final size:26
Alignment explanation
Indices: 32583691--32583744 Score: 90
Period size: 26 Copynumber: 2.1 Consensus size: 26
32583681 CAGGTAACCT
* *
32583691 AAGTTAATTTTGTTTTCGTTTTCTTA
1 AAGTTAATTTTCTTTTCATTTTCTTA
32583717 AAGTTAATTTTCTTTTCATTTTCTTA
1 AAGTTAATTTTCTTTTCATTTTCTTA
32583743 AA
1 AA
32583745 AAATAGAAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.24, C:0.09, G:0.07, T:0.59
Consensus pattern (26 bp):
AAGTTAATTTTCTTTTCATTTTCTTA
Found at i:32597823 original size:36 final size:36
Alignment explanation
Indices: 32597782--32597980 Score: 123
Period size: 36 Copynumber: 5.4 Consensus size: 36
32597772 CAATTTGCTA
* *
32597782 ATTTACGATCACGACTATCATTTTTACAGTCCGCTG
1 ATTTACGATCACGACTGTCATTTTTACAGTCCGTTG
* * * **
32597818 ATTTACAATCACAACCT-TCAATTTTCTAATAGTTTGTTG
1 ATTTACGATCACGA-CTGTC-ATTTT-T-ACAGTCCGTTG
* * * *
32597857 ATTTACGATCGCGAGTGTCATATTTACGGTCCGTTG
1 ATTTACGATCACGACTGTCATTTTTACAGTCCGTTG
* * * * ** *
32597893 ATTTACAATCACAACCTTTGATTTTCTAACAGTTTGCTG
1 ATTTACGATCACGA-CTGTCATTTT-T-ACAGTCCGTTG
** *
32597932 ATTTATTATCACGACTGTCATTTTTAAAG-CTCGTTG
1 ATTTACGATCACGACTGTCATTTTTACAGTC-CGTTG
32597968 ATTTACGATCACG
1 ATTTACGATCACG
32597981 GCTTCAGTTC
Statistics
Matches: 117, Mismatches: 37, Indels: 18
0.68 0.22 0.10
Matches are distributed among these distances:
36 49 0.42
37 15 0.13
38 15 0.13
39 38 0.32
ACGTcount: A:0.26, C:0.20, G:0.14, T:0.40
Consensus pattern (36 bp):
ATTTACGATCACGACTGTCATTTTTACAGTCCGTTG
Found at i:32597862 original size:75 final size:75
Alignment explanation
Indices: 32597739--32597979 Score: 295
Period size: 75 Copynumber: 3.2 Consensus size: 75
32597729 CTCGCGGTTT
** * * *
32597739 GCTGATTTACAATCATGACCTTCGATTTTCTAACAATTTGCTAATTTACGATCACGACTATCATT
1 GCTGATTTACAATCACAACCTTCGATTTTCTAACAGTTTGCTGATTTACGATCACGACTGTCATT
32597804 TTTACAGTCC
66 TTTACAGTCC
* * * * * *
32597814 GCTGATTTACAATCACAACCTTCAATTTTCTAATAGTTTGTTGATTTACGATCGCGAGTGTCATA
1 GCTGATTTACAATCACAACCTTCGATTTTCTAACAGTTTGCTGATTTACGATCACGACTGTCATT
*
32597879 TTTACGGTCC
66 TTTACAGTCC
* * **
32597889 GTTGATTTACAATCACAACCTTTGATTTTCTAACAGTTTGCTGATTTATTATCACGACTGTCATT
1 GCTGATTTACAATCACAACCTTCGATTTTCTAACAGTTTGCTGATTTACGATCACGACTGTCATT
*
32597954 TTTAAAG-CTC
66 TTTACAGTC-C
* *
32597964 GTTGATTTACGATCAC
1 GCTGATTTACAATCAC
32597980 GGCTTCAGTT
Statistics
Matches: 140, Mismatches: 25, Indels: 2
0.84 0.15 0.01
Matches are distributed among these distances:
74 1 0.01
75 139 0.99
ACGTcount: A:0.27, C:0.20, G:0.13, T:0.40
Consensus pattern (75 bp):
GCTGATTTACAATCACAACCTTCGATTTTCTAACAGTTTGCTGATTTACGATCACGACTGTCATT
TTTACAGTCC
Found at i:32598004 original size:27 final size:27
Alignment explanation
Indices: 32597965--32598032 Score: 127
Period size: 27 Copynumber: 2.5 Consensus size: 27
32597955 TTAAAGCTCG
*
32597965 TTGATTTACGATCACGGCTTCAGTTCA
1 TTGATTTATGATCACGGCTTCAGTTCA
32597992 TTGATTTATGATCACGGCTTCAGTTCA
1 TTGATTTATGATCACGGCTTCAGTTCA
32598019 TTGATTTATGATCA
1 TTGATTTATGATCA
32598033 TGAACACTTC
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
27 40 1.00
ACGTcount: A:0.24, C:0.18, G:0.18, T:0.41
Consensus pattern (27 bp):
TTGATTTATGATCACGGCTTCAGTTCA
Found at i:32598144 original size:36 final size:35
Alignment explanation
Indices: 32598095--32598219 Score: 115
Period size: 36 Copynumber: 3.4 Consensus size: 35
32598085 AACTATTCGC
*
32598095 TGATTTACGATCACGATTATCATTTTTACGGTCTGT
1 TGATTTACGATCACGAAT-TCATTTTTACGGTCTGT
* * * * *
32598131 TGATTTACTATCACGACCTTCGATTTTCTAACAGTTTGC
1 TGATTTACGATCACGA-ATTC-ATTTT-T-ACGGTCTGT
* *
32598170 TAATTTACGATCACAAATGTCATTTTTACGGTCTGT
1 TGATTTACGATCACGAAT-TCATTTTTACGGTCTGT
*
32598206 TGATTTATGATCAC
1 TGATTTACGATCAC
32598220 AACCTTCGAC
Statistics
Matches: 70, Mismatches: 14, Indels: 10
0.74 0.15 0.11
Matches are distributed among these distances:
36 35 0.50
37 7 0.10
38 7 0.10
39 21 0.30
ACGTcount: A:0.25, C:0.18, G:0.14, T:0.42
Consensus pattern (35 bp):
TGATTTACGATCACGAATTCATTTTTACGGTCTGT
Found at i:32598144 original size:75 final size:76
Alignment explanation
Indices: 32598053--32598629 Score: 487
Period size: 75 Copynumber: 7.7 Consensus size: 76
32598043 ATAAAGAGTT
* * ** * *
32598053 TGTTGATTTACGATCACGATCTTCGGCTTTCTAACTA-TTCGCTGATTTACGATCACGATTATCA
1 TGTTGATTTATGATCACGACCTTCGATTTTCTAACTAGTTCGCTGATTTACGATCACGACTGTCA
32598117 TTTTTACGGTC
66 TTTTTACGGTC
* * * *
32598128 TGTTGATTTACT-ATCACGACCTTCGATTTTCTAAC-AGTTTGCTAATTTACGATCACAAATGTC
1 TGTTGATTTA-TGATCACGACCTTCGATTTTCTAACTAGTTCGCTGATTTACGATCACGACTGTC
32598191 ATTTTTACGGTC
65 ATTTTTACGGTC
* * * * *
32598203 TGTTGATTTATGATCACAACCTTCGACTTCCTAA-TAGTTCGTTGATTTACGATCACGACTGTTA
1 TGTTGATTTATGATCACGACCTTCGATTTTCTAACTAGTTCGCTGATTTACGATCACGACTGTCA
32598267 -TTTTACGGTC
66 TTTTTACGGTC
* * * * * * ** *
32598277 CGCTGATTTGTGATTACAACCTTCGATTTTCTAAC-AATTCATTGATTTACGATCACAACTGTCA
1 TGTTGATTTATGATCACGACCTTCGATTTTCTAACTAGTTCGCTGATTTACGATCACGACTGTCA
*
32598341 CTTTTACGGTC
66 TTTTTACGGTC
* * * * * *
32598352 CGCTGATTTATGATCACGACCTTCGATTTTCTAA-TACTTCACTGATTAACGATCACGACTATCA
1 TGTTGATTTATGATCACGACCTTCGATTTTCTAACTAGTTCGCTGATTTACGATCACGACTGTCA
32598416 TTTTTACGGT-
66 TTTTTACGGTC
** * * * ** * *
32598426 TCACTGATTTACGATCATGACCTTTGATTTTCTAA-TAGTTCATTGATTTACGATTATGACTGTC
1 T-GTTGATTTATGATCACGACCTTCGATTTTCTAACTAGTTCGCTGATTTACGATCACGACTGTC
32598490 ATTTTTACGGTC
65 ATTTTTACGGTC
* * * * * * * * * *
32598502 CGCTAATTT-TCGATCACGACCTTTGATTTTCCAAC-AATTCGTTGATTTATGATCATGACTGCC
1 TGTTGATTTAT-GATCACGACCTTCGATTTTCTAACTAGTTCGCTGATTTACGATCACGACTGTC
*
32598565 ATTTTTATGGT-
65 ATTTTTACGGTC
** * * * * ** *
32598576 TCACTAATTTACGATCATGACCTTTGGCTTTCTAAC-AGTTCGCTAATTTACGAT
1 T-GTTGATTTATGATCACGACCTTCGATTTTCTAACTAGTTCGCTGATTTACGAT
32598630 TACAACCTTT
Statistics
Matches: 418, Mismatches: 71, Indels: 26
0.81 0.14 0.05
Matches are distributed among these distances:
74 65 0.16
75 353 0.84
ACGTcount: A:0.24, C:0.21, G:0.14, T:0.41
Consensus pattern (76 bp):
TGTTGATTTATGATCACGACCTTCGATTTTCTAACTAGTTCGCTGATTTACGATCACGACTGTCA
TTTTTACGGTC
Found at i:32598183 original size:39 final size:38
Alignment explanation
Indices: 32598049--32598479 Score: 149
Period size: 39 Copynumber: 11.5 Consensus size: 38
32598039 CTTCATAAAG
* **
32598049 AGTTTGTTGATTTACGATCACGATCTTCGGCTTTCTAAC
1 AGTTTGCTGATTTACGATCACGA-CTTCGATTTTCTAAC
* *
32598088 TA-TTCGCTGATTTACGATCACGATTATC-ATTTT-T-AC
1 -AGTTTGCTGATTTACGATCACGACT-TCGATTTTCTAAC
* * * *
32598124 GGTCTGTTGATTTACTATCACGACCTTCGATTTTCTAAC
1 AGTTTGCTGATTTACGATCACGA-CTTCGATTTTCTAAC
* * *
32598163 AGTTTGCTAATTTACGATCACAAATGTC-ATTTT-T-AC
1 AGTTTGCTGATTTACGATCACGACT-TCGATTTTCTAAC
* * * * * * * *
32598199 GGTCTGTTGATTTATGATCACAACCTTCGACTTCCTAAT
1 AGTTTGCTGATTTACGATCACGA-CTTCGATTTTCTAAC
* * *
32598238 AGTTCGTTGATTTACGATCACGAC-T-G-TTATT-TTAC
1 AGTTTGCTGATTTACGATCACGACTTCGATT-TTCTAAC
* ** ** * *
32598273 GGTCCGCTGATTTGTGATTACAACCTTCGATTTTCTAAC
1 AGTTTGCTGATTTACGATCACGA-CTTCGATTTTCTAAC
* *** * *
32598312 AATTCATTGATTTACGATCACAACTGTC-ACTTT-T-AC
1 AGTTTGCTGATTTACGATCACGACT-TCGATTTTCTAAC
* ** * *
32598348 GGTCCGCTGATTTATGATCACGACCTTCGATTTTCTAAT
1 AGTTTGCTGATTTACGATCACGA-CTTCGATTTTCTAAC
* ** *
32598387 ACTTCACTGATTAACGATCACGACTATC-ATTTT-T-AC
1 AGTTTGCTGATTTACGATCACGACT-TCGATTTTCTAAC
* ** * * *
32598423 GGTTCACTGATTTACGATCATGACCTTTGATTTTCTAAT
1 AGTTTGCTGATTTACGATCACGA-CTTCGATTTTCTAAC
***
32598462 AGTTCATTGATTTACGAT
1 AGTTTGCTGATTTACGAT
32598480 TATGACTGTC
Statistics
Matches: 287, Mismatches: 77, Indels: 55
0.68 0.18 0.13
Matches are distributed among these distances:
35 19 0.07
36 87 0.30
37 29 0.10
38 31 0.11
39 120 0.42
40 1 0.00
ACGTcount: A:0.24, C:0.21, G:0.14, T:0.41
Consensus pattern (38 bp):
AGTTTGCTGATTTACGATCACGACTTCGATTTTCTAAC
Found at i:32598270 original size:150 final size:149
Alignment explanation
Indices: 32598056--32598635 Score: 565
Period size: 150 Copynumber: 3.9 Consensus size: 149
32598046 AAGAGTTTGT
* * * * *
32598056 TGATTTACGATCACGATCTTCGGCTTTCTAACTATTCGCTGATTTACGATCACGATTATCATTTT
1 TGATTTATGATCACGACCTTCGACTTCCTAA-TATTCGCTGATTTACGATCACGACTATCATTTT
** * **
32598121 TACGG-TCTGTTGATTTACTATCACGACCTTCGATTTTCTAACAGTTTGCTAATTTACGATCACA
65 TACGGTTC-ACTGATTTACGATCACGACCTTCGATTTTCTAACAGTTCACTAATTTACGATCACA
* * *
32598185 AATGTCATTTTTACGGTCTGT
129 ACTGTCATTTTTACGGTCCGC
* * * *
32598206 TGATTTATGATCACAACCTTCGACTTCCTAATAGTTCGTTGATTTACGATCACGACTGTTA-TTT
1 TGATTTATGATCACGACCTTCGACTTCCTAATA-TTCGCTGATTTACGATCACGACTATCATTTT
* * ** * * * * *
32598270 TACGGTCCGCTGATTTGTGATTACAACCTTCGATTTTCTAACAATTCATTGATTTACGATCACAA
65 TACGGTTCACTGATTTACGATCACGACCTTCGATTTTCTAACAGTTCACTAATTTACGATCACAA
*
32598335 CTGTCACTTTTACGGTCCGC
130 CTGTCATTTTTACGGTCCGC
* * * *
32598355 TGATTTATGATCACGACCTTCGATTTTCTAATACTTCACTGATTAACGATCACGACTATCATTTT
1 TGATTTATGATCACGACCTTCGACTTCCTAATA-TTCGCTGATTTACGATCACGACTATCATTTT
* * * * * * **
32598420 TACGGTTCACTGATTTACGATCATGACCTTTGATTTTCTAATAGTTCATTGATTTACGATTATGA
65 TACGGTTCACTGATTTACGATCACGACCTTCGATTTTCTAACAGTTCACTAATTTACGATCACAA
32598485 CTGTCATTTTTACGGTCCGC
130 CTGTCATTTTTACGGTCCGC
* * * * * * * **
32598505 TAATTT-TCGATCACGACCTTTGATTTTCC-AACAATTCGTTGATTTATGATCATGACTGCCATT
1 TGATTTAT-GATCACGACCTTCGA-CTTCCTAA-TATTCGCTGATTTACGATCACGACTATCATT
* * * * ** * *
32598568 TTTATGGTTCACTAATTTACGATCATGACCTTTGGCTTTCTAACAGTTCGCTAATTTACGATTAC
63 TTTACGGTTCACTGATTTACGATCACGACCTTCGATTTTCTAACAGTTCACTAATTTACGATCAC
32598633 AAC
128 AAC
32598636 CTTTTACTCA
Statistics
Matches: 355, Mismatches: 69, Indels: 12
0.81 0.16 0.03
Matches are distributed among these distances:
149 125 0.35
150 225 0.63
151 5 0.01
ACGTcount: A:0.24, C:0.21, G:0.14, T:0.40
Consensus pattern (149 bp):
TGATTTATGATCACGACCTTCGACTTCCTAATATTCGCTGATTTACGATCACGACTATCATTTTT
ACGGTTCACTGATTTACGATCACGACCTTCGATTTTCTAACAGTTCACTAATTTACGATCACAAC
TGTCATTTTTACGGTCCGC
Found at i:32598440 original size:36 final size:36
Alignment explanation
Indices: 32598245--32598592 Score: 153
Period size: 39 Copynumber: 9.4 Consensus size: 36
32598235 AATAGTTCGT
* * *
32598245 TGATTTACGATCACGACTGTTA-TTTTACGGTCCGC
1 TGATTTACGATCACGACTGTCATTTTTACGGTTCAC
** * * ** *
32598280 TGATTTGTGATTACAACCT-TCGATTTTCTAACAATTCAT
1 TGATTTACGATCACGA-CTGTC-ATTTT-T-ACGGTTCAC
* * * *
32598319 TGATTTACGATCACAACTGTCACTTTTACGGTCCGC
1 TGATTTACGATCACGACTGTCATTTTTACGGTTCAC
* ***
32598355 TGATTTATGATCACGACCT-TCGATTTTCTAATACTTCAC
1 TGATTTACGATCACGA-CTGTC-ATTTT-T-ACGGTTCAC
* *
32598394 TGATTAACGATCACGACTATCATTTTTACGGTTCAC
1 TGATTTACGATCACGACTGTCATTTTTACGGTTCAC
* * * ** *
32598430 TGATTTACGATCATGACCTTTGATTTTCTAATAGTTCAT
1 TGATTTACGATCACGA-CTGTCATTTT-T-ACGGTTCAC
* * * *
32598469 TGATTTACGATTATGACTGTCATTTTTACGGTCCGC
1 TGATTTACGATCACGACTGTCATTTTTACGGTTCAC
* * * * * ** **
32598505 TAATTTTCGATCACGACCTTTGATTTTCCAACAATTCGT
1 TGATTTACGATCACGA-CTGTCATTTT--TACGGTTCAC
* * * *
32598544 TGATTTATGATCATGACTGCCATTTTTATGGTTCAC
1 TGATTTACGATCACGACTGTCATTTTTACGGTTCAC
*
32598580 TAATTTACGATCA
1 TGATTTACGATCA
32598593 TGACCTTTGG
Statistics
Matches: 223, Mismatches: 73, Indels: 33
0.68 0.22 0.10
Matches are distributed among these distances:
35 13 0.06
36 74 0.33
37 28 0.13
38 31 0.14
39 77 0.35
ACGTcount: A:0.25, C:0.21, G:0.14, T:0.41
Consensus pattern (36 bp):
TGATTTACGATCACGACTGTCATTTTTACGGTTCAC
Found at i:32598474 original size:224 final size:225
Alignment explanation
Indices: 32598080--32598556 Score: 575
Period size: 224 Copynumber: 2.1 Consensus size: 225
32598070 GATCTTCGGC
* * * * * * *
32598080 TTTCTAACTATTCGCTGATTTACGATCACGATTATCATTTTTACGGTCTGTTGATTTACTATCAC
1 TTTCTAACAATTCGTTGATTTACGATCACAACTATCACTTTTACGGTCCGCTGATTTACTATCAC
* ** * * **
32598145 GACCTTCGATTTTCTAACAGTTTGCTAATTTACGATCACAAATGTCATTTTTACGGTCTGTTGAT
66 GACCTTCGATTTTCTAACACTTCACTAATTAACGATCACAAATATCATTTTTACGGTCTACTGAT
* * *
32598210 TTATGATCACAACCTTCGACTTCCTAATAGTTCGTTGATTTACGATCACGACTGTTA-TTTTACG
131 TTACGATCACAACCTTCGACTTCCTAATAGTTCATTGATTTACGATCACGACTGTCATTTTTACG
* *
32598274 GTCCGCTGATTTGT-GATTACAACCTTCGAT
196 GTCCGCTAATTT-TCGATCACAACCTTCGAT
* *
32598304 TTTCTAACAATTCATTGATTTACGATCACAACTGTCACTTTTACGGTCCGCTGATTTA-TGATCA
1 TTTCTAACAATTCGTTGATTTACGATCACAACTATCACTTTTACGGTCCGCTGATTTACT-ATCA
* * * *
32598368 CGACCTTCGATTTTCTAATACTTCACTGATTAACGATCACGACTATCATTTTTACGGT-TCACTG
65 CGACCTTCGATTTTCTAACACTTCACTAATTAACGATCACAAATATCATTTTTACGGTCT-ACTG
** * * * * *
32598432 ATTTACGATCATGACCTTTGATTTTCTAATAGTTCATTGATTTACGATTATGACTGTCATTTTTA
129 ATTTACGATCACAACCTTCGACTTCCTAATAGTTCATTGATTTACGATCACGACTGTCATTTTTA
* *
32598497 CGGTCCGCTAATTTTCGATCACGACCTTTGAT
194 CGGTCCGCTAATTTTCGATCACAACCTTCGAT
* *
32598529 TTTCCAACAATTCGTTGATTTATGATCA
1 TTTCTAACAATTCGTTGATTTACGATCA
32598557 TGACTGCCAT
Statistics
Matches: 212, Mismatches: 37, Indels: 7
0.83 0.14 0.03
Matches are distributed among these distances:
223 2 0.01
224 154 0.73
225 56 0.26
ACGTcount: A:0.25, C:0.21, G:0.14, T:0.41
Consensus pattern (225 bp):
TTTCTAACAATTCGTTGATTTACGATCACAACTATCACTTTTACGGTCCGCTGATTTACTATCAC
GACCTTCGATTTTCTAACACTTCACTAATTAACGATCACAAATATCATTTTTACGGTCTACTGAT
TTACGATCACAACCTTCGACTTCCTAATAGTTCATTGATTTACGATCACGACTGTCATTTTTACG
GTCCGCTAATTTTCGATCACAACCTTCGAT
Found at i:32598485 original size:39 final size:39
Alignment explanation
Indices: 32598354--32598639 Score: 149
Period size: 39 Copynumber: 7.6 Consensus size: 39
32598344 TTACGGTCCG
* * *
32598354 CTGATTTATGATCACGACCTTCGATTTTCTAATACTTCA
1 CTGATTTACGATCACGACCTTTGATTTTCTAATAGTTCA
* * * **
32598393 CTGATTAACGATCACGA-CTATCATTTT-T-ACGGTTCA
1 CTGATTTACGATCACGACCTTTGATTTTCTAATAGTTCA
*
32598429 CTGATTTACGATCATGACCTTTGATTTTCTAATAGTTCA
1 CTGATTTACGATCACGACCTTTGATTTTCTAATAGTTCA
* * * * * ** * *
32598468 TTGATTTACGATTATGA-CTGTCATTTT-T-ACGGTCCG
1 CTGATTTACGATCACGACCTTTGATTTTCTAATAGTTCA
* * * * * *
32598504 CTAATTTTCGATCACGACCTTTGATTTTCCAACAATTCG
1 CTGATTTACGATCACGACCTTTGATTTTCTAATAGTTCA
* * * *** *
32598543 TTGATTTATGATCATGA-CTGCCATTTT-T-ATGGTTCA
1 CTGATTTACGATCACGACCTTTGATTTTCTAATAGTTCA
* * ** * *
32598579 CTAATTTACGATCATGACCTTTGGCTTTCTAACAGTTCG
1 CTGATTTACGATCACGACCTTTGATTTTCTAATAGTTCA
* * *
32598618 CTAATTTACGATTACAACCTTT
1 CTGATTTACGATCACGACCTTT
32598640 TACTCACGAG
Statistics
Matches: 178, Mismatches: 60, Indels: 18
0.70 0.23 0.07
Matches are distributed among these distances:
36 54 0.30
37 23 0.13
38 24 0.13
39 77 0.43
ACGTcount: A:0.25, C:0.21, G:0.13, T:0.41
Consensus pattern (39 bp):
CTGATTTACGATCACGACCTTTGATTTTCTAATAGTTCA
Found at i:32598753 original size:23 final size:23
Alignment explanation
Indices: 32598673--32598792 Score: 68
Period size: 23 Copynumber: 5.2 Consensus size: 23
32598663 CACGATATTT
* *
32598673 TACAATACAATTCGCAAT-ATTC
1 TACAATACAGTTCGCAGTAATTC
* * * * *
32598695 TACAATGCATTTCGTAGCATTTC
1 TACAATACAGTTCGCAGTAATTC
*
32598718 TGTA-AATATAGTTCGCAGTAATTC
1 --TACAATACAGTTCGCAGTAATTC
* * *
32598742 TACAATACAGTTCGTAGCATTTC
1 TACAATACAGTTCGCAGTAATTC
*
32598765 TTCAAATACAGCTT-GCA-TAATTC
1 TAC-AATACAG-TTCGCAGTAATTC
32598788 TACAA
1 TACAA
32598793 CATGATTTGT
Statistics
Matches: 71, Mismatches: 21, Indels: 12
0.68 0.20 0.12
Matches are distributed among these distances:
22 17 0.24
23 27 0.38
24 23 0.32
25 4 0.06
ACGTcount: A:0.34, C:0.20, G:0.11, T:0.35
Consensus pattern (23 bp):
TACAATACAGTTCGCAGTAATTC
Found at i:32598756 original size:47 final size:47
Alignment explanation
Indices: 32598683--32598792 Score: 138
Period size: 47 Copynumber: 2.4 Consensus size: 47
32598673 TACAATACAA
* * *
32598683 TTCGCA-ATATTCTACAATGCATTTCGTAGCATTTCTGT-AAATATAG-
1 TTCGCATA-ATTCTACAATACAGTTCGTAGCATTTCT-TCAAATACAGC
32598729 TTCGCAGTAATTCTACAATACAGTTCGTAGCATTTCTTCAAATACAGC
1 TTCGCA-TAATTCTACAATACAGTTCGTAGCATTTCTTCAAATACAGC
32598777 TT-GCATAATTCTACAA
1 TTCGCATAATTCTACAA
32598793 CATGATTTGT
Statistics
Matches: 57, Mismatches: 3, Indels: 8
0.84 0.04 0.12
Matches are distributed among these distances:
46 18 0.32
47 36 0.63
48 3 0.05
ACGTcount: A:0.32, C:0.20, G:0.12, T:0.36
Consensus pattern (47 bp):
TTCGCATAATTCTACAATACAGTTCGTAGCATTTCTTCAAATACAGC
Found at i:32602066 original size:90 final size:92
Alignment explanation
Indices: 32601873--32602066 Score: 200
Period size: 90 Copynumber: 2.1 Consensus size: 92
32601863 AACCTTAAAG
* * * * * *
32601873 TTCAAGCCTTAATGTGGGAGCAATTGCCAAGTTTTAGAGTCTAACTTTGACAAAAAAAAGGTTCA
1 TTCAGGCCCTAATGTGGAAACAACTGCCAAGTTTTAGAGCCTAACTTTGACAAAAAAAAGGTTCA
* ** * *
32601938 AGCCCCAATGTGGGAAAAATTGTCAAG
66 AGCCCCAATATAAGAAAAATTGCCAAA
* *
32601965 TCCAGGTCCTAATGTGGAAACAACTGCCAAG-TTTAG-GACCTAAC-TTGTACAAAAAAAA-GTT
1 TTCAGGCCCTAATGTGGAAACAACTGCCAAGTTTTAGAG-CCTAACTTTG-ACAAAAAAAAGGTT
*
32602026 C-AGACCCCAATATAAGAAAAGTTGCCAAA
64 CAAG-CCCCAATATAAGAAAAATTGCCAAA
32602055 TTCAGGCCCTAA
1 TTCAGGCCCTAA
32602067 ATAGTGATTT
Statistics
Matches: 83, Mismatches: 16, Indels: 8
0.78 0.15 0.07
Matches are distributed among these distances:
89 2 0.02
90 37 0.45
91 20 0.24
92 24 0.29
ACGTcount: A:0.38, C:0.20, G:0.19, T:0.24
Consensus pattern (92 bp):
TTCAGGCCCTAATGTGGAAACAACTGCCAAGTTTTAGAGCCTAACTTTGACAAAAAAAAGGTTCA
AGCCCCAATATAAGAAAAATTGCCAAA
Found at i:32602308 original size:13 final size:13
Alignment explanation
Indices: 32602272--32602311 Score: 53
Period size: 13 Copynumber: 3.1 Consensus size: 13
32602262 AGCTCTTCAT
32602272 TGCTTTTGAAAAG
1 TGCTTTTGAAAAG
* * *
32602285 TGATGTGGAAAAG
1 TGCTTTTGAAAAG
32602298 TGCTTTTGAAAAG
1 TGCTTTTGAAAAG
32602311 T
1 T
32602312 TTGGTTTAAA
Statistics
Matches: 21, Mismatches: 6, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.33, C:0.05, G:0.28, T:0.35
Consensus pattern (13 bp):
TGCTTTTGAAAAG
Found at i:32604244 original size:19 final size:18
Alignment explanation
Indices: 32604222--32604266 Score: 56
Period size: 18 Copynumber: 2.4 Consensus size: 18
32604212 CTAAAAATTC
*
32604222 TAAAAAATATTAAAATTTA
1 TAAAAAA-ATCAAAATTTA
32604241 TAAAAAAATCAAAATTT-
1 TAAAAAAATCAAAATTTA
32604258 TCAAAAAAA
1 T-AAAAAAA
32604267 AATTTAAAGT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
17 1 0.04
18 16 0.67
19 7 0.29
ACGTcount: A:0.67, C:0.04, G:0.00, T:0.29
Consensus pattern (18 bp):
TAAAAAAATCAAAATTTA
Found at i:32607239 original size:69 final size:69
Alignment explanation
Indices: 32607120--32607249 Score: 170
Period size: 69 Copynumber: 1.9 Consensus size: 69
32607110 ATTGCATTCG
* * * * * *
32607120 TACATAAGACCATAGCAAGGCTATGGCAATTTTTTGGATATAAGATCATGGTTGGACCATGGAAA
1 TACATAAGACCATAGCAAGACTATGACAATTGTTTAGACATAAGACCATGGTTGGACCATGGAAA
32607185 TATA
66 TATA
* * * *
32607189 TACATAAGACCATAGCGAGACTATGACAGTTGTTTAGACGTAAGGCCATGGTTGGACCATG
1 TACATAAGACCATAGCAAGACTATGACAATTGTTTAGACATAAGACCATGGTTGGACCATG
32607250 ACAGTGTATA
Statistics
Matches: 51, Mismatches: 10, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
69 51 1.00
ACGTcount: A:0.34, C:0.15, G:0.24, T:0.27
Consensus pattern (69 bp):
TACATAAGACCATAGCAAGACTATGACAATTGTTTAGACATAAGACCATGGTTGGACCATGGAAA
TATA
Found at i:32609709 original size:43 final size:43
Alignment explanation
Indices: 32609574--32609807 Score: 220
Period size: 43 Copynumber: 5.5 Consensus size: 43
32609564 TCTGGTACCT
* * * *
32609574 CAGTGCATCATCGGATAAACCGAAA-AAATATATTGGCACACA
1 CAGTGCATCATCGGATAAACCGAAACAATTATACTAGCATACA
* * * * * *
32609616 TAGTGCATCATCAGACAAACC-AAAGCATTTATACTGGCACACA
1 CAGTGCATCATCGGATAAACCGAAA-CAATTATACTAGCATACA
* * ** *
32609659 TAATGCATCATCGGATAAATTGAAACAATTACACTAGCATACA
1 CAGTGCATCATCGGATAAACCGAAACAATTATACTAGCATACA
* * **
32609702 CAGTGCATCATTGGATATACCGAAGTAATTATACTAGCATACA
1 CAGTGCATCATCGGATAAACCGAAACAATTATACTAGCATACA
* * * *
32609745 CAGTGCATAATTGGATATACCGAAACAATTATACTAGCACACA
1 CAGTGCATCATCGGATAAACCGAAACAATTATACTAGCATACA
* *
32609788 CTGTGCATCATCGAATAAAC
1 CAGTGCATCATCGGATAAAC
32609808 TAAAGTATAA
Statistics
Matches: 156, Mismatches: 33, Indels: 5
0.80 0.17 0.03
Matches are distributed among these distances:
41 3 0.02
42 18 0.12
43 132 0.85
44 3 0.02
ACGTcount: A:0.41, C:0.21, G:0.15, T:0.24
Consensus pattern (43 bp):
CAGTGCATCATCGGATAAACCGAAACAATTATACTAGCATACA
Found at i:32611884 original size:25 final size:25
Alignment explanation
Indices: 32611851--32611914 Score: 110
Period size: 25 Copynumber: 2.6 Consensus size: 25
32611841 GAGAAGCTAA
*
32611851 AGAGAACAAGCAACAACCAACAAGC
1 AGAGGACAAGCAACAACCAACAAGC
*
32611876 AGAGGACAAGCAACAGCCAACAAGC
1 AGAGGACAAGCAACAACCAACAAGC
32611901 AGAGGACAAGCAAC
1 AGAGGACAAGCAAC
32611915 TTTTTTCTAA
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
25 37 1.00
ACGTcount: A:0.52, C:0.27, G:0.22, T:0.00
Consensus pattern (25 bp):
AGAGGACAAGCAACAACCAACAAGC
Found at i:32619793 original size:2 final size:2
Alignment explanation
Indices: 32619786--32619813 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
32619776 ATCAAATTAG
32619786 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
32619814 TCCGTAACAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:32624360 original size:19 final size:19
Alignment explanation
Indices: 32624336--32624376 Score: 82
Period size: 19 Copynumber: 2.2 Consensus size: 19
32624326 GTCGGAGACA
32624336 CCTTCTTCCTTCTCCAACT
1 CCTTCTTCCTTCTCCAACT
32624355 CCTTCTTCCTTCTCCAACT
1 CCTTCTTCCTTCTCCAACT
32624374 CCT
1 CCT
32624377 CATCATGGTC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.10, C:0.49, G:0.00, T:0.41
Consensus pattern (19 bp):
CCTTCTTCCTTCTCCAACT
Found at i:32631880 original size:7 final size:7
Alignment explanation
Indices: 32631868--32631899 Score: 64
Period size: 7 Copynumber: 4.6 Consensus size: 7
32631858 TTGATTCTTA
32631868 AAAATTC
1 AAAATTC
32631875 AAAATTC
1 AAAATTC
32631882 AAAATTC
1 AAAATTC
32631889 AAAATTC
1 AAAATTC
32631896 AAAA
1 AAAA
32631900 AATAAATAAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 25 1.00
ACGTcount: A:0.62, C:0.12, G:0.00, T:0.25
Consensus pattern (7 bp):
AAAATTC
Found at i:32632860 original size:11 final size:9
Alignment explanation
Indices: 32632825--32632863 Score: 51
Period size: 9 Copynumber: 4.3 Consensus size: 9
32632815 CACTCAAATC
32632825 CAACTCTCT
1 CAACTCTCT
* *
32632834 CTATTCTCT
1 CAACTCTCT
32632843 CAACTCTCT
1 CAACTCTCT
*
32632852 CAATTCTCT
1 CAACTCTCT
32632861 CAA
1 CAA
32632864 TTTTCTCAAG
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
9 25 1.00
ACGTcount: A:0.23, C:0.38, G:0.00, T:0.38
Consensus pattern (9 bp):
CAACTCTCT
Done.