Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168470.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_7, 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: 26282861
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Warning! 74000 characters in sequence are not A, C, G, or T
File 116 of 133
Found at i:22434937 original size:21 final size:22
Alignment explanation
Indices: 22434911--22434960 Score: 59
Period size: 21 Copynumber: 2.3 Consensus size: 22
22434901 ATTAATTAAT
22434911 TTTTTTATTATTTTGTA-AGAAAA
1 TTTTTTATTA--TTGTATAGAAAA
*
22434934 TTTTTT-TTATTGTATTGAAAA
1 TTTTTTATTATTGTATAGAAAA
22434955 TTTTTT
1 TTTTTT
22434961 TATAAATACT
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
20 5 0.20
21 11 0.44
22 3 0.12
23 6 0.24
ACGTcount: A:0.28, C:0.00, G:0.08, T:0.64
Consensus pattern (22 bp):
TTTTTTATTATTGTATAGAAAA
Found at i:22435190 original size:18 final size:19
Alignment explanation
Indices: 22435167--22435217 Score: 59
Period size: 21 Copynumber: 2.6 Consensus size: 19
22435157 TATTAATAAT
*
22435167 AATAATTAAAATGAC-AAA
1 AATAATTAAAATAACTAAA
*
22435185 AATAATATATAAAAAACTAAA
1 AATAAT-TA-AAATAACTAAA
22435206 AATAATTAAAAT
1 AATAATTAAAAT
22435218 TTTTTTTTTA
Statistics
Matches: 27, Mismatches: 3, Indels: 5
0.77 0.09 0.14
Matches are distributed among these distances:
18 6 0.22
19 5 0.19
20 7 0.26
21 9 0.33
ACGTcount: A:0.69, C:0.04, G:0.02, T:0.25
Consensus pattern (19 bp):
AATAATTAAAATAACTAAA
Found at i:22435270 original size:9 final size:9
Alignment explanation
Indices: 22435256--22435283 Score: 56
Period size: 9 Copynumber: 3.1 Consensus size: 9
22435246 CGTGAGTTTG
22435256 GATCGGTTC
1 GATCGGTTC
22435265 GATCGGTTC
1 GATCGGTTC
22435274 GATCGGTTC
1 GATCGGTTC
22435283 G
1 G
22435284 GCATTGGTCT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 19 1.00
ACGTcount: A:0.11, C:0.21, G:0.36, T:0.32
Consensus pattern (9 bp):
GATCGGTTC
Found at i:22436184 original size:24 final size:21
Alignment explanation
Indices: 22436152--22436214 Score: 76
Period size: 22 Copynumber: 3.0 Consensus size: 21
22436142 TGAACCGGAT
*
22436152 AAGAAAGAAAAAGAAGGAAAAACA
1 AAGAAAG--AAAGAAAGAAAAA-A
22436176 AAGAAAGAAAGAAAGAAAAAA
1 AAGAAAGAAAGAAAGAAAAAA
22436197 AAGAAA-AAAGAAA-AAAAA
1 AAGAAAGAAAGAAAGAAAAA
22436215 TCGAAGAAAA
Statistics
Matches: 38, Mismatches: 1, Indels: 5
0.86 0.02 0.11
Matches are distributed among these distances:
19 5 0.13
20 7 0.18
21 7 0.18
22 12 0.32
24 7 0.18
ACGTcount: A:0.81, C:0.02, G:0.17, T:0.00
Consensus pattern (21 bp):
AAGAAAGAAAGAAAGAAAAAA
Found at i:22436211 original size:8 final size:8
Alignment explanation
Indices: 22436155--22436213 Score: 50
Period size: 8 Copynumber: 7.4 Consensus size: 8
22436145 ACCGGATAAG
22436155 AAAGAAAA
1 AAAGAAAA
*
22436163 AGAAG-GAA
1 A-AAGAAAA
* *
22436171 AAACAAAG
1 AAAGAAAA
*
22436179 AAAGAAAG
1 AAAGAAAA
22436187 AAAGAAAA
1 AAAGAAAA
22436195 AAA-AGAAA
1 AAAGA-AAA
22436203 AAAGAAAA
1 AAAGAAAA
22436211 AAA
1 AAA
22436214 ATCGAAGAAA
Statistics
Matches: 41, Mismatches: 6, Indels: 8
0.75 0.11 0.15
Matches are distributed among these distances:
7 3 0.07
8 34 0.83
9 4 0.10
ACGTcount: A:0.81, C:0.02, G:0.17, T:0.00
Consensus pattern (8 bp):
AAAGAAAA
Found at i:22436221 original size:21 final size:20
Alignment explanation
Indices: 22436155--22436225 Score: 74
Period size: 21 Copynumber: 3.5 Consensus size: 20
22436145 ACCGGATAAG
*
22436155 AAAG-AAAAAGAAGGAAAAAC
1 AAAGAAAAAAGAA-AAAAAAC
22436175 AAAGAAAGAAAGAAAGAAAAA-
1 AAAGAAA-AAAGAAA-AAAAAC
22436196 AAAGAAAAAAGAAAAAAAATC
1 AAAGAAAAAAGAAAAAAAA-C
*
22436217 GAAGAAAAA
1 AAAGAAAAA
22436226 TAAATAATAA
Statistics
Matches: 44, Mismatches: 2, Indels: 9
0.80 0.04 0.16
Matches are distributed among these distances:
19 5 0.11
20 11 0.25
21 17 0.39
22 11 0.25
ACGTcount: A:0.79, C:0.03, G:0.17, T:0.01
Consensus pattern (20 bp):
AAAGAAAAAAGAAAAAAAAC
Found at i:22436236 original size:3 final size:3
Alignment explanation
Indices: 22436228--22436280 Score: 97
Period size: 3 Copynumber: 17.7 Consensus size: 3
22436218 AAGAAAAATA
*
22436228 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT GAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
22436276 AAT AA
1 AAT AA
22436281 CAATTAAAAA
Statistics
Matches: 48, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
3 48 1.00
ACGTcount: A:0.66, C:0.00, G:0.02, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:22436565 original size:51 final size:48
Alignment explanation
Indices: 22436450--22436853 Score: 390
Period size: 48 Copynumber: 8.3 Consensus size: 48
22436440 TTGAAAATTT
* *
22436450 AAAAGGCTCCTCTGAGCAGAGGCTCAACAACTTTAAAATTT--TCTTG
1 AAAAAGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAATTTCATCTTG
* * ** *
22436496 AAAAAGCTCCTCTTAGTAGAGGCTTGACAACTTTAAAAATTCTTATCTT-
1 AAAAAGCTCCTCTCAGCAGAGGCTCAACAACTTT-AAAATT-TCATCTTG
* * * *
22436545 AAAAAGGGCTCCTCTCAGTAGAGACTTAAGAACTTTAAAATTTCAT-TTG
1 AAAAA--GCTCCTCTCAGCAGAGGCTCAACAACTTTAAAATTTCATCTTG
*
22436594 AAAAAAGCTCCTCTCAGTAGAGGCTCAACAACTTTAAAATTTCATC-TG
1 -AAAAAGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAATTTCATCTTG
* * * * * *
22436642 TAAAAAGCTCCTCTTAGTAAAAGCTCGACAACTTTAAAAATCTCATC-TG
1 -AAAAAGCTCCTCTCAGCAGAGGCTCAACAACTTT-AAAATTTCATCTTG
* * * * *
22436691 AAAAAGCTCCTTTCAACAGAGGCTCGATAACTTTAAAAATTCTTATCTTG
1 AAAAAGCTCCTCTCAGCAGAGGCTCAACAACTTT-AAAATT-TCATCTTG
* *
22436741 AAAAAGGCTCATCTCAGCAGAGGTTCAACAACTTTTAAAATTTTCATCTTG
1 AAAAA-GCTCCTCTCAGCAGAGGCTCAACAAC-TTTAAAA-TTTCATCTTG
* *
22436792 AAAAAAGCTTCTCTCAGCAGAAGCTCAACAACTTTAAAATTTCATCTAT-
1 -AAAAAGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAATTTCATCT-TG
22436841 AAAAAGCTCCTCT
1 AAAAAGCTCCTCT
22436854 TCGAGTTCTT
Statistics
Matches: 301, Mismatches: 40, Indels: 32
0.81 0.11 0.09
Matches are distributed among these distances:
46 29 0.10
47 6 0.02
48 116 0.39
49 32 0.11
50 30 0.10
51 78 0.26
52 10 0.03
ACGTcount: A:0.37, C:0.21, G:0.13, T:0.30
Consensus pattern (48 bp):
AAAAAGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAATTTCATCTTG
Found at i:22436680 original size:147 final size:148
Alignment explanation
Indices: 22436450--22436853 Score: 475
Period size: 147 Copynumber: 2.7 Consensus size: 148
22436440 TTGAAAATTT
*
22436450 AAAAGGCTCCTCTGAGCAGAGGCTCAACAACTTTAAAATTT--TCT-TGAAAAAGCTCCTCTTAG
1 AAAAGGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAATTTCATCTGT-AAAAAGCTCCTCTTAG
* * * ** *
22436512 TAGAGGCTTGACAACTTTAAAAATTCTTATCTTAAAAAGGGCTCCTCTCAGTAGAGACTTAAGAA
65 TAGAAGCTCGACAACTTTAAAAATTCTCATCTTAAAAA--GCTCCTCTCAACAGAGACTCAAGAA
22436577 CTTT-AAAATT-TCAT-TTGA
128 CTTTAAAAATTCTCATCTTGA
* *
22436595 AAAAAGCTCCTCTCAGTAGAGGCTCAACAACTTTAAAATTTCATCTGTAAAAAGCTCCTCTTAGT
1 AAAAGGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAATTTCATCTGTAAAAAGCTCCTCTTAGT
* * * * * *
22436660 AAAAGCTCGACAACTTTAAAAA-TCTCATCTGAAAAAGCTCCTTTCAACAGAGGCTCGATAACTT
66 AGAAGCTCGACAACTTTAAAAATTCTCATCTTAAAAAGCTCCTCTCAACAGAGACTCAAGAACTT
*
22436724 TAAAAATTCTTATCTTGA
131 TAAAAATTCTCATCTTGA
* * * * *
22436742 AAAAGGCTCATCTCAGCAGAGGTTCAACAACTTTTAAAATTTTCATCTTGAAAAAAGCTTCTCTC
1 AAAAGGCTCCTCTCAGCAGAGGCTCAACAAC-TTTAAAA-TTTCATC-TGTAAAAAGCTCCTCTT
* *
22436807 AGCAGAAGCTCAACAACTTT-AAAATT-TCATCTATAAAAAGCTCCTCT
63 AGTAGAAGCTCGACAACTTTAAAAATTCTCATCT-TAAAAAGCTCCTCT
22436854 TCGAGTTCTT
Statistics
Matches: 220, Mismatches: 28, Indels: 17
0.83 0.11 0.06
Matches are distributed among these distances:
144 22 0.10
145 44 0.20
146 15 0.07
147 70 0.32
148 8 0.04
149 17 0.08
150 44 0.20
ACGTcount: A:0.37, C:0.21, G:0.13, T:0.30
Consensus pattern (148 bp):
AAAAGGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAATTTCATCTGTAAAAAGCTCCTCTTAGT
AGAAGCTCGACAACTTTAAAAATTCTCATCTTAAAAAGCTCCTCTCAACAGAGACTCAAGAACTT
TAAAAATTCTCATCTTGA
Found at i:22445946 original size:25 final size:25
Alignment explanation
Indices: 22445899--22445946 Score: 60
Period size: 25 Copynumber: 1.9 Consensus size: 25
22445889 ATATCACAAA
* *
22445899 TTTTTTTTTAAAAAATGTATTATTC
1 TTTTTTATTAAAAAATATATTATTC
* *
22445924 TTTTTTATTATAAAATATTTTAT
1 TTTTTTATTAAAAAATATATTAT
22445947 CATCAAATAG
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 19 1.00
ACGTcount: A:0.33, C:0.02, G:0.02, T:0.62
Consensus pattern (25 bp):
TTTTTTATTAAAAAATATATTATTC
Found at i:22446429 original size:16 final size:16
Alignment explanation
Indices: 22446408--22446438 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
22446398 TTAGGGTTTT
22446408 GATTTTAGAGTTTGGA
1 GATTTTAGAGTTTGGA
*
22446424 GATTTTAGGGTTTGG
1 GATTTTAGAGTTTGG
22446439 GTTTTGAGGT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.19, C:0.00, G:0.35, T:0.45
Consensus pattern (16 bp):
GATTTTAGAGTTTGGA
Found at i:22446496 original size:15 final size:16
Alignment explanation
Indices: 22446469--22446614 Score: 77
Period size: 16 Copynumber: 9.2 Consensus size: 16
22446459 GATTTCAGGG
22446469 TTTGGATTTTAGGGAT
1 TTTGGATTTTAGGGAT
22446485 TTTGGA-TTTAGGGAGT
1 TTTGGATTTTAGGGA-T
* * *
22446501 TTAGG-TTTAAGAG-T
1 TTTGGATTTTAGGGAT
*** * *
22446515 TTAAAAGTTT-GAGAT
1 TTTGGATTTTAGGGAT
*
22446530 TTTGGATTTTGGGAGAT
1 TTTGGATTTTAGG-GAT
22446547 TTTGGATTTTA-GGAGT
1 TTTGGATTTTAGGGA-T
* * **
22446563 TTCGAATTTTAGGGGG
1 TTTGGATTTTAGGGAT
*
22446579 TTTGGATTTAAGGGAT
1 TTTGGATTTTAGGGAT
* *
22446595 TTCGGATTTTTAGGGGT
1 TTTGGA-TTTTAGGGAT
22446612 TTT
1 TTT
22446615 AGAAACTGAG
Statistics
Matches: 95, Mismatches: 26, Indels: 17
0.69 0.19 0.12
Matches are distributed among these distances:
14 7 0.07
15 19 0.20
16 44 0.46
17 25 0.26
ACGTcount: A:0.21, C:0.01, G:0.32, T:0.46
Consensus pattern (16 bp):
TTTGGATTTTAGGGAT
Found at i:22446507 original size:51 final size:50
Alignment explanation
Indices: 22446394--22446508 Score: 126
Period size: 51 Copynumber: 2.2 Consensus size: 50
22446384 ATGATATGGA
* * *
22446394 AGGTTTAGGGTTTTGATTTTAGAGTTTGGAGATTTTAGGGTTTGGGTTTTG
1 AGGTTTA-GGTTTTGATTTCAGAGTTTGGAGATTTTAGGGTTTGGATTTAG
*
22446445 AGGTTTGAGGTTTTGATTTCAGGGTTT-G-GATTTTAGGGATTTTGGATTTAG
1 AGGTTT-AGGTTTTGATTTCAGAGTTTGGAGATTTTAGGG--TTTGGATTTAG
*
22446496 GGAGTTTAGGTTT
1 AG-GTTTAGGTTT
22446509 AAGAGTTTAA
Statistics
Matches: 55, Mismatches: 5, Indels: 8
0.81 0.07 0.12
Matches are distributed among these distances:
49 10 0.18
50 1 0.02
51 39 0.71
52 5 0.09
ACGTcount: A:0.17, C:0.01, G:0.35, T:0.48
Consensus pattern (50 bp):
AGGTTTAGGTTTTGATTTCAGAGTTTGGAGATTTTAGGGTTTGGATTTAG
Found at i:22446583 original size:32 final size:33
Alignment explanation
Indices: 22446547--22446610 Score: 87
Period size: 32 Copynumber: 2.0 Consensus size: 33
22446537 TTTGGGAGAT
*
22446547 TTTGGATTTTA-GGAGTTTC-GAATTTTAGGGGG
1 TTTGGATTTAAGGGA-TTTCGGAATTTTAGGGGG
*
22446579 TTTGGATTTAAGGGATTTCGGATTTTTAGGGG
1 TTTGGATTTAAGGGATTTCGGAATTTTAGGGG
22446611 TTTTAGAAAC
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
32 14 0.50
33 14 0.50
ACGTcount: A:0.19, C:0.03, G:0.34, T:0.44
Consensus pattern (33 bp):
TTTGGATTTAAGGGATTTCGGAATTTTAGGGGG
Found at i:22447903 original size:23 final size:23
Alignment explanation
Indices: 22447870--22447920 Score: 75
Period size: 23 Copynumber: 2.2 Consensus size: 23
22447860 AGGTGGGTCC
* * *
22447870 GAGAGATGTTGAAGGGGATTCGA
1 GAGAGAGGTTGAAAGAGATTCGA
22447893 GAGAGAGGTTGAAAGAGATTCGA
1 GAGAGAGGTTGAAAGAGATTCGA
22447916 GAGAG
1 GAGAG
22447921 CTTTTTGGGA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.35, C:0.04, G:0.43, T:0.18
Consensus pattern (23 bp):
GAGAGAGGTTGAAAGAGATTCGA
Found at i:22448134 original size:18 final size:19
Alignment explanation
Indices: 22448115--22448178 Score: 59
Period size: 18 Copynumber: 3.7 Consensus size: 19
22448105 TTTGTTTTTT
22448115 TTATTATAATTAATAATT-
1 TTATTATAATTAATAATTA
*
22448133 TT-TT-TAA--AAAAATTA
1 TTATTATAATTAATAATTA
*
22448148 TTATTATTATTAAT-ATTA
1 TTATTATAATTAATAATTA
*
22448166 TTATTAAAATTAA
1 TTATTATAATTAA
22448179 AATAGTAGAC
Statistics
Matches: 36, Mismatches: 5, Indels: 10
0.71 0.10 0.20
Matches are distributed among these distances:
14 6 0.17
15 2 0.06
16 5 0.14
17 4 0.11
18 17 0.47
19 2 0.06
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (19 bp):
TTATTATAATTAATAATTA
Found at i:22448164 original size:12 final size:12
Alignment explanation
Indices: 22448144--22448177 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
22448134 TTTTAAAAAA
*
22448144 ATTATTATTATT
1 ATTAATATTATT
22448156 ATTAATATTATT
1 ATTAATATTATT
*
22448168 ATTAAAATTA
1 ATTAATATTA
22448178 AAATAGTAGA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (12 bp):
ATTAATATTATT
Found at i:22448512 original size:110 final size:110
Alignment explanation
Indices: 22448315--22448535 Score: 271
Period size: 110 Copynumber: 2.0 Consensus size: 110
22448305 AAACATAAAA
* * * * * *
22448315 CGATTGGGATGACACCATAAGTTGAAAAATAATGAATCGATCGAGATAATATCGCGAATCAAATT
1 CGATTGGGATAACACCACAAGTTGAAAAATAAAGAATCGATCGAGATAACACCACGAATCAAATT
* * * * *
22448380 TATGCCCGGAGGTTTTACAAATCATGTCCGGAGGTCTTACAGAAT
66 TATGCCCGAAGGTCTTAAAAATCATGCCCGAAGGTCTTACAGAAT
** * * * * *
22448425 CGATTGGGATAACACTGCAAGTTGAAAAATAAAGAATCGATTGGGGTAACACCATGAATCGAATT
1 CGATTGGGATAACACCACAAGTTGAAAAATAAAGAATCGATCGAGATAACACCACGAATCAAATT
*
22448490 TATGCCCGAAGGTCTTAAAAATCATGCCCGAAGGTCTTATAGAAT
66 TATGCCCGAAGGTCTTAAAAATCATGCCCGAAGGTCTTACAGAAT
22448535 C
1 C
22448536 ATGCCCTAAA
Statistics
Matches: 92, Mismatches: 19, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
110 92 1.00
ACGTcount: A:0.36, C:0.17, G:0.22, T:0.25
Consensus pattern (110 bp):
CGATTGGGATAACACCACAAGTTGAAAAATAAAGAATCGATCGAGATAACACCACGAATCAAATT
TATGCCCGAAGGTCTTAAAAATCATGCCCGAAGGTCTTACAGAAT
Found at i:22448539 original size:23 final size:22
Alignment explanation
Indices: 22448491--22448559 Score: 93
Period size: 22 Copynumber: 3.0 Consensus size: 22
22448481 AATCGAATTT
*
22448491 ATGCCCGAAGGTCTTAAAAATC
1 ATGCCCGAAGGTCTTAAGAATC
22448513 ATGCCCGAAGGTCTTATAGAATC
1 ATGCCCGAAGGTCTTA-AGAATC
*
22448536 ATGCCCTAAAGGTCTTACAGAATC
1 ATGCCC-GAAGGTCTTA-AGAATC
22448560 GACTGAGATA
Statistics
Matches: 42, Mismatches: 3, Indels: 2
0.89 0.06 0.04
Matches are distributed among these distances:
22 16 0.38
23 11 0.26
24 15 0.36
ACGTcount: A:0.33, C:0.23, G:0.19, T:0.25
Consensus pattern (22 bp):
ATGCCCGAAGGTCTTAAGAATC
Found at i:22448759 original size:23 final size:23
Alignment explanation
Indices: 22448712--22448779 Score: 75
Period size: 23 Copynumber: 3.0 Consensus size: 23
22448702 AATCGAATTT
*
22448712 ATGCCCGGAGGTCTT-TAGAACTC
1 ATGCCCGGAGGTCTTACAGAA-TC
22448735 ATGCCCGGAGGTCTTACAGAATC
1 ATGCCCGGAGGTCTTACAGAATC
*** *
22448758 ATGCATAGAGATCTTACAGAAT
1 ATGCCCGGAGGTCTTACAGAAT
22448780 TGACTGATAT
Statistics
Matches: 39, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
23 35 0.90
24 4 0.10
ACGTcount: A:0.29, C:0.22, G:0.24, T:0.25
Consensus pattern (23 bp):
ATGCCCGGAGGTCTTACAGAATC
Found at i:22448794 original size:221 final size:219
Alignment explanation
Indices: 22448449--22448865 Score: 593
Period size: 221 Copynumber: 1.9 Consensus size: 219
22448439 CTGCAAGTTG
* **
22448449 AAAAATAAAGAATCGATTGGGGTAACACCATGAATCGAATTTATGCCCGAAGGTCTTAAAAATCA
1 AAAAATAAAGAATCGATTGGGATAACACCACAAATCGAATTTATGCCCGAAGGTCTTAAAAATCA
* * *
22448514 TGCCCGAAGGTCTTATAGAATCATGCCCTAAAGGTCTTACAGAATCGACTGAGATAACACCACAA
66 TGCCCGAAGGTCTTACAGAATCATGCCATAAAGATCTTACAGAATCGACTGAGATAACACCACAA
* * * * * * *
22448579 GTCGAAAGATAAAGAATCGATCGGGATAACACCGTGAATCAAATTTATGCGCGGAGGTCTTTGAA
131 ATC-AAAAATAAAGAATCGATCGGGACAACACCGCGAATCAAAATTATGCCCGGAGGTCTTAGAA
22448644 ATCAATTGGAATAGCATCACAAGTC
195 ATCAATTGGAATAGCATCACAAGTC
* * *
22448669 AAAAGATAAAGAATCGATTGGGATAACACCACAAATCGAATTTATGCCCGGAGGTCTTTAGAACT
1 AAAA-ATAAAGAATCGATTGGGATAACACCACAAATCGAATTTATGCCCGAAGGTC-TTAAAAAT
* * * * **
22448734 CATGCCCGGAGGTCTTACAGAATCATG-CATAGAGATCTTACAGAATTGACTGATATAACACCGT
64 CATGCCCGAAGGTCTTACAGAATCATGCCATAAAGATCTTACAGAATCGACTGAGATAACACCAC
*
22448798 AAATCAAAAATAAAGAATCGATCGGGACAACATCGCGAATCAAAATTATGCCCGGAGGTCTTAGA
129 AAATCAAAAATAAAGAATCGATCGGGACAACACCGCGAATCAAAATTATGCCCGGAGGTCTTAGA
22448863 AAT
194 AAT
22448866 GATGTCCGGA
Statistics
Matches: 172, Mismatches: 23, Indels: 4
0.86 0.12 0.02
Matches are distributed among these distances:
220 60 0.35
221 81 0.47
222 31 0.18
ACGTcount: A:0.39, C:0.19, G:0.20, T:0.23
Consensus pattern (219 bp):
AAAAATAAAGAATCGATTGGGATAACACCACAAATCGAATTTATGCCCGAAGGTCTTAAAAATCA
TGCCCGAAGGTCTTACAGAATCATGCCATAAAGATCTTACAGAATCGACTGAGATAACACCACAA
ATCAAAAATAAAGAATCGATCGGGACAACACCGCGAATCAAAATTATGCCCGGAGGTCTTAGAAA
TCAATTGGAATAGCATCACAAGTC
Found at i:22448874 original size:22 final size:22
Alignment explanation
Indices: 22448840--22448882 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
22448830 TCGCGAATCA
*
22448840 AAATTATGCCCGGAGGTCTTAG
1 AAATGATGCCCGGAGGTCTTAG
*
22448862 AAATGATGTCCGGAGGTCTTA
1 AAATGATGCCCGGAGGTCTTA
22448883 CAGAATCTAT
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:0.28, C:0.16, G:0.28, T:0.28
Consensus pattern (22 bp):
AAATGATGCCCGGAGGTCTTAG
Found at i:22448928 original size:110 final size:109
Alignment explanation
Indices: 22448801--22448999 Score: 292
Period size: 110 Copynumber: 1.8 Consensus size: 109
22448791 ACACCGTAAA
* *
22448801 TCAAAAATAAAGAATCGATCGGGACAACATCGCGAATCAAAATTATGCCCGGAGGTCTTAGAAAT
1 TCAAAAATAAAGAATCGATCGGGACAACACCGCGAATCAAAATTATGCCCGAAGGTCTTAGAAAT
* *
22448866 GATGTCC-GGAGGTCTTACAGAATCTATTGGAATAATACCACAAG
66 CAT-ACCTGGAGGTCTTACAGAATCTATTGGAATAATACCACAAG
* * * *
22448910 TCAAAAGATAAAGAATCGATTGGGATAACACCGCGAATCGAATTTATGCCCGAAGGTCTTAGAAA
1 TCAAAA-ATAAAGAATCGATCGGGACAACACCGCGAATCAAAATTATGCCCGAAGGTCTTAGAAA
*
22448975 TCATACCTGGAGGTCTTACATAATC
65 TCATACCTGGAGGTCTTACAGAATC
22449000 ATGTCTGGAG
Statistics
Matches: 79, Mismatches: 9, Indels: 3
0.87 0.10 0.03
Matches are distributed among these distances:
109 8 0.10
110 71 0.90
ACGTcount: A:0.38, C:0.19, G:0.21, T:0.23
Consensus pattern (109 bp):
TCAAAAATAAAGAATCGATCGGGACAACACCGCGAATCAAAATTATGCCCGAAGGTCTTAGAAAT
CATACCTGGAGGTCTTACAGAATCTATTGGAATAATACCACAAG
Found at i:22448991 original size:22 final size:23
Alignment explanation
Indices: 22448963--22449022 Score: 77
Period size: 23 Copynumber: 2.7 Consensus size: 23
22448953 TTATGCCCGA
*
22448963 AGGTCTTAGA-AATCATACCTGG
1 AGGTCTTACATAATCATACCTGG
**
22448985 AGGTCTTACATAATCATGTCTGG
1 AGGTCTTACATAATCATACCTGG
*
22449008 AGGTCTTACAGAATC
1 AGGTCTTACATAATC
22449023 GACTGGAATA
Statistics
Matches: 33, Mismatches: 4, Indels: 1
0.87 0.11 0.03
Matches are distributed among these distances:
22 9 0.27
23 24 0.73
ACGTcount: A:0.30, C:0.18, G:0.22, T:0.30
Consensus pattern (23 bp):
AGGTCTTACATAATCATACCTGG
Found at i:22449049 original size:133 final size:132
Alignment explanation
Indices: 22448851--22449155 Score: 430
Period size: 133 Copynumber: 2.3 Consensus size: 132
22448841 AATTATGCCC
* * * * *
22448851 GGAGGTCTTAGAAATGATGTCCGGAGGTCTTACAGAATCTATTGGAATAATACCACAAGTCAAAA
1 GGAGGTCTTACAAATCATGTCCGGAGGTCTTACAGAATCGACTGGAATAACACCACAAGTCAAAA
* * * *
22448916 GATAAAGAATCGATTGGGATAACACCGCGAATCGAATTTATGCCCGAAGGTCTTAGAAATCATAC
66 GATAAAAAATCGATCGAGATAACACCGCGAATCGAATTTATGCACGAAGGTCTTAGAAATCATAC
22448981 CT
131 CT
* *
22448983 GGAGGTCTTACATAATCATGTCTGGAGGTCTTACAGAATCGACTGGAATAACACCATAAGTCAAA
1 GGAGGTCTTACA-AATCATGTCCGGAGGTCTTACAGAATCGACTGGAATAACACCACAAGTCAAA
* * *
22449048 AGATAAAAAATCGATCGAGATAACACTGCGAATCGAATTTATGCATGAAGGTCTTAGAAATCATG
65 AGATAAAAAATCGATCGAGATAACACCGCGAATCGAATTTATGCACGAAGGTCTTAGAAATCATA
22449113 CCT
130 CCT
* * *
22449116 GGAGGTCTTACAGAATCATATTCCCGAGGTTTTACAGAAT
1 GGAGGTCTTACA-AATCAT-GTCCGGAGGTCTTACAGAAT
22449156 TGCTCGGAGG
Statistics
Matches: 152, Mismatches: 19, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
132 11 0.07
133 125 0.82
134 16 0.11
ACGTcount: A:0.36, C:0.17, G:0.21, T:0.25
Consensus pattern (132 bp):
GGAGGTCTTACAAATCATGTCCGGAGGTCTTACAGAATCGACTGGAATAACACCACAAGTCAAAA
GATAAAAAATCGATCGAGATAACACCGCGAATCGAATTTATGCACGAAGGTCTTAGAAATCATAC
CT
Found at i:22449296 original size:22 final size:23
Alignment explanation
Indices: 22449258--22449324 Score: 82
Period size: 23 Copynumber: 3.0 Consensus size: 23
22449248 ACCGCGAATC
* *
22449258 AAAATTATGCCCTGAGGTCTTA-
1 AAAATCATGCCCGGAGGTCTTAT
* * *
22449280 GACATCATGCTCGGAGGTCTTAT
1 AAAATCATGCCCGGAGGTCTTAT
22449303 AAAATCATGCCCGGAGGTCTTA
1 AAAATCATGCCCGGAGGTCTTA
22449325 CAGAATCGAC
Statistics
Matches: 36, Mismatches: 8, Indels: 1
0.80 0.18 0.02
Matches are distributed among these distances:
22 17 0.47
23 19 0.53
ACGTcount: A:0.28, C:0.21, G:0.22, T:0.28
Consensus pattern (23 bp):
AAAATCATGCCCGGAGGTCTTAT
Found at i:22449331 original size:23 final size:22
Alignment explanation
Indices: 22449264--22449331 Score: 75
Period size: 23 Copynumber: 3.0 Consensus size: 22
22449254 AATCAAAATT
*
22449264 ATGCCCTGAGGTCTT-AGACATC
1 ATGCCCGGAGGTCTTAAGA-ATC
* *
22449286 ATGCTCGGAGGTCTTATAAAATC
1 ATGCCCGGAGGTCTTA-AGAATC
22449309 ATGCCCGGAGGTCTTACAGAATC
1 ATGCCCGGAGGTCTTA-AGAATC
22449332 GACTGGGATA
Statistics
Matches: 38, Mismatches: 6, Indels: 3
0.81 0.13 0.06
Matches are distributed among these distances:
22 13 0.34
23 23 0.61
24 2 0.05
ACGTcount: A:0.26, C:0.24, G:0.24, T:0.26
Consensus pattern (22 bp):
ATGCCCGGAGGTCTTAAGAATC
Found at i:22449411 original size:133 final size:132
Alignment explanation
Indices: 22449156--22449596 Score: 573
Period size: 133 Copynumber: 3.3 Consensus size: 132
22449146 TTTACAGAAT
* * * * * * * *
22449156 TGCTCGGAGGTATTA-GAAATCATGCTCGAAGGTTTTACAGAATTGATTGGGATAACACCGTAAG
1 TGCTCGGAGGTCTTATAAAATCATGCCCGGAGGTCTTACAGAATCGACTGGGATAACACCATAAG
* * *
22449220 TCAAAA-ATAAAGAATCGATTGGGACAACACCGCGAATCAAAATTATGCCCTGAGGTCTTAGACA
66 TCAAAAGATAAAGAATCGATCGGGACAACACCGCGAATCAAATTTATGCCC-GAGGTCTTAGAAA
22449284 TCA
130 TCA
*
22449287 TGCTCGGAGGTCTTATAAAATCATGCCCGGAGGTCTTACAGAATCGACTGGGATAACACCACAAG
1 TGCTCGGAGGTCTTATAAAATCATGCCCGGAGGTCTTACAGAATCGACTGGGATAACACCATAAG
* * *
22449352 TCAAAAGATAAAGAATCGATCGAGACAACACCACGAATCAAATTTATGCCCGAATGTCTTAGAAA
66 TCAAAAGATAAAGAATCGATCGGGACAACACCGCGAATCAAATTTATGCCCG-AGGTCTTAGAAA
22449417 TCA
130 TCA
* * * *
22449420 TGCTCGGAGGTCTTGTAGAATCATGCCTGGAGGTCTTACTA-AATCAACTGGGATAACACCATAA
1 TGCTCGGAGGTCTTATAAAATCATGCCCGGAGGTCTTAC-AGAATCGACTGGGATAACACCATAA
* * *
22449484 GTCAAAAGATAAAGAATCGATCGGGATAACACCGCGAATCAAATTTATACTCGGAGGTCTTAGAA
65 GTCAAAAGATAAAGAATCGATCGGGACAACACCGCGAATCAAATTTATGC-CCGAGGTCTTAGAA
22449549 ATCA
129 ATCA
* * * * * *
22449553 TACCCGAAAGTCTTATAGAATCATGCTCGGAGGTCTTACAGAAT
1 TGCTCGGAGGTCTTATAAAATCATGCCCGGAGGTCTTACAGAAT
22449597 TGCCCGGAGG
Statistics
Matches: 271, Mismatches: 33, Indels: 10
0.86 0.11 0.03
Matches are distributed among these distances:
131 14 0.05
132 49 0.18
133 205 0.76
134 3 0.01
ACGTcount: A:0.36, C:0.20, G:0.21, T:0.24
Consensus pattern (132 bp):
TGCTCGGAGGTCTTATAAAATCATGCCCGGAGGTCTTACAGAATCGACTGGGATAACACCATAAG
TCAAAAGATAAAGAATCGATCGGGACAACACCGCGAATCAAATTTATGCCCGAGGTCTTAGAAAT
CA
Found at i:22449464 original size:23 final size:22
Alignment explanation
Indices: 22449414--22449465 Score: 61
Period size: 23 Copynumber: 2.3 Consensus size: 22
22449404 AATGTCTTAG
*
22449414 AAATCATGCTCGGAGGTCTTGT
1 AAATCATGCTCGGAGGTCTTCT
22449436 AGAATCATGC-CTGGAGGTCTTACT
1 A-AATCATGCTC-GGAGGTCTT-CT
22449460 AAATCA
1 AAATCA
22449466 ACTGGGATAA
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
22 2 0.08
23 22 0.85
24 2 0.08
ACGTcount: A:0.29, C:0.19, G:0.23, T:0.29
Consensus pattern (22 bp):
AAATCATGCTCGGAGGTCTTCT
Found at i:22449575 original size:442 final size:440
Alignment explanation
Indices: 22448845--22449770 Score: 1243
Period size: 442 Copynumber: 2.1 Consensus size: 440
22448835 AATCAAAATT
* * * * *
22448845 ATGCCCGGAGGTCTTAGAAATGATGTCCGGAGGTCTTACAGAATCTATTGGAATAATACCACAAG
1 ATGCCCGGAGGTCTTAGAAATCATGCCCGGAGGTCTTACAGAATCGACTGGAATAACACCACAAG
* * * * *
22448910 TCAAAAGATAAAGAATCGATTGGGATAACACCGCGAATCGAATTTATGCCCGAAGGTCTTAGAAA
66 TCAAAAGATAAAGAATCGATCGAGACAACACCACGAATCAAATTTATGCCCGAAGGTCTTAGAAA
* * *
22448975 TCATACCTGGAGGTCTTACATAATCATGTCTGGAGGTCTTACAGAATCGACTGGAATAACACCAT
131 TCATACCTGGAGGTCTTACAGAATCATGCCTGGAGGTCTTACAGAATCAACTGGAATAACACCAT
* * *
22449040 AAGTCAAAAGATAAAAAATCGATCGAGATAACACTGCGAATCGAATTTATGCATGAAGGTCTTAG
196 AAGTCAAAAGATAAAAAATCGATCGAGATAACACCGCGAATCAAATTTATACATGAAGGTCTTAG
* * * * * * *
22449105 AAATCATGCCTGGAGGTCTTACAGAATCATATTCCCGAGGTTTTACAGAATTGCTCGGAGGTATT
261 AAATCATACCCGAAAGTCTTACAGAATCATACT-CCGAGGTCTTACAGAATTGCCCGGAGGTATT
* * * *
22449170 AGAAATCATG-CTCGAAGGTTTTACAGAATTGATTGGGATAACACCGTAAGTCAAAAATAAAGAA
325 AGAAATCATGTC-CGAAGGTCTTACAGAATTGACTGGGATAACACCGCAAGTCAAAAATAAAAAA
* * *
22449234 TCGATTGGGACAACACCGCGAATCAAAATTATGCCCT-GAGGTCTTAGACATC
389 TCGATCGGGACAACACAGCGAATCAAAATTAT-ACCTGGAGGTCTTAGACATC
* * *
22449286 ATGCTCGGAGGTCTTATAAAATCATGCCCGGAGGTCTTACAGAATCGACTGGGATAACACCACAA
1 ATGCCCGGAGGTCTTA-GAAATCATGCCCGGAGGTCTTACAGAATCGACTGGAATAACACCACAA
*
22449351 GTCAAAAGATAAAGAATCGATCGAGACAACACCACGAATCAAATTTATGCCCGAATGTCTTAGAA
65 GTCAAAAGATAAAGAATCGATCGAGACAACACCACGAATCAAATTTATGCCCGAAGGTCTTAGAA
* ** *
22449416 ATCAT-GCTCGGAGGTCTTGTAGAATCATGCCTGGAGGTCTTACTA-AATCAACTGGGATAACAC
130 ATCATACCT-GGAGGTCTTACAGAATCATGCCTGGAGGTCTTAC-AGAATCAACTGGAATAACAC
* * *
22449479 CATAAGTCAAAAGATAAAGAATCGATCGGGATAACACCGCGAATCAAATTTATAC-TCGGAGGTC
193 CATAAGTCAAAAGATAAAAAATCGATCGAGATAACACCGCGAATCAAATTTATACAT-GAAGGTC
* * *
22449543 TTAGAAATCATACCCGAAAGTCTTATAGAATCATGCTCGGAGGTCTTACAGAATTGCCCGGAGGT
257 TTAGAAATCATACCCGAAAGTCTTACAGAATCATACTCCGAGGTCTTACAGAATTGCCCGGAGGT
* * * * *
22449608 CTTAGAAATCATGTCCGGAGGTCTTATAGAATTGACTGGGATAACACTGCAAGTCAGAAATAAAA
322 ATTAGAAATCATGTCCGAAGGTCTTACAGAATTGACTGGGATAACACCGCAAGTCAAAAATAAAA
* * *
22449673 AATCGATCGGGACAATACAGCGAATCGAAATTATACTTGGAGGTCTTAGACATC
387 AATCGATCGGGACAACACAGCGAATCAAAATTATACCTGGAGGTCTTAGACATC
* * * *
22449727 ATGCCCAGAGGTCTTAGAGATTATGCCTGGAGGTCTTACA-AATC
1 ATGCCCGGAGGTCTTAGAAATCATGCCCGGAGGTCTTACAGAATC
22449771 TCAAAATCTT
Statistics
Matches: 421, Mismatches: 58, Indels: 14
0.85 0.12 0.03
Matches are distributed among these distances:
439 4 0.01
440 22 0.05
441 156 0.37
442 238 0.57
443 1 0.00
ACGTcount: A:0.35, C:0.19, G:0.22, T:0.24
Consensus pattern (440 bp):
ATGCCCGGAGGTCTTAGAAATCATGCCCGGAGGTCTTACAGAATCGACTGGAATAACACCACAAG
TCAAAAGATAAAGAATCGATCGAGACAACACCACGAATCAAATTTATGCCCGAAGGTCTTAGAAA
TCATACCTGGAGGTCTTACAGAATCATGCCTGGAGGTCTTACAGAATCAACTGGAATAACACCAT
AAGTCAAAAGATAAAAAATCGATCGAGATAACACCGCGAATCAAATTTATACATGAAGGTCTTAG
AAATCATACCCGAAAGTCTTACAGAATCATACTCCGAGGTCTTACAGAATTGCCCGGAGGTATTA
GAAATCATGTCCGAAGGTCTTACAGAATTGACTGGGATAACACCGCAAGTCAAAAATAAAAAATC
GATCGGGACAACACAGCGAATCAAAATTATACCTGGAGGTCTTAGACATC
Found at i:22449588 original size:23 final size:23
Alignment explanation
Indices: 22449533--22449639 Score: 98
Period size: 22 Copynumber: 4.8 Consensus size: 23
22449523 CAAATTTATA
*
22449533 CTCGGAGGTCTTAGA-AATCATA
1 CTCGGAGGTCTTAGAGAATCATG
* * * *
22449555 CCCGAAAGTCTTATAGAATCATG
1 CTCGGAGGTCTTAGAGAATCATG
*
22449578 CTCGGAGGTCTTACAGAAT--TG
1 CTCGGAGGTCTTAGAGAATCATG
*
22449599 CCCGGAGGTCTTAGA-AATCATG
1 CTCGGAGGTCTTAGAGAATCATG
*
22449621 -TCCGGAGGTCTTATAGAAT
1 CT-CGGAGGTCTTAGAGAAT
22449640 TGACTGGGAT
Statistics
Matches: 67, Mismatches: 13, Indels: 9
0.75 0.15 0.10
Matches are distributed among these distances:
20 3 0.04
21 15 0.22
22 25 0.37
23 24 0.36
ACGTcount: A:0.29, C:0.20, G:0.24, T:0.27
Consensus pattern (23 bp):
CTCGGAGGTCTTAGAGAATCATG
Found at i:22449648 original size:176 final size:175
Alignment explanation
Indices: 22449424--22449766 Score: 421
Period size: 175 Copynumber: 2.0 Consensus size: 175
22449414 AAATCATGCT
*
22449424 CGGAGGTCTTGTAGAATCATGCCTGGAGGTCTTACTAAATCAACTGGGATAACACCATAAGTCAA
1 CGGAGGTCTTGTAGAATCATGCCTGGAGGTCTTACTAAATCAACTGGGATAACACCACAAGTCAA
* * *
22449489 AAGATAAAGAATCGATCGGGATAACACCGCGAATC-AAATTTATACTCGGAGGTCTTAGAAATCA
66 AA-ATAAAAAATCGATCGGGACAACACAGCGAATCGAAA-TTATACTCGGAGGTCTTAGAAATCA
*
22449553 TACCC-GAAAGTCTTATAGAATCATG-CTCGGAGGTCTTACAGAATTGCC
129 TACCCAG-AAGTCTTAGAG-ATCATGCCT-GGAGGTCTTACAGAATTGCC
** **
22449601 CGGAGGTC-T-TAGAAATCATGTCC-GGAGGTCTTA-TAGAATTGACTGGGATAACACTGCAAGT
1 CGGAGGTCTTGTAG-AATCATG-CCTGGAGGTCTTACTA-AATCAACTGGGATAACACCACAAGT
* * * *
22449662 CAGAAATAAAAAATCGATCGGGACAATACAGCGAATCGAAATTATACTTGGAGGTCTTAGACATC
63 CAAAAATAAAAAATCGATCGGGACAACACAGCGAATCGAAATTATACTCGGAGGTCTTAGAAATC
* * *
22449727 ATGCCCAGAGGTCTTAGAGATTATGCCTGGAGGTCTTACA
128 ATACCCAGAAGTCTTAGAGATCATGCCTGGAGGTCTTACA
22449767 AATCTCAAAA
Statistics
Matches: 144, Mismatches: 16, Indels: 15
0.82 0.09 0.09
Matches are distributed among these distances:
174 17 0.12
175 71 0.49
176 46 0.32
177 10 0.07
ACGTcount: A:0.34, C:0.19, G:0.23, T:0.24
Consensus pattern (175 bp):
CGGAGGTCTTGTAGAATCATGCCTGGAGGTCTTACTAAATCAACTGGGATAACACCACAAGTCAA
AAATAAAAAATCGATCGGGACAACACAGCGAATCGAAATTATACTCGGAGGTCTTAGAAATCATA
CCCAGAAGTCTTAGAGATCATGCCTGGAGGTCTTACAGAATTGCC
Found at i:22449740 original size:22 final size:22
Alignment explanation
Indices: 22449712--22449764 Score: 70
Period size: 22 Copynumber: 2.4 Consensus size: 22
22449702 ATTATACTTG
22449712 GAGGTCTTAGACATCATGCCCA
1 GAGGTCTTAGACATCATGCCCA
* * **
22449734 GAGGTCTTAGAGATTATGCCTG
1 GAGGTCTTAGACATCATGCCCA
22449756 GAGGTCTTA
1 GAGGTCTTA
22449765 CAAATCTCAA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.25, C:0.19, G:0.28, T:0.28
Consensus pattern (22 bp):
GAGGTCTTAGACATCATGCCCA
Found at i:22449899 original size:120 final size:120
Alignment explanation
Indices: 22449732--22449956 Score: 335
Period size: 120 Copynumber: 1.9 Consensus size: 120
22449722 ACATCATGCC
* *
22449732 CAGAGGTCTTAGAGATTATGCCTGGAGGTCTTACAAATCTCAAAATCTTTGAATGCTCCTCATAA
1 CAGAGGTCTTAGAGATTATGCCCGGAGATCTTACAAATCTCAAAATCTTTGAATGCTCCTCATAA
* *
22449797 TCAAAGACAATGAAACTTT-AAATTTTAAAATCTTTTAATCTTGAAAGTCGTGCG
66 TCAAAGACAATGAAACTTTAAAATTTAAAAATATTTTAATCTTGAAAGTCGTGCG
* * *
22449851 CAGAGGCTTTTAGAGATTATGCCCGGAGATCTTATAAATCTTAAAATCTTTGAATGCTCCTCATA
1 CAGAGG-TCTTAGAGATTATGCCCGGAGATCTTACAAATCTCAAAATCTTTGAATGCTCCTCATA
* * *
22449916 ATCAGAGGCAATGAAATTTTAAAAATTTAAAAATATTTTAA
65 ATCAAAGACAATGAAACTTT-AAAATTTAAAAATATTTTAA
22449957 AACATGACTT
Statistics
Matches: 93, Mismatches: 10, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
119 6 0.06
120 70 0.75
122 17 0.18
ACGTcount: A:0.36, C:0.15, G:0.15, T:0.33
Consensus pattern (120 bp):
CAGAGGTCTTAGAGATTATGCCCGGAGATCTTACAAATCTCAAAATCTTTGAATGCTCCTCATAA
TCAAAGACAATGAAACTTTAAAATTTAAAAATATTTTAATCTTGAAAGTCGTGCG
Found at i:22450075 original size:41 final size:41
Alignment explanation
Indices: 22450013--22450091 Score: 131
Period size: 41 Copynumber: 1.9 Consensus size: 41
22450003 TTTTTAAGGA
*
22450013 TGGTTCCCTCTAAACAGAGGCTTTGAAATCTTGATTGAAGT
1 TGGTTCCCTCTAAACAAAGGCTTTGAAATCTTGATTGAAGT
* *
22450054 TGGTTCCTTTTAAACAAAGGCTTTGAAATCTTGATTGA
1 TGGTTCCCTCTAAACAAAGGCTTTGAAATCTTGATTGA
22450092 GAATGATTCT
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
41 35 1.00
ACGTcount: A:0.28, C:0.15, G:0.20, T:0.37
Consensus pattern (41 bp):
TGGTTCCCTCTAAACAAAGGCTTTGAAATCTTGATTGAAGT
Found at i:22452373 original size:10 final size:10
Alignment explanation
Indices: 22452358--22452383 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
22452348 TAATAAAATC
22452358 TTAAAATTTA
1 TTAAAATTTA
22452368 TTAAAATTTA
1 TTAAAATTTA
22452378 TTAAAA
1 TTAAAA
22452384 AGATAATTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 16 1.00
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (10 bp):
TTAAAATTTA
Found at i:22453340 original size:21 final size:21
Alignment explanation
Indices: 22453297--22453340 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
22453287 CATAAATGTT
* *
22453297 AATAATAATTAAAATAACATA
1 AATAATAATAAAAAAAACATA
22453318 AATAATATATAAAAAAAAC-TA
1 AATAATA-ATAAAAAAAACATA
22453339 AA
1 AA
22453341 AATTTTTTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 11 0.55
22 9 0.45
ACGTcount: A:0.70, C:0.05, G:0.00, T:0.25
Consensus pattern (21 bp):
AATAATAATAAAAAAAACATA
Found at i:22454275 original size:16 final size:15
Alignment explanation
Indices: 22454237--22454279 Score: 50
Period size: 16 Copynumber: 2.7 Consensus size: 15
22454227 GATAAGGAAG
22454237 AAGAAGAAAGAAAAAA
1 AAGAAGAAA-AAAAAA
*
22454253 AAAAAGAAAAAAGAAA
1 AAGAAGAAAAAA-AAA
*
22454269 CAGAAGAAAAA
1 AAGAAGAAAAA
22454280 TAAATAATAA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
15 3 0.13
16 20 0.87
ACGTcount: A:0.81, C:0.02, G:0.16, T:0.00
Consensus pattern (15 bp):
AAGAAGAAAAAAAAA
Found at i:22454288 original size:3 final size:3
Alignment explanation
Indices: 22454282--22454319 Score: 67
Period size: 3 Copynumber: 12.7 Consensus size: 3
22454272 AAGAAAAATA
*
22454282 AAT AAT AAT AAT AAT AAT AAT AAT GAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
22454320 CAATTAAAAA
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.66, C:0.00, G:0.03, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:22456282 original size:13 final size:14
Alignment explanation
Indices: 22456258--22456286 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
22456248 GAAAAGCTTT
22456258 AGTAGAAGAGAGAA
1 AGTAGAAGAGAGAA
22456272 AGTAG-AGAGAGAA
1 AGTAGAAGAGAGAA
22456285 AG
1 AG
22456287 AATAGAGAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 10 0.67
14 5 0.33
ACGTcount: A:0.55, C:0.00, G:0.38, T:0.07
Consensus pattern (14 bp):
AGTAGAAGAGAGAA
Found at i:22456592 original size:16 final size:16
Alignment explanation
Indices: 22456555--22456603 Score: 57
Period size: 16 Copynumber: 3.2 Consensus size: 16
22456545 ATTTGAAAAC
22456555 AAATAAAA--TTAAGA
1 AAATAAAATTTTAAGA
* *
22456569 AAACAAAATTTTAGGA
1 AAATAAAATTTTAAGA
*
22456585 AAATAAAATTTGAAGA
1 AAATAAAATTTTAAGA
22456601 AAA
1 AAA
22456604 CAAAGAAAAA
Statistics
Matches: 28, Mismatches: 5, Indels: 2
0.80 0.14 0.06
Matches are distributed among these distances:
14 7 0.25
16 21 0.75
ACGTcount: A:0.65, C:0.02, G:0.10, T:0.22
Consensus pattern (16 bp):
AAATAAAATTTTAAGA
Found at i:22461827 original size:3 final size:3
Alignment explanation
Indices: 22461819--22461883 Score: 121
Period size: 3 Copynumber: 21.7 Consensus size: 3
22461809 AAAATAAATT
*
22461819 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTG TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
22461867 TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TT
22461884 TTGTTTGAAA
Statistics
Matches: 60, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
3 60 1.00
ACGTcount: A:0.31, C:0.00, G:0.02, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:22463636 original size:46 final size:45
Alignment explanation
Indices: 22463534--22463645 Score: 120
Period size: 46 Copynumber: 2.4 Consensus size: 45
22463524 GAATCTTTGG
* * * *
22463534 ATTTTGGATGTGAATTTCTAAGATTTTTTGAATGAGAATCTTTGA
1 ATTTTGGATGTGAATTTCTAAGATTGTTCGAATGAGAATATTTAA
*
22463579 ATTTTAAGATGTGAATCTT-TAAGACTTGTTCGAATGTA-AATATTTAA
1 ATTTT-GGATGTGAAT-TTCTAAGA-TTGTTCGAATG-AGAATATTTAA
*
22463626 ATTTTGGATGTAAATTTCTA
1 ATTTTGGATGTGAATTTCTA
22463646 TAATTTTTGA
Statistics
Matches: 55, Mismatches: 7, Indels: 9
0.77 0.10 0.13
Matches are distributed among these distances:
45 7 0.13
46 24 0.44
47 23 0.42
48 1 0.02
ACGTcount: A:0.32, C:0.05, G:0.17, T:0.46
Consensus pattern (45 bp):
ATTTTGGATGTGAATTTCTAAGATTGTTCGAATGAGAATATTTAA
Found at i:22463672 original size:22 final size:22
Alignment explanation
Indices: 22463524--22463706 Score: 74
Period size: 22 Copynumber: 8.1 Consensus size: 22
22463514 AAAAAAAAGA
** *
22463524 GAATCTTTGGATTTTGGA-TGT
1 GAATCTTTAAATTTTTGAGTGT
* *
22463545 GAAT-TTCTAAGATTTTTTGAATGA
1 GAATCTT-TAA-A-TTTTTGAGTGT
* *
22463569 GAATCTTTGAA-TTTTAAGATGT
1 GAATCTTTAAATTTTTGAG-TGT
* *
22463591 GAATCTTTAAGACTTGTTCGAATGT
1 GAATCTTTAA-A-TT-TTTGAGTGT
* * *
22463616 AAATATTTAAATTTTGGA-TGT
1 GAATCTTTAAATTTTTGAGTGT
*
22463637 AAAT-TTCTATAATTTTTGAGTGT
1 GAATCTT-TA-AATTTTTGAGTGT
*
22463660 GAATCTTTAAATTTTT-AGTTGA
1 GAATCTTTAAATTTTTGAG-TGT
* *
22463682 GAATCTTGAAAATTTT-AGATGT
1 GAATCTTTAAATTTTTGAG-TGT
22463704 GAA
1 GAA
22463707 CCTCTAAAAT
Statistics
Matches: 125, Mismatches: 22, Indels: 29
0.71 0.12 0.16
Matches are distributed among these distances:
20 4 0.03
21 21 0.17
22 54 0.43
23 18 0.14
24 11 0.09
25 14 0.11
26 3 0.02
ACGTcount: A:0.32, C:0.05, G:0.18, T:0.45
Consensus pattern (22 bp):
GAATCTTTAAATTTTTGAGTGT
Found at i:22463879 original size:21 final size:22
Alignment explanation
Indices: 22463855--22463900 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 22
22463845 TTACGAATCT
* *
22463855 TTACAATTGTG-AACTTTAAAA
1 TTACAATTATGAAAATTTAAAA
*
22463876 TTACATTTATGAAAATTTAAAA
1 TTACAATTATGAAAATTTAAAA
22463898 TTA
1 TTA
22463901 TTTATGAATC
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
21 9 0.43
22 12 0.57
ACGTcount: A:0.46, C:0.07, G:0.07, T:0.41
Consensus pattern (22 bp):
TTACAATTATGAAAATTTAAAA
Found at i:22463905 original size:20 final size:21
Alignment explanation
Indices: 22463869--22463908 Score: 64
Period size: 20 Copynumber: 1.9 Consensus size: 21
22463859 AATTGTGAAC
22463869 TTTAAAATTACATTTATGAAAA
1 TTTAAAATTA-ATTTATGAAAA
22463891 TTTAAAATT-ATTTATGAA
1 TTTAAAATTAATTTATGAA
22463909 TCTTTACAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 9 0.50
22 9 0.50
ACGTcount: A:0.47, C:0.03, G:0.05, T:0.45
Consensus pattern (21 bp):
TTTAAAATTAATTTATGAAAA
Found at i:22463914 original size:20 final size:20
Alignment explanation
Indices: 22463864--22463919 Score: 60
Period size: 20 Copynumber: 2.7 Consensus size: 20
22463854 TTTACAATTG
22463864 TGAACTTTAAAATTACATTTA
1 TGAACTTTAAAATTA-ATTTA
*
22463885 TGAAAATTTAAAATT-ATTTA
1 TG-AACTTTAAAATTAATTTA
*
22463905 TGAATCTTTACAATT
1 TGAA-CTTTAAAATT
22463920 GTGAAACTAT
Statistics
Matches: 30, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
19 2 0.07
20 15 0.50
21 2 0.07
22 11 0.37
ACGTcount: A:0.43, C:0.07, G:0.05, T:0.45
Consensus pattern (20 bp):
TGAACTTTAAAATTAATTTA
Found at i:22463960 original size:58 final size:57
Alignment explanation
Indices: 22463832--22463967 Score: 182
Period size: 58 Copynumber: 2.3 Consensus size: 57
22463822 AATGCAAAGT
* *
22463832 TTTGAAATTTCATTTACGAATCTTTACAATTGTGAACTTTAAAATTACATTTATGAAAA
1 TTTGAAA-TT-ATTTATGAATCTTTACAATTGTGAACTATAAAATTACATTTATGAAAA
* ** *
22463891 TTTAAAATTATTTATGAATCTTTACAATTGTGAAACTATAAAATTTTATTTGTGAAAA
1 TTTGAAATTATTTATGAATCTTTACAATTGTG-AACTATAAAATTACATTTATGAAAA
*
22463949 TTTGAAATTATTTGTGAAT
1 TTTGAAATTATTTATGAAT
22463968 ATTTTGAATT
Statistics
Matches: 68, Mismatches: 8, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
57 22 0.32
58 40 0.59
59 6 0.09
ACGTcount: A:0.39, C:0.07, G:0.10, T:0.45
Consensus pattern (57 bp):
TTTGAAATTATTTATGAATCTTTACAATTGTGAACTATAAAATTACATTTATGAAAA
Found at i:22463990 original size:58 final size:58
Alignment explanation
Indices: 22463843--22463994 Score: 155
Period size: 58 Copynumber: 2.7 Consensus size: 58
22463833 TTGAAATTTC
* * ** **
22463843 ATTTACGAATCTTTACAATTGTG-AACTTTAAAATTACATTTATGAAAATTTAAAATT
1 ATTTATGAATATTTACAATTGTGAAACCATAAAATTTTATTTATGAAAATTTAAAATT
* * * *
22463900 ATTTATGAATCTTTACAATTGTGAAACTATAAAATTTTATTTGTGAAAATTTGAAATT
1 ATTTATGAATATTTACAATTGTGAAACCATAAAATTTTATTTATGAAAATTTAAAATT
* ** * *
22463958 ATTTGTGAATATTTTGAATTTTGAACCCAT-AAATTTT
1 ATTTATGAATATTTACAATTGTGAAACCATAAAATTTT
22463995 GAGCTTTTGC
Statistics
Matches: 81, Mismatches: 13, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
57 29 0.36
58 52 0.64
ACGTcount: A:0.39, C:0.07, G:0.09, T:0.45
Consensus pattern (58 bp):
ATTTATGAATATTTACAATTGTGAAACCATAAAATTTTATTTATGAAAATTTAAAATT
Found at i:22464088 original size:19 final size:19
Alignment explanation
Indices: 22464064--22464148 Score: 66
Period size: 19 Copynumber: 4.5 Consensus size: 19
22464054 AATATTGGCA
*
22464064 AATCTTTGAATCTTTTTTG
1 AATCTTTGAATCTTTTGTG
* *
22464083 AATCTTCGAATCTTTTGAG
1 AATCTTTGAATCTTTTGTG
*
22464102 AACCTTTG-ATCTCTTT-TG
1 AATCTTTGAATCT-TTTGTG
** * *
22464120 CAAAGTTTTAAGCTTTTGTG
1 -AATCTTTGAATCTTTTGTG
22464140 AATCTTTGA
1 AATCTTTGA
22464149 GTCCTATGAA
Statistics
Matches: 49, Mismatches: 13, Indels: 8
0.70 0.19 0.11
Matches are distributed among these distances:
18 5 0.10
19 39 0.80
20 5 0.10
ACGTcount: A:0.24, C:0.14, G:0.14, T:0.48
Consensus pattern (19 bp):
AATCTTTGAATCTTTTGTG
Found at i:22464176 original size:18 final size:18
Alignment explanation
Indices: 22464153--22464215 Score: 65
Period size: 18 Copynumber: 3.5 Consensus size: 18
22464143 CTTTGAGTCC
* *
22464153 TATGAATCTTGGAACTTT
1 TATGAATCTTAGAACTCT
22464171 TATGAATCTTAGAACTCT
1 TATGAATCTTAGAACTCT
* * *
22464189 TATGACT-TTATAAATTCT
1 TATGAATCTTA-GAACTCT
22464207 TATGAATCT
1 TATGAATCT
22464216 CTAAATTCTT
Statistics
Matches: 37, Mismatches: 6, Indels: 3
0.80 0.13 0.07
Matches are distributed among these distances:
17 3 0.08
18 33 0.89
19 1 0.03
ACGTcount: A:0.32, C:0.13, G:0.11, T:0.44
Consensus pattern (18 bp):
TATGAATCTTAGAACTCT
Found at i:22464220 original size:18 final size:17
Alignment explanation
Indices: 22464170--22464225 Score: 58
Period size: 18 Copynumber: 3.1 Consensus size: 17
22464160 CTTGGAACTT
*
22464170 TTATGAATCTTAGAACTC
1 TTATGAATCTTA-AATTC
* *
22464188 TTATGACTTTATAAATTC
1 TTATGAATCT-TAAATTC
22464206 TTATGAATCTCTAAATTC
1 TTATGAATCT-TAAATTC
22464224 TT
1 TT
22464226 GCAAATTTAT
Statistics
Matches: 31, Mismatches: 6, Indels: 2
0.79 0.15 0.05
Matches are distributed among these distances:
18 29 0.94
19 2 0.06
ACGTcount: A:0.32, C:0.14, G:0.07, T:0.46
Consensus pattern (17 bp):
TTATGAATCTTAAATTC
Found at i:22466015 original size:22 final size:23
Alignment explanation
Indices: 22465977--22466019 Score: 70
Period size: 23 Copynumber: 1.9 Consensus size: 23
22465967 AGATTTGTTG
*
22465977 AGATTTGTTGGCTTTTTTGTTAT
1 AGATTTGTTGGCGTTTTTGTTAT
22466000 AGATTTGTTGG-GTTTTTGTT
1 AGATTTGTTGGCGTTTTTGTT
22466020 GGGTTCGATT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
22 8 0.42
23 11 0.58
ACGTcount: A:0.12, C:0.02, G:0.26, T:0.60
Consensus pattern (23 bp):
AGATTTGTTGGCGTTTTTGTTAT
Found at i:22466095 original size:33 final size:34
Alignment explanation
Indices: 22466027--22466096 Score: 88
Period size: 33 Copynumber: 2.1 Consensus size: 34
22466017 GTTGGGTTCG
**
22466027 ATTGTTAATTTTTGTTAGGTTTTTTTTATTAAGT
1 ATTGTTAATTTTTGTTAGGGGTTTTTTATTAAGT
* * *
22466061 ATTGTTAATTTTT-TTTGGGGTTTTTTGTTGAGT
1 ATTGTTAATTTTTGTTAGGGGTTTTTTATTAAGT
22466094 ATT
1 ATT
22466097 ATTTTTCGAT
Statistics
Matches: 31, Mismatches: 5, Indels: 1
0.84 0.14 0.03
Matches are distributed among these distances:
33 18 0.58
34 13 0.42
ACGTcount: A:0.17, C:0.00, G:0.19, T:0.64
Consensus pattern (34 bp):
ATTGTTAATTTTTGTTAGGGGTTTTTTATTAAGT
Found at i:22466338 original size:118 final size:117
Alignment explanation
Indices: 22466180--22466406 Score: 339
Period size: 117 Copynumber: 1.9 Consensus size: 117
22466170 AAGATTTATG
* * ** *
22466180 TTGATTTTATGATAAATTTTGGGTTTGATGTGTATTAAGATTTATATTTGTTTTGAAAATTTTTT
1 TTGATTTTATGATAAATTTTGGGTTTAATGTGTATTAAGATTTATATTTATCCTGAAAA-ATTTT
*
22466245 ATATTTGATATTTTTTAAAATTTAATAATAATGATTGAAATTAAAAAATATATC
65 ATATTTAATATTTTTTAAAATTTAATAATAATGATTGAAA-TAAAAAATATATC
*
22466299 TTGATTTTATGTTAAA-TTTGGGTTTAATGTGTATTAAGATTTATATTTATCCTGAAAAATTTTA
1 TTGATTTTATGATAAATTTTGGGTTTAATGTGTATTAAGATTTATATTTATCCTGAAAAATTTTA
* **
22466363 TATTTAATATTTTTTACAATTTAATAATAATTTTTGAAATAAAA
66 TATTTAATATTTTTTAAAATTTAATAATAATGATTGAAATAAAA
22466407 GGTTATTGTA
Statistics
Matches: 98, Mismatches: 10, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
116 5 0.05
117 40 0.41
118 38 0.39
119 15 0.15
ACGTcount: A:0.37, C:0.02, G:0.11, T:0.51
Consensus pattern (117 bp):
TTGATTTTATGATAAATTTTGGGTTTAATGTGTATTAAGATTTATATTTATCCTGAAAAATTTTA
TATTTAATATTTTTTAAAATTTAATAATAATGATTGAAATAAAAAATATATC
Found at i:22467144 original size:14 final size:15
Alignment explanation
Indices: 22467114--22467146 Score: 52
Period size: 13 Copynumber: 2.3 Consensus size: 15
22467104 GAATTTACAG
22467114 AAAATCATTATTTAA
1 AAAATCATTATTTAA
22467129 AAAAT-ATT-TTTAA
1 AAAATCATTATTTAA
22467142 AAAAT
1 AAAAT
22467147 TGATCATTCA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 10 0.56
14 3 0.17
15 5 0.28
ACGTcount: A:0.58, C:0.03, G:0.00, T:0.39
Consensus pattern (15 bp):
AAAATCATTATTTAA
Found at i:22467414 original size:16 final size:16
Alignment explanation
Indices: 22467395--22467446 Score: 59
Period size: 16 Copynumber: 3.2 Consensus size: 16
22467385 TCTTATTCTG
*
22467395 ATTATTTTTTGTTATT
1 ATTATTTTTTATTATT
* *
22467411 ATTATTTATTATTTTT
1 ATTATTTTTTATTATT
*
22467427 ATTATTTTTATCTTATT
1 ATTATTTTT-TATTATT
22467444 ATT
1 ATT
22467447 TAAAAAAATT
Statistics
Matches: 29, Mismatches: 6, Indels: 1
0.81 0.17 0.03
Matches are distributed among these distances:
16 21 0.72
17 8 0.28
ACGTcount: A:0.23, C:0.02, G:0.02, T:0.73
Consensus pattern (16 bp):
ATTATTTTTTATTATT
Found at i:22467422 original size:23 final size:24
Alignment explanation
Indices: 22467395--22467447 Score: 74
Period size: 22 Copynumber: 2.3 Consensus size: 24
22467385 TCTTATTCTG
*
22467395 ATTATTTTTTGTTATTATTAT-TT
1 ATTATTTTTTATTATTATTATCTT
*
22467418 ATTA-TTTTTATTATTTTTATCTT
1 ATTATTTTTTATTATTATTATCTT
22467441 ATTATTT
1 ATTATTT
22467448 AAAAAAATTT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
22 14 0.54
23 10 0.38
24 2 0.08
ACGTcount: A:0.23, C:0.02, G:0.02, T:0.74
Consensus pattern (24 bp):
ATTATTTTTTATTATTATTATCTT
Found at i:22471288 original size:73 final size:73
Alignment explanation
Indices: 22471211--22471389 Score: 234
Period size: 73 Copynumber: 2.4 Consensus size: 73
22471201 CTAGTTGAAT
* * * *
22471211 ACCCGATCAATCTTGTCCAATAAGGGATCGATCGATTCTACATAGGTTCAA-TGAAATTAGCTAC
1 ACCCGATCGATCCTGTCCAA-AGGGGATCGATCGATTCTACATAGGTTCAACTAAAATTAGCTAC
*
22471275 TGGCTTTAC
65 TGCCTTTAC
* * * * *
22471284 ACCCGATCGATCCTGTCCTAAAGGGGATCGATCGGTTCTTCTTGGGTTCAACTAAAATTGGCTAC
1 ACCCGATCGATCCTGTCC-AAAGGGGATCGATCGATTCTACATAGGTTCAACTAAAATTAGCTAC
22471349 TGCCTTTAC
65 TGCCTTTAC
*
22471358 ACCCGATTGATCCTGTCCAAAGGGGATCGATC
1 ACCCGATCGATCCTGTCCAAAGGGGATCGATC
22471390 TTTCCCTATG
Statistics
Matches: 93, Mismatches: 11, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
73 55 0.59
74 38 0.41
ACGTcount: A:0.26, C:0.25, G:0.21, T:0.29
Consensus pattern (73 bp):
ACCCGATCGATCCTGTCCAAAGGGGATCGATCGATTCTACATAGGTTCAACTAAAATTAGCTACT
GCCTTTAC
Found at i:22477831 original size:3 final size:3
Alignment explanation
Indices: 22477823--22477863 Score: 82
Period size: 3 Copynumber: 13.7 Consensus size: 3
22477813 GGCCAACAAG
22477823 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
22477864 TTGTATATTA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 38 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:22477957 original size:15 final size:15
Alignment explanation
Indices: 22477933--22477989 Score: 55
Period size: 15 Copynumber: 3.7 Consensus size: 15
22477923 TTATTTCTTA
22477933 AATAACAACAATAAT
1 AATAACAACAATAAT
*
22477948 AATAATAACAATAAT
1 AATAACAACAATAAT
22477963 -ATCAACAA-AATAAAT
1 AAT-AACAACAAT-AAT
22477978 AAATAAACAACA
1 -AAT-AACAACA
22477990 GAAAAAAATG
Statistics
Matches: 34, Mismatches: 3, Indels: 7
0.77 0.07 0.16
Matches are distributed among these distances:
14 5 0.15
15 21 0.62
17 7 0.21
18 1 0.03
ACGTcount: A:0.68, C:0.12, G:0.00, T:0.19
Consensus pattern (15 bp):
AATAACAACAATAAT
Found at i:22478003 original size:21 final size:20
Alignment explanation
Indices: 22477965--22478016 Score: 59
Period size: 21 Copynumber: 2.5 Consensus size: 20
22477955 ACAATAATAT
*
22477965 CAACAAAATAAATAAATAAA
1 CAACAAAAAAAATAAATAAA
*
22477985 CAACAGAAAAAAATGAATAAA
1 CAACA-AAAAAAATAAATAAA
*
22478006 TAACATAAAAA
1 CAACA-AAAAA
22478017 TAACATAAGA
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
20 5 0.19
21 22 0.81
ACGTcount: A:0.73, C:0.10, G:0.04, T:0.13
Consensus pattern (20 bp):
CAACAAAAAAAATAAATAAA
Found at i:22478950 original size:3 final size:3
Alignment explanation
Indices: 22478942--22478973 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
22478932 ATTAATTAAT
22478942 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
22478974 TGAACAAAAT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:22480006 original size:102 final size:99
Alignment explanation
Indices: 22479821--22480137 Score: 334
Period size: 102 Copynumber: 3.1 Consensus size: 99
22479811 CTTTGTAAGC
* * * * * * *
22479821 ATTATGATTGTTCTTAAACTATCTTTATAGTACATTGACGATGATATCAAATTTATGAAATGTGA
1 ATTATGATTGTT-GTGAACTATCTTAATAGTATATTG-CGATGAGATCACATTTGTGAAATGTGA
* *
22479886 AAACTATTGTATATTTTGCATTGTGATTCTATTTGTGT
64 AAACTA--GTACATTTTGCATTGTGATTCTAATTGTGT
*
22479924 ATTATGATTGTTAGTGAACTATCTTAACAGTATATTGCGATGAGATCACATTTGTGAAATGTGAA
1 ATTATGATTGTT-GTGAACTATCTTAATAGTATATTGCGATGAGATCACATTTGTGAAATGTGAA
* *
22479989 AACTAGTACATGCTTTGCATTGTGATGAC-AATTATGT
65 AACTAGTACAT--TTTGCATTGTGAT-TCTAATTGTGT
* * *
22480026 ATTATGATTGTTGATGAAGTATCTTAATACTATATTAC-AGTGAGATCACATTTGTGAAATGTGA
1 ATTATGATTGTTG-TGAACTATCTTAATAGTATATTGCGA-TGAGATCACATTTGTGAAATGTGA
* * *
22480090 AAACTATTTCGTATTTTGCATTATGATT-TAAGTTGTGT
64 AAACTAGTAC--ATTTTGCATTGTGATTCTAA-TTGTGT
22480128 ATTATGATTG
1 ATTATGATTG
22480138 CTGATAAAGT
Statistics
Matches: 183, Mismatches: 22, Indels: 19
0.82 0.10 0.08
Matches are distributed among these distances:
100 5 0.03
101 4 0.02
102 140 0.77
103 32 0.17
104 2 0.01
ACGTcount: A:0.32, C:0.09, G:0.17, T:0.42
Consensus pattern (99 bp):
ATTATGATTGTTGTGAACTATCTTAATAGTATATTGCGATGAGATCACATTTGTGAAATGTGAAA
ACTAGTACATTTTGCATTGTGATTCTAATTGTGT
Found at i:22482391 original size:14 final size:15
Alignment explanation
Indices: 22482369--22482406 Score: 51
Period size: 15 Copynumber: 2.6 Consensus size: 15
22482359 GATTGTAAAA
*
22482369 TTAAAAAAAT-AATT
1 TTAAGAAAATAAATT
22482383 TTAAGAAAATAAATT
1 TTAAGAAAATAAATT
*
22482398 TGAAGAAAA
1 TTAAGAAAA
22482407 CAAAAACAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
14 9 0.43
15 12 0.57
ACGTcount: A:0.63, C:0.00, G:0.08, T:0.29
Consensus pattern (15 bp):
TTAAGAAAATAAATT
Found at i:22487946 original size:12 final size:12
Alignment explanation
Indices: 22487908--22487946 Score: 60
Period size: 12 Copynumber: 3.2 Consensus size: 12
22487898 ATACACACCC
22487908 TTTAGCAAACCA
1 TTTAGCAAACCA
*
22487920 TTTAGAAACACCA
1 TTTAGCAA-ACCA
22487933 TTTAGCAAACCA
1 TTTAGCAAACCA
22487945 TT
1 TT
22487947 CAACATACGA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
12 13 0.54
13 11 0.46
ACGTcount: A:0.41, C:0.23, G:0.08, T:0.28
Consensus pattern (12 bp):
TTTAGCAAACCA
Found at i:22488590 original size:52 final size:52
Alignment explanation
Indices: 22488526--22488635 Score: 132
Period size: 52 Copynumber: 2.1 Consensus size: 52
22488516 TTTTCAAAGG
* ** *
22488526 AAATTATTGAAGGCGTTTTTCTTA-AAAAAAAGCCTTTGATAATTTTGAACAA
1 AAATTATTGAAGGCATTTTTAGTAGAAAAAAA-CCTTTAATAATTTTGAACAA
* ** *
22488578 AAATTATTGAAGGTATTTTTAGTAGAAAATCACCTTTAATAATTTTGTACAA
1 AAATTATTGAAGGCATTTTTAGTAGAAAAAAACCTTTAATAATTTTGAACAA
22488630 AAATTA
1 AAATTA
22488636 AAAGGAGTTA
Statistics
Matches: 49, Mismatches: 8, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
52 44 0.90
53 5 0.10
ACGTcount: A:0.42, C:0.08, G:0.12, T:0.38
Consensus pattern (52 bp):
AAATTATTGAAGGCATTTTTAGTAGAAAAAAACCTTTAATAATTTTGAACAA
Found at i:22488897 original size:186 final size:186
Alignment explanation
Indices: 22488610--22489334 Score: 836
Period size: 186 Copynumber: 3.9 Consensus size: 186
22488600 TAGAAAATCA
* ** * * * *
22488610 CCTTTAATAATTTTGTACAAAAATTAAAAGGAGTTAGTGAAGGCGTTTTTCTAGAATAAATGCCT
1 CCTTCAATAATTACGTACAAAAATTAAAAAGAATTAGTGAAGGCATTTTTCTAGAATAAACGCCT
* * * * * * *
22488675 TCACTAACCATCTTAAAAATTGAGTAGTGGAATATTGAAGGTGTTTTTTACTAGAAGAAGCTTTT
66 TCACTAATCATATTAAAATTTGAGTAGTGGAATATTAAAGGCGTTTTTCACTAGAAGATGCTTTT
* * *
22488740 AAAAATCCCAAAAATTTTAAAAAGAAATTATTGAAGGCATTTGTT-TTAAAAAAATG
131 AATAATCCCAAAAATTTTAAAAAGAAATTA-TGAAGGCGTTTGTTCTAAAAAAAATG
* * *
22488796 CCTTCAATAATTACGTATAAAAATTAAAAAGAATTAGTGAAGGCATTTTTCTAAAATAAATGCCT
1 CCTTCAATAATTACGTACAAAAATTAAAAAGAATTAGTGAAGGCATTTTTCTAGAATAAACGCCT
* * * * * * *
22488861 TTATTAA-CTGTATTAAAATTTGAGTAATGAAATATTGAAGGCGTTTTTCACTGGAAGATG-TCT
66 TCACTAATC-ATATTAAAATTTGAGTAGTGGAATATTAAAGGCGTTTTTCACTAGAAGATGCT-T
*
22488924 TTAATAATCCCAAAAA-TTTAAAAAGGAAATTATGAAAGGCGTTTGTTCTCAAAAAACAT-
129 TTAATAATCCCAAAAATTTTAAAAA-GAAATTATG-AAGGCGTTTGTTCT-AAAAAAAATG
* * * ** *
22488983 -CTTCAATAATTATGTAAAAAAATTAGAAAGAATTAGTGAAGGTGTTTTTCTAGAATAAACACCT
1 CCTTCAATAATTACGTACAAAAATTAAAAAGAATTAGTGAAGGCATTTTTCTAGAATAAACGCCT
* *
22489047 TCACTAATCATATTAAAATTTGAGTAGTGGAATATTAAAGGCG-TTTTCACTAGAAGACGCCTTT
66 TCACTAATCATATTAAAATTTGAGTAGTGGAATATTAAAGGCGTTTTTCACTAGAAGATGCTTTT
** *
22489111 AATAATCTTAAAAATTTT-AAAAGAAAATTATGATATGCGTTTGTTCTAAAAAAAATG
131 AATAATCCCAAAAATTTTAAAAAG-AAATTATGA-AGGCGTTTGTTCTAAAAAAAATG
* * *
22489168 CCTTCAATAATTACGTACAAAAATTAAAAAAAATTAGTGAAGACATCTTTCTAGAATAAACGCCT
1 CCTTCAATAATTACGTACAAAAATTAAAAAGAATTAGTGAAGGCATTTTTCTAGAATAAACGCCT
* * * * * * * *
22489233 TCACTAATCATCTTAAAATTTGAGTAGTGTAATATTAAAGACATTTTACATTGGAAGATGTTTTT
66 TCACTAATCATATTAAAATTTGAGTAGTGGAATATTAAAGGCGTTTTTCACTAGAAGATGCTTTT
** *
22489298 AATAATTTCAAAAATTTTAAGAAGAAATTATTGAAGG
131 AATAATCCCAAAAATTTTAAAAAGAAATTA-TGAAGG
22489335 GAGTTTTCCA
Statistics
Matches: 456, Mismatches: 67, Indels: 31
0.82 0.12 0.06
Matches are distributed among these distances:
184 10 0.02
185 65 0.14
186 326 0.71
187 41 0.09
188 14 0.03
ACGTcount: A:0.42, C:0.10, G:0.14, T:0.34
Consensus pattern (186 bp):
CCTTCAATAATTACGTACAAAAATTAAAAAGAATTAGTGAAGGCATTTTTCTAGAATAAACGCCT
TCACTAATCATATTAAAATTTGAGTAGTGGAATATTAAAGGCGTTTTTCACTAGAAGATGCTTTT
AATAATCCCAAAAATTTTAAAAAGAAATTATGAAGGCGTTTGTTCTAAAAAAAATG
Found at i:22489290 original size:372 final size:372
Alignment explanation
Indices: 22488615--22489328 Score: 963
Period size: 372 Copynumber: 1.9 Consensus size: 372
22488605 AATCACCTTT
* * * **
22488615 AATAATTTTGTACAAAAATTAAAAGGAGTTAGTGAAGGCGTTTTTCTAGAATAAATGCCTTCACT
1 AATAATTATGTAAAAAAATTAAAAGGAATTAGTGAAGGCGTTTTTCTAGAATAAACACCTTCACT
* * * * *
22488680 AACCATCTTAAAAATTGAGTAGTGGAATATTGAAGGTGTTTTTTACTAGAAGAAGCTTTTAAAAA
66 AACCATATTAAAAATTGAGTAGTGGAATATTAAAGGCGTTTTTCACTAGAAGAAGCCTTTAAAAA
*
22488745 TCCCAAAAATTTTAAAAAGAAATTATTGAAGGCATTTGTTTTAAAAAAATGCCTTCAATAATTAC
131 TCCCAAAAATTTTAAAAAGAAATTATTGAAGGCATTTGTTTAAAAAAAATGCCTTCAATAATTAC
* * * * * * * *
22488810 GTATAAAAATTAAAAAGAATTAGTGAAGGCATTTTTCTAAAATAAATGCCTTTATTAACTGTATT
196 GTACAAAAATTAAAAAAAATTAGTGAAGACATCTTTCTAAAATAAACGCCTTCACTAACTATATT
* * * *
22488875 AAAATTTGAGTAATGAAATATTGAAGGCGTTTTTCACTGGAAGATGTCTTTAATAATCCCAAAAA
261 AAAATTTGAGTAATGAAATATTAAAGACATTTTACACTGGAAGATGTCTTTAATAATCCCAAAAA
22488940 -TTTAAAAAGGAAATTATGAAAGGCGTTTGTTCTCAAAAAACATCTTC
326 TTTTAAAAA-GAAATTATGAAAGGCGTTTGTTCTCAAAAAACATCTTC
*
22488987 AATAATTATGTAAAAAAATTAGAAA-GAATTAGTGAAGGTGTTTTTCTAGAATAAACACCTTCAC
1 AATAATTATGTAAAAAAATTA-AAAGGAATTAGTGAAGGCGTTTTTCTAGAATAAACACCTTCAC
* * * *
22489051 TAATCATATTAAAATTTGAGTAGTGGAATATTAAAGGCG-TTTTCACTAGAAGACGCCTTTAATA
65 TAACCATATTAAAAATTGAGTAGTGGAATATTAAAGGCGTTTTTCACTAGAAGAAGCCTTTAAAA
** * *
22489115 ATCTTAAAAATTTT-AAAAGAAAATTA-TGATATGCGTTTGTTCTAAAAAAAATGCCTTCAATAA
130 ATCCCAAAAATTTTAAAAAG-AAATTATTGA-AGGCATTTGTT-TAAAAAAAATGCCTTCAATAA
*
22489178 TTACGTACAAAAATTAAAAAAAATTAGTGAAGACATCTTTCTAGAATAAACGCCTTCACTAA-TC
192 TTACGTACAAAAATTAAAAAAAATTAGTGAAGACATCTTTCTAAAATAAACGCCTTCACTAACT-
* * * * * **
22489242 ATCTTAAAATTTGAGTAGTGTAATATTAAAGACATTTTACATTGGAAGATGTTTTTAATAATTTC
256 ATATTAAAATTTGAGTAATGAAATATTAAAGACATTTTACACTGGAAGATGTCTTTAATAATCCC
*
22489307 AAAAATTTTAAGAAGAAATTAT
321 AAAAATTTTAAAAAGAAATTAT
22489329 TGAAGGGAGT
Statistics
Matches: 295, Mismatches: 41, Indels: 12
0.85 0.12 0.03
Matches are distributed among these distances:
370 8 0.03
371 49 0.17
372 228 0.77
373 10 0.03
ACGTcount: A:0.42, C:0.10, G:0.14, T:0.34
Consensus pattern (372 bp):
AATAATTATGTAAAAAAATTAAAAGGAATTAGTGAAGGCGTTTTTCTAGAATAAACACCTTCACT
AACCATATTAAAAATTGAGTAGTGGAATATTAAAGGCGTTTTTCACTAGAAGAAGCCTTTAAAAA
TCCCAAAAATTTTAAAAAGAAATTATTGAAGGCATTTGTTTAAAAAAAATGCCTTCAATAATTAC
GTACAAAAATTAAAAAAAATTAGTGAAGACATCTTTCTAAAATAAACGCCTTCACTAACTATATT
AAAATTTGAGTAATGAAATATTAAAGACATTTTACACTGGAAGATGTCTTTAATAATCCCAAAAA
TTTTAAAAAGAAATTATGAAAGGCGTTTGTTCTCAAAAAACATCTTC
Found at i:22490736 original size:13 final size:13
Alignment explanation
Indices: 22490718--22490792 Score: 52
Period size: 14 Copynumber: 5.7 Consensus size: 13
22490708 GTTGTTTTGG
22490718 TATTTTTTATTTT
1 TATTTTTTATTTT
*
22490731 TA-TTTTTGTTTT
1 TATTTTTTATTTT
22490743 TACTTTATTT-TATTT
1 TA-TTT-TTTAT-TTT
22490758 TATTTATTTA-TTT
1 TATTT-TTTATTTT
22490771 TATGTGTTTTA--TT
1 TAT-T-TTTTATTTT
22490784 TATTTTTTA
1 TATTTTTTA
22490793 AAATTTTTTT
Statistics
Matches: 54, Mismatches: 1, Indels: 16
0.76 0.01 0.23
Matches are distributed among these distances:
11 5 0.09
12 12 0.22
13 13 0.24
14 15 0.28
15 9 0.17
ACGTcount: A:0.17, C:0.01, G:0.04, T:0.77
Consensus pattern (13 bp):
TATTTTTTATTTT
Found at i:22490744 original size:18 final size:19
Alignment explanation
Indices: 22490721--22490784 Score: 64
Period size: 18 Copynumber: 3.5 Consensus size: 19
22490711 GTTTTGGTAT
22490721 TTTTTATTTTTATTTT-TG
1 TTTTTATTTTTATTTTATG
*
22490739 TTTTTA-CTTTATTTTAT-
1 TTTTTATTTTTATTTTATG
*
22490756 TTTATT-TATTTATTTTATG
1 TTT-TTATTTTTATTTTATG
22490775 TGTTTTATTT
1 T-TTTTATTT
22490785 ATTTTTTAAA
Statistics
Matches: 37, Mismatches: 3, Indels: 10
0.74 0.06 0.20
Matches are distributed among these distances:
17 11 0.30
18 19 0.51
19 3 0.08
20 4 0.11
ACGTcount: A:0.16, C:0.02, G:0.05, T:0.78
Consensus pattern (19 bp):
TTTTTATTTTTATTTTATG
Found at i:22490765 original size:9 final size:9
Alignment explanation
Indices: 22490740--22490789 Score: 57
Period size: 9 Copynumber: 5.4 Consensus size: 9
22490730 TTATTTTTGT
22490740 TTTTACTTTA
1 TTTTA-TTTA
22490750 TTTTATTT-
1 TTTTATTTA
22490758 TATTTATTTA
1 T-TTTATTTA
* *
22490768 TTTTATGTG
1 TTTTATTTA
22490777 TTTTATTTA
1 TTTTATTTA
22490786 TTTT
1 TTTT
22490790 TTAAAATTTT
Statistics
Matches: 34, Mismatches: 4, Indels: 5
0.79 0.09 0.12
Matches are distributed among these distances:
8 1 0.03
9 27 0.79
10 6 0.18
ACGTcount: A:0.18, C:0.02, G:0.04, T:0.76
Consensus pattern (9 bp):
TTTTATTTA
Found at i:22490785 original size:18 final size:17
Alignment explanation
Indices: 22490729--22490789 Score: 79
Period size: 18 Copynumber: 3.5 Consensus size: 17
22490719 ATTTTTTATT
22490729 TTTATTTT-TGTTTTTA
1 TTTATTTTATGTTTTTA
*
22490745 CTTTATTTTATTTTATTTA
1 -TTTATTTTATGTT-TTTA
22490764 TTTATTTTATGTGTTTTA
1 TTTATTTTATGT-TTTTA
22490782 TTTATTTT
1 TTTATTTT
22490790 TTAAAATTTT
Statistics
Matches: 39, Mismatches: 2, Indels: 5
0.85 0.04 0.11
Matches are distributed among these distances:
17 8 0.21
18 26 0.67
19 5 0.13
ACGTcount: A:0.16, C:0.02, G:0.05, T:0.77
Consensus pattern (17 bp):
TTTATTTTATGTTTTTA
Found at i:22490882 original size:25 final size:25
Alignment explanation
Indices: 22490854--22490902 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 25
22490844 TTAATTGTCC
22490854 AATGATGAAATTTATA-AAAATTTCA
1 AATGAT-AAATTTATATAAAATTTCA
* *
22490879 AATGGTAAATTTTTATAAAATTTC
1 AATGATAAATTTATATAAAATTTC
22490903 TAAGTGAGGA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
24 8 0.38
25 13 0.62
ACGTcount: A:0.47, C:0.04, G:0.08, T:0.41
Consensus pattern (25 bp):
AATGATAAATTTATATAAAATTTCA
Found at i:22498315 original size:9 final size:9
Alignment explanation
Indices: 22498301--22498362 Score: 56
Period size: 9 Copynumber: 6.8 Consensus size: 9
22498291 TACTATACTT
22498301 GAAAAAAAG
1 GAAAAAAAG
*
22498310 GAAAAAAAA
1 GAAAAAAAG
*
22498319 TAAAAAAA-
1 GAAAAAAAG
22498327 GAGAAAAAAG
1 GA-AAAAAAG
*
22498337 CAAAAAAATG
1 GAAAAAAA-G
22498347 GAAAATAAA-
1 GAAAA-AAAG
22498356 GAAAAAA
1 GAAAAAA
22498363 TAAAGAAAAA
Statistics
Matches: 44, Mismatches: 5, Indels: 9
0.76 0.09 0.16
Matches are distributed among these distances:
8 3 0.07
9 32 0.73
10 6 0.14
11 3 0.07
ACGTcount: A:0.79, C:0.02, G:0.15, T:0.05
Consensus pattern (9 bp):
GAAAAAAAG
Found at i:22498325 original size:18 final size:18
Alignment explanation
Indices: 22498302--22498380 Score: 65
Period size: 18 Copynumber: 4.4 Consensus size: 18
22498292 ACTATACTTG
22498302 AAAAAAAGGAAAAAAAAT
1 AAAAAAAGGAAAAAAAAT
*
22498320 AAAAAAAGAGAAAAAAGCA-
1 AAAAAAAG-GAAAAAA-AAT
* * *
22498339 AAAAAATGGAAAATAAAG
1 AAAAAAAGGAAAAAAAAT
*
22498357 AAAAAATA--AAGAAAAAT
1 AAAAAA-AGGAAAAAAAAT
22498374 AAAAAAA
1 AAAAAAA
22498381 ACTAAAGGCA
Statistics
Matches: 49, Mismatches: 8, Indels: 10
0.73 0.12 0.15
Matches are distributed among these distances:
16 1 0.02
17 13 0.27
18 20 0.41
19 14 0.29
20 1 0.02
ACGTcount: A:0.81, C:0.01, G:0.11, T:0.06
Consensus pattern (18 bp):
AAAAAAAGGAAAAAAAAT
Found at i:22498370 original size:20 final size:20
Alignment explanation
Indices: 22498311--22498387 Score: 66
Period size: 20 Copynumber: 3.6 Consensus size: 20
22498301 GAAAAAAAGG
*
22498311 AAAAAAAATAAA-AAAAGAGA
1 AAAAAAAATAAAGAAAA-ATA
* *
22498331 AAAAAGCAAAAAAATGGAAAATA
1 AAAAA--AAATAAA-GAAAAATA
22498354 AAGAAAAAATAAAGAAAAATA
1 AA-AAAAAATAAAGAAAAATA
*
22498375 AAAAAAACTAAAG
1 AAAAAAAATAAAG
22498388 GCAAAAACCC
Statistics
Matches: 46, Mismatches: 6, Indels: 10
0.74 0.10 0.16
Matches are distributed among these distances:
20 15 0.33
21 9 0.20
22 12 0.26
23 4 0.09
24 6 0.13
ACGTcount: A:0.79, C:0.03, G:0.10, T:0.08
Consensus pattern (20 bp):
AAAAAAAATAAAGAAAAATA
Found at i:22498371 original size:9 final size:8
Alignment explanation
Indices: 22498301--22498380 Score: 54
Period size: 9 Copynumber: 9.0 Consensus size: 8
22498291 TACTATACTT
22498301 GAAAAAAA
1 GAAAAAAA
22498309 GGAAAAAAAA
1 -G-AAAAAAA
*
22498319 TAAAAAAA
1 GAAAAAAA
22498327 GAGAAAAAA
1 GA-AAAAAA
22498336 GCAAAAAAA
1 G-AAAAAAA
22498345 TGGAAAATAAA
1 --GAAAA-AAA
22498356 GAAAAAATA
1 GAAAAAA-A
22498365 -AAGAAAAA
1 GAA-AAAAA
*
22498373 TAAAAAAA
1 GAAAAAAA
22498381 ACTAAAGGCA
Statistics
Matches: 60, Mismatches: 2, Indels: 19
0.74 0.02 0.23
Matches are distributed among these distances:
8 18 0.30
9 26 0.43
10 12 0.20
11 4 0.07
ACGTcount: A:0.80, C:0.01, G:0.12, T:0.06
Consensus pattern (8 bp):
GAAAAAAA
Found at i:22498373 original size:10 final size:10
Alignment explanation
Indices: 22498348--22498387 Score: 55
Period size: 10 Copynumber: 3.9 Consensus size: 10
22498338 AAAAAAATGG
22498348 AAAATAAAGAA
1 AAAATAAAG-A
22498359 AAAATAAAGA
1 AAAATAAAGA
22498369 AAAATAAA-A
1 AAAATAAAGA
22498378 AAAACTAAAG
1 AAAA-TAAAG
22498388 GCAAAAACCC
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
9 5 0.19
10 13 0.48
11 9 0.33
ACGTcount: A:0.80, C:0.03, G:0.07, T:0.10
Consensus pattern (10 bp):
AAAATAAAGA
Found at i:22499271 original size:21 final size:21
Alignment explanation
Indices: 22499247--22499302 Score: 78
Period size: 21 Copynumber: 2.7 Consensus size: 21
22499237 GAACTTTTTG
22499247 ATGAAAATCTTTGAATTTCAA
1 ATGAAAATCTTTGAATTTCAA
* *
22499268 ATGAGAGTCTTTGAATTTCAA
1 ATGAAAATCTTTGAATTTCAA
22499289 A-GAAAAATCTTTGA
1 ATG-AAAATCTTTGA
22499303 GTTTTAAGTT
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
20 1 0.03
21 29 0.97
ACGTcount: A:0.41, C:0.09, G:0.14, T:0.36
Consensus pattern (21 bp):
ATGAAAATCTTTGAATTTCAA
Found at i:22499770 original size:42 final size:42
Alignment explanation
Indices: 22499710--22499826 Score: 171
Period size: 42 Copynumber: 2.8 Consensus size: 42
22499700 AAGTTCTGTT
** * *
22499710 GCCATTTATCCTTCCAAAGTTCTGTTGCCTCTATTCAGAGGT
1 GCCATTTATTTTTTCAAAGTTCTGTTGCCTCTATTCAGAGGA
*
22499752 GCCATTTATTTTTTCAAAGTTCTGTTGCCTCTATTTAGAGGA
1 GCCATTTATTTTTTCAAAGTTCTGTTGCCTCTATTCAGAGGA
* *
22499794 GCCATTTATTTTTCCAAAGTTTTGTTGCCTCTA
1 GCCATTTATTTTTTCAAAGTTCTGTTGCCTCTA
22499827 AATACTGTTA
Statistics
Matches: 68, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
42 68 1.00
ACGTcount: A:0.20, C:0.21, G:0.15, T:0.44
Consensus pattern (42 bp):
GCCATTTATTTTTTCAAAGTTCTGTTGCCTCTATTCAGAGGA
Found at i:22499863 original size:58 final size:58
Alignment explanation
Indices: 22499773--22499931 Score: 228
Period size: 58 Copynumber: 2.7 Consensus size: 58
22499763 TTTCAAAGTT
* *
22499773 CTGTTGCCTCTATTTAGAGGAGCCATTTATTTTTCCAAAGTTTTGTTGCCTCTAAATA
1 CTGTTGCCTCTATTCAGAGGAGCCATTTATTTTTTCAAAGTTTTGTTGCCTCTAAATA
* * ** * *
22499831 CTGTTACCTTTATTCAGAGGAGTAATTTATTTTTTCAAAGTTTTGTTTCCTCTGAATA
1 CTGTTGCCTCTATTCAGAGGAGCCATTTATTTTTTCAAAGTTTTGTTGCCTCTAAATA
*
22499889 CTGTTGCCTCTATTCAGATGAGCCATTTATTTTTTTCAAAGTT
1 CTGTTGCCTCTATTCAGAGGAGCCATTTA-TTTTTTCAAAGTT
22499932 CTATTTCCTC
Statistics
Matches: 87, Mismatches: 13, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
58 74 0.85
59 13 0.15
ACGTcount: A:0.23, C:0.17, G:0.14, T:0.46
Consensus pattern (58 bp):
CTGTTGCCTCTATTCAGAGGAGCCATTTATTTTTTCAAAGTTTTGTTGCCTCTAAATA
Found at i:22499984 original size:42 final size:42
Alignment explanation
Indices: 22499889--22500066 Score: 284
Period size: 42 Copynumber: 4.2 Consensus size: 42
22499879 CCTCTGAATA
22499889 CTGTTGCCTCTATTCAGATGAGCCATTTATTTTTTTCAAAGTT
1 CTGTTGCCTCTATTCAGATGAGCCATTTA-TTTTTTCAAAGTT
* *
22499932 CTATTTCCTCTATTCAGATGAGCCATTTATTTTTTCAAAGTT
1 CTGTTGCCTCTATTCAGATGAGCCATTTATTTTTTCAAAGTT
*
22499974 TTGTTGCCTCTATTCAGATGAGCCATTTATTTTTTCAAAGTT
1 CTGTTGCCTCTATTCAGATGAGCCATTTATTTTTTCAAAGTT
* * *
22500016 CTGTTACCTCTATTCAGAAGAGCCCTTTATTTTTTCAAAGTT
1 CTGTTGCCTCTATTCAGATGAGCCATTTATTTTTTCAAAGTT
*
22500058 TTGTTGCCT
1 CTGTTGCCT
22500067 TTGTTTATAA
Statistics
Matches: 124, Mismatches: 11, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
42 97 0.78
43 27 0.22
ACGTcount: A:0.21, C:0.19, G:0.13, T:0.47
Consensus pattern (42 bp):
CTGTTGCCTCTATTCAGATGAGCCATTTATTTTTTCAAAGTT
Found at i:22501069 original size:21 final size:20
Alignment explanation
Indices: 22501045--22501094 Score: 66
Period size: 21 Copynumber: 2.5 Consensus size: 20
22501035 TTTTGGTATT
*
22501045 TTTATTTTTGTTTTTATTTTA
1 TTTATTTTTGTGTTT-TTTTA
22501066 TTTATTTTATGTGTTTTTTTA
1 TTTATTTT-TGTGTTTTTTTA
22501087 TTT-TTTTT
1 TTTATTTTT
22501095 TAAATTTTTT
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
19 1 0.04
20 4 0.15
21 16 0.59
22 6 0.22
ACGTcount: A:0.12, C:0.00, G:0.06, T:0.82
Consensus pattern (20 bp):
TTTATTTTTGTGTTTTTTTA
Found at i:22511151 original size:2 final size:2
Alignment explanation
Indices: 22511144--22511168 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
22511134 AATACTTTAT
22511144 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
22511169 TTATCACGTT
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:22515377 original size:2 final size:2
Alignment explanation
Indices: 22515370--22515397 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
22515360 TTATAGAAAA
22515370 AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG
22515398 GACGCTGACC
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:0.50, T:0.00
Consensus pattern (2 bp):
AG
Found at i:22517312 original size:15 final size:15
Alignment explanation
Indices: 22517292--22517323 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
22517282 TTATATTATC
22517292 ATATTGTACCATATT
1 ATATTGTACCATATT
*
22517307 ATATTGTATCATATT
1 ATATTGTACCATATT
22517322 AT
1 AT
22517324 TATTTTATTA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.34, C:0.09, G:0.06, T:0.50
Consensus pattern (15 bp):
ATATTGTACCATATT
Found at i:22519907 original size:15 final size:15
Alignment explanation
Indices: 22519860--22519909 Score: 64
Period size: 15 Copynumber: 3.3 Consensus size: 15
22519850 TTTTCCATCT
22519860 TTTCTTTTGTTTTTC
1 TTTCTTTTGTTTTTC
* *
22519875 CTTCTTATTGTCTTTC
1 TTTCTT-TTGTTTTTC
*
22519891 TTTCTTTTATTTTTC
1 TTTCTTTTGTTTTTC
22519906 TTTC
1 TTTC
22519910 CCTTTTTTCT
Statistics
Matches: 29, Mismatches: 5, Indels: 2
0.81 0.14 0.06
Matches are distributed among these distances:
15 16 0.55
16 13 0.45
ACGTcount: A:0.04, C:0.18, G:0.04, T:0.74
Consensus pattern (15 bp):
TTTCTTTTGTTTTTC
Found at i:22525061 original size:19 final size:19
Alignment explanation
Indices: 22525020--22525062 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 19
22525010 TTTTATTTAT
*
22525020 TTATTATTTATTTAACTAT
1 TTATTATTTATTTAACTAA
*
22525039 TTATTATCTTATTTTA-TAA
1 TTATTAT-TTATTTAACTAA
22525058 TTATT
1 TTATT
22525063 TTATATATTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
19 14 0.67
20 7 0.33
ACGTcount: A:0.30, C:0.05, G:0.00, T:0.65
Consensus pattern (19 bp):
TTATTATTTATTTAACTAA
Found at i:22526815 original size:12 final size:12
Alignment explanation
Indices: 22526780--22526824 Score: 54
Period size: 12 Copynumber: 3.6 Consensus size: 12
22526770 TAAACTCTTT
*
22526780 TTTTAAAACAAA
1 TTTTAAAAAAAA
*
22526792 TATTATAAAAAAA
1 TTTTA-AAAAAAA
22526805 TTTTAAAAAAAA
1 TTTTAAAAAAAA
22526817 TTTATAAA
1 TTT-TAAA
22526825 GAATCCAAAA
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
12 14 0.50
13 14 0.50
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.36
Consensus pattern (12 bp):
TTTTAAAAAAAA
Found at i:22526998 original size:21 final size:21
Alignment explanation
Indices: 22526927--22526999 Score: 53
Period size: 21 Copynumber: 3.6 Consensus size: 21
22526917 TTAAAATATA
*
22526927 GAAATATTGAA-AAAAATAAAT
1 GAAATATTGAATAAAAA-AATT
** **
22526948 GAAATATT-TTTAAAAATTTT
1 GAAATATTGAATAAAAAAATT
* *
22526968 TAAA-AATGAATAAAAAAATT
1 GAAATATTGAATAAAAAAATT
22526988 GAAATATTGAAT
1 GAAATATTGAAT
22527000 TTTTATATGC
Statistics
Matches: 36, Mismatches: 13, Indels: 6
0.65 0.24 0.11
Matches are distributed among these distances:
19 2 0.06
20 15 0.42
21 19 0.53
ACGTcount: A:0.59, C:0.00, G:0.08, T:0.33
Consensus pattern (21 bp):
GAAATATTGAATAAAAAAATT
Found at i:22530033 original size:21 final size:21
Alignment explanation
Indices: 22529995--22530053 Score: 59
Period size: 20 Copynumber: 2.9 Consensus size: 21
22529985 TGGTGACTAA
*
22529995 ATTAGTAAAA-AGAGGGAAAAC
1 ATTAGTAAAAGA-AAGGAAAAC
22530016 ATTAGTAAAAGAAAGG-AAAC
1 ATTAGTAAAAGAAAGGAAAAC
** *
22530036 AAAAGTAAAGGAAAGGAA
1 ATTAGTAAAAGAAAGGAA
22530054 TATAAAAATT
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
20 17 0.53
21 14 0.44
22 1 0.03
ACGTcount: A:0.61, C:0.03, G:0.24, T:0.12
Consensus pattern (21 bp):
ATTAGTAAAAGAAAGGAAAAC
Found at i:22532487 original size:27 final size:27
Alignment explanation
Indices: 22532456--22532546 Score: 67
Period size: 27 Copynumber: 3.2 Consensus size: 27
22532446 TAATTTCGAG
22532456 AAAAATTGATACTTTCAACTTTTCTTC
1 AAAAATTGATACTTTCAACTTTTCTTC
** * * * *
22532483 AAAAATCCAT-TTTTGAAAACTTATTTTTA
1 AAAAATTGATACTTT--CAACTT-TTCTTC
*
22532512 AGGAAAATTGATACTTTCAACTTTTCCTC
1 A--AAAATTGATACTTTCAACTTTTCTTC
22532541 AAAAAT
1 AAAAAT
22532547 ATTTTTTTGG
Statistics
Matches: 45, Mismatches: 13, Indels: 12
0.64 0.19 0.17
Matches are distributed among these distances:
26 3 0.07
27 13 0.29
28 5 0.11
29 9 0.20
30 5 0.11
31 7 0.16
32 3 0.07
ACGTcount: A:0.38, C:0.15, G:0.05, T:0.41
Consensus pattern (27 bp):
AAAAATTGATACTTTCAACTTTTCTTC
Found at i:22532575 original size:59 final size:59
Alignment explanation
Indices: 22532398--22532685 Score: 385
Period size: 59 Copynumber: 4.9 Consensus size: 59
22532388 TTTTGTGCAG
** *
22532398 GGAAAATTGATACTTTCAACTTTTTCC-C-AAAATATTTTTTAGAAATTTTA-ATTTCGA
1 GGAAAATTGATACTTTCAAC-TTTTCCTCAAAAATATTTTTTAGAAAGCTTATTTTTCGA
* * * *
22532455 GAAAAATTGATACTTTCAACTTTTCTTCAAAAATCCA-TTTTT-GAAAACTTATTTTT-AA
1 GGAAAATTGATACTTTCAACTTTTCCTCAAAAAT--ATTTTTTAGAAAGCTTATTTTTCGA
*
22532513 GGAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTTGGAAAGCTTATTTTTC-A
1 GGAAAATTGATACTTTCAACTTTTCCTCAAAAATA-TTTTTTAGAAAGCTTATTTTTCGA
*
22532572 GGAAAATTGATACTTTCAACTTTTCCTCAAAAATAATTTTTTAAAAAGCTTA-TTTTCGA
1 GGAAAATTGATACTTTCAACTTTTCCTCAAAAAT-ATTTTTTAGAAAGCTTATTTTTCGA
*
22532631 GGAAAATTGATACTTTCAACTTTTACTCAAAAATATTTTTTAGAAAGCTTATTTT
1 GGAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTAGAAAGCTTATTTT
22532686 CAACAATTTT
Statistics
Matches: 206, Mismatches: 13, Indels: 22
0.85 0.05 0.09
Matches are distributed among these distances:
56 6 0.03
57 20 0.10
58 71 0.34
59 107 0.52
60 2 0.01
ACGTcount: A:0.36, C:0.13, G:0.08, T:0.43
Consensus pattern (59 bp):
GGAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTAGAAAGCTTATTTTTCGA
Found at i:22532602 original size:117 final size:118
Alignment explanation
Indices: 22532398--22532685 Score: 408
Period size: 117 Copynumber: 2.5 Consensus size: 118
22532388 TTTTGTGCAG
** *
22532398 GGAAAATTGATACTTTCAACTTTTTCC-C-AAAATATTTTTTAGAAATTTTA-ATTTCGAGAAAA
1 GGAAAATTGATACTTTCAAC-TTTTCCTCAAAAATATTTTTTAGAAAGCTTATTTTTCGAGAAAA
* * * *
22532460 ATTGATACTTTCAACTTTTCTTCAAAAATCCA-TTTTTGAAAA-CTTATTTTTAA
65 ATTGATACTTTCAACTTTTCCTCAAAAAT-AATTTTTTAAAAAGCTTATTTTCAA
* *
22532513 GGAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTTGGAAAGCTTATTTTTC-AGGAAA
1 GGAAAATTGATACTTTCAACTTTTCCTCAAAAATA-TTTTTTAGAAAGCTTATTTTTCGAGAAAA
*
22532577 ATTGATACTTTCAACTTTTCCTCAAAAATAATTTTTTAAAAAGCTTATTTTCGA
65 ATTGATACTTTCAACTTTTCCTCAAAAATAATTTTTTAAAAAGCTTATTTTCAA
*
22532631 GGAAAATTGATACTTTCAACTTTTACTCAAAAATATTTTTTAGAAAGCTTATTTT
1 GGAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTAGAAAGCTTATTTT
22532686 CAACAATTTT
Statistics
Matches: 155, Mismatches: 12, Indels: 10
0.88 0.07 0.06
Matches are distributed among these distances:
114 6 0.04
115 21 0.14
116 7 0.05
117 74 0.48
118 47 0.30
ACGTcount: A:0.36, C:0.13, G:0.08, T:0.43
Consensus pattern (118 bp):
GGAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTAGAAAGCTTATTTTTCGAGAAAAA
TTGATACTTTCAACTTTTCCTCAAAAATAATTTTTTAAAAAGCTTATTTTCAA
Found at i:22532703 original size:41 final size:40
Alignment explanation
Indices: 22532644--22532730 Score: 131
Period size: 42 Copynumber: 2.1 Consensus size: 40
22532634 AAATTGATAC
*
22532644 TTTCAACTTTTACTCAAAAATA-TTTTTTAGAAAGCTTAT
1 TTTCAACTTTTACTCAAAAATATTTTTTTAAAAAGCTTAT
*
22532683 TTTCAACAATTTTTCTCAAAAATATTTTTTTAAAAAGCTTAT
1 TTTCAAC--TTTTACTCAAAAATATTTTTTTAAAAAGCTTAT
22532725 TTTCAA
1 TTTCAA
22532731 GAAAAATTGA
Statistics
Matches: 43, Mismatches: 2, Indels: 3
0.90 0.04 0.06
Matches are distributed among these distances:
39 7 0.16
41 14 0.33
42 22 0.51
ACGTcount: A:0.37, C:0.13, G:0.03, T:0.47
Consensus pattern (40 bp):
TTTCAACTTTTACTCAAAAATATTTTTTTAAAAAGCTTAT
Found at i:22532712 original size:100 final size:100
Alignment explanation
Indices: 22532585--22532785 Score: 307
Period size: 100 Copynumber: 2.0 Consensus size: 100
22532575 AAATTGATAC
* *
22532585 TTTCAACTTTTCCTCAAAAATAATTTTTTAAAAAGCTTATTTTCGAGGAAAATTGATACTTTCAA
1 TTTCAACTTTTCCTCAAAAATAATTTTTTAAAAAGCTTATTTTCAAGAAAAATTGATACTTTCAA
22532650 C-TTTTACTCAAAAATA-TTTTTTAGAAAGCTTAT
66 CATTTTACTCAAAAATATTTTTTTAGAAAGCTTAT
* * *
22532683 TTTCAACAATTTTTCTCAAAAATATTTTTTTAAAAAGCTTATTTTCAAGAAAAATTGATATTTTC
1 TTTCAAC--TTTTCCTCAAAAATAATTTTTTAAAAAGCTTATTTTCAAGAAAAATTGATACTTTC
*
22532748 AACAATTTTTCTCAAAAATATTTTTTTAGAAAGCTTAT
64 AAC-ATTTTACTCAAAAATATTTTTTTAGAAAGCTTAT
22532786 CTAAAGAAGA
Statistics
Matches: 92, Mismatches: 6, Indels: 5
0.89 0.06 0.05
Matches are distributed among these distances:
98 7 0.08
100 54 0.59
102 14 0.15
103 17 0.18
ACGTcount: A:0.38, C:0.12, G:0.06, T:0.44
Consensus pattern (100 bp):
TTTCAACTTTTCCTCAAAAATAATTTTTTAAAAAGCTTATTTTCAAGAAAAATTGATACTTTCAA
CATTTTACTCAAAAATATTTTTTTAGAAAGCTTAT
Found at i:22532833 original size:22 final size:23
Alignment explanation
Indices: 22532797--22532846 Score: 77
Period size: 22 Copynumber: 2.3 Consensus size: 23
22532787 TAAAGAAGAT
*
22532797 AAAAT-AATAAAATTAAAA-TAA
1 AAAATAAAGAAAATTAAAATTAA
22532818 AAAATAAAGAAAATTAAAATTAA
1 AAAATAAAGAAAATTAAAATTAA
22532841 AAAATA
1 AAAATA
22532847 TATTAAACAA
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
21 5 0.19
22 12 0.46
23 9 0.35
ACGTcount: A:0.76, C:0.00, G:0.02, T:0.22
Consensus pattern (23 bp):
AAAATAAAGAAAATTAAAATTAA
Found at i:22532892 original size:5 final size:5
Alignment explanation
Indices: 22532864--22532904 Score: 50
Period size: 5 Copynumber: 8.2 Consensus size: 5
22532854 CAATTCTAAT
22532864 ATAATA ATAATA AT-AA AT-AA ATAAA ATAAA ATAAA ATAAA A
1 ATAA-A ATAA-A ATAAA ATAAA ATAAA ATAAA ATAAA ATAAA A
22532905 ACCTGGGAAC
Statistics
Matches: 34, Mismatches: 0, Indels: 3
0.92 0.00 0.08
Matches are distributed among these distances:
4 7 0.21
5 19 0.56
6 8 0.24
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (5 bp):
ATAAA
Found at i:22533685 original size:21 final size:19
Alignment explanation
Indices: 22533656--22533719 Score: 65
Period size: 20 Copynumber: 3.2 Consensus size: 19
22533646 ATAAATATAT
22533656 TAATAGATAACAAAAAAAAA
1 TAATAGATAA-AAAAAAAAA
*
22533676 TAATTAGATAAATAAAAAAA
1 TAA-TAGATAAAAAAAAAAA
* *
22533696 TAGATAAATAATAATAAAAAA
1 TA-ATAGATAA-AAAAAAAAA
22533717 TAA
1 TAA
22533720 AAACAGATAA
Statistics
Matches: 37, Mismatches: 4, Indels: 6
0.79 0.09 0.13
Matches are distributed among these distances:
20 20 0.54
21 17 0.46
ACGTcount: A:0.72, C:0.02, G:0.05, T:0.22
Consensus pattern (19 bp):
TAATAGATAAAAAAAAAAA
Found at i:22533690 original size:25 final size:24
Alignment explanation
Indices: 22533636--22533739 Score: 72
Period size: 24 Copynumber: 4.4 Consensus size: 24
22533626 AAATTAATCA
* *
22533636 AAATAAAAAGATAAATATATTAAT
1 AAATAAAAAAAAAAATATATTAAT
*
22533660 AGATAACAAAAAAAAATA-ATTAGAT
1 AAATAA-AAAAAAAAATATATTA-AT
* * *
22533685 AAATAAAAAAATAGATA-AATAAT
1 AAATAAAAAAAAAAATATATTAAT
* * *
22533708 -AATAAAAAATAAAAACAGATAAAT
1 AAATAAAAAA-AAAAATATATTAAT
22533732 -AATAAAAA
1 AAATAAAAA
22533740 TATTAATAGA
Statistics
Matches: 64, Mismatches: 12, Indels: 8
0.76 0.14 0.10
Matches are distributed among these distances:
22 9 0.14
23 6 0.09
24 33 0.52
25 16 0.25
ACGTcount: A:0.72, C:0.02, G:0.05, T:0.21
Consensus pattern (24 bp):
AAATAAAAAAAAAAATATATTAAT
Found at i:22533729 original size:27 final size:26
Alignment explanation
Indices: 22533673--22533736 Score: 83
Period size: 27 Copynumber: 2.3 Consensus size: 26
22533663 TAACAAAAAA
* *
22533673 AAATAATTAGATAAATAAAAAAATAGAT
1 AAATAA-TA-ATAAAAAAAAAAACAGAT
22533701 AAATAATAATAAAAAATAAAAACAGAT
1 AAATAATAATAAAAAA-AAAAACAGAT
22533728 AAATAATAA
1 AAATAATAA
22533737 AAATATTAAT
Statistics
Matches: 33, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
26 7 0.21
27 20 0.61
28 6 0.18
ACGTcount: A:0.72, C:0.02, G:0.05, T:0.22
Consensus pattern (26 bp):
AAATAATAATAAAAAAAAAAACAGAT
Found at i:22533755 original size:24 final size:25
Alignment explanation
Indices: 22533683--22533756 Score: 73
Period size: 23 Copynumber: 3.0 Consensus size: 25
22533673 AAATAATTAG
*
22533683 ATAAATAA-AAAAATAGATAAATAATA
1 ATAAAAAATAAAAATAGAT-AA-AATA
*
22533709 ATAAAAAATAAAAACAGAT-AAATA
1 ATAAAAAATAAAAATAGATAAAATA
**
22533733 AT-AAAAATATTAATAGATAAAATA
1 ATAAAAAATAAAAATAGATAAAATA
22533757 TATATATTAA
Statistics
Matches: 41, Mismatches: 5, Indels: 6
0.79 0.10 0.12
Matches are distributed among these distances:
23 13 0.32
24 11 0.27
25 1 0.02
26 7 0.17
27 9 0.22
ACGTcount: A:0.72, C:0.01, G:0.04, T:0.23
Consensus pattern (25 bp):
ATAAAAAATAAAAATAGATAAAATA
Found at i:22534087 original size:45 final size:44
Alignment explanation
Indices: 22534014--22534103 Score: 128
Period size: 45 Copynumber: 2.0 Consensus size: 44
22534004 AAATTTTAAT
* *
22534014 CAAAGCTCCTCTAAGTAGAGGCTTAACGAC-TTTGAGAAACATAAA
1 CAAAACTCCTCTAAGTAGAGGCTCAACGACTTTTGA-AAA-ATAAA
*
22534059 CAAAACTCCTCTAATTAGAGGCTCAACGACTTTTGAAAAATAAA
1 CAAAACTCCTCTAAGTAGAGGCTCAACGACTTTTGAAAAATAAA
22534103 C
1 C
22534104 GGCTCCTCTA
Statistics
Matches: 41, Mismatches: 3, Indels: 3
0.87 0.06 0.06
Matches are distributed among these distances:
44 6 0.15
45 30 0.73
46 5 0.12
ACGTcount: A:0.41, C:0.21, G:0.14, T:0.23
Consensus pattern (44 bp):
CAAAACTCCTCTAAGTAGAGGCTCAACGACTTTTGAAAAATAAA
Found at i:22534129 original size:42 final size:41
Alignment explanation
Indices: 22534018--22534438 Score: 271
Period size: 41 Copynumber: 10.1 Consensus size: 41
22534008 TTTAATCAAA
* **
22534018 GCTCCTCTAAGT-AGAGGCTTAACGACTTTGAGAAACATAAACAAA
1 GCTCCTCTAA-TAAGAGGCTCAACGACTTTGA-AAA-AT-AA-ATG
* * *
22534063 ACTCCTCTAATTAGAGGCTCAACGACTTTTGAAAAATAAACG
1 GCTCCTCTAATAAGAGGCTCAACGAC-TTTGAAAAATAAATG
* * *
22534105 GCTCCTCTAATAAGGGGCTTAACGACATTGAAAAAATAAATG
1 GCTCCTCTAATAAGAGGCTCAACGACTTTG-AAAAATAAATG
* * ** *
22534147 GCTCTTCTAATCAGAGGCTCAATAACTTTGAAAAGTAAATG
1 GCTCCTCTAATAAGAGGCTCAACGACTTTGAAAAATAAATG
* * *
22534188 GCTCATTTAATCAGAGGCTCAACGACTTTGAAAAAATAAATG
1 GCTCCTCTAATAAGAGGCTCAACGACTTTG-AAAAATAAATG
* * * *
22534230 GCTCTTCTAATCAA-AGG-TTAACAACTTTGAAAAGTAAATG
1 GCTCCTCTAAT-AAGAGGCTCAACGACTTTGAAAAATAAATG
* * * * * *
22534270 GCTTCTCTAA-ATAGAGGCACCACAACTTTGAAAAGTAAATT
1 GCTCCTCTAATA-AGAGGCTCAACGACTTTGAAAAATAAATG
* * ** * * * *
22534311 GCTCCTCTAA-ACAGAAGCACCTCAACTTTTGGAAAGTAAATC
1 GCTCCTCTAATA-AGAGGCTCAACGAC-TTTGAAAAATAAATG
* * * *
22534353 GCTCCTCTAA-ATAGAGGCACCATGACTTTGAAAAATAAATT
1 GCTCCTCTAATA-AGAGGCTCAACGACTTTGAAAAATAAATG
* * * * *
22534394 GCTCCTCTAA-ACAGAGGCACCACAACTTTGAAAAGTAAATT
1 GCTCCTCTAATA-AGAGGCTCAACGACTTTGAAAAATAAATG
22534435 GCTC
1 GCTC
22534439 ATTGACAATC
Statistics
Matches: 314, Mismatches: 53, Indels: 22
0.81 0.14 0.06
Matches are distributed among these distances:
38 1 0.00
39 1 0.00
40 21 0.07
41 143 0.46
42 112 0.36
43 3 0.01
44 3 0.01
45 25 0.08
46 5 0.02
ACGTcount: A:0.38, C:0.20, G:0.16, T:0.26
Consensus pattern (41 bp):
GCTCCTCTAATAAGAGGCTCAACGACTTTGAAAAATAAATG
Found at i:22534219 original size:83 final size:81
Alignment explanation
Indices: 22534064--22534441 Score: 330
Period size: 83 Copynumber: 4.6 Consensus size: 81
22534054 ATAAACAAAA
* * * * * * **
22534064 CTCCTCTAATTAGAGGCTCAACGACTTTTGAAAAATAAACGGCTCCTCT-AATAAGGGGCTTAAC
1 CTCCTCTAATCAGAGGCTCAACAAC-TTTGAAAAGTAAATGGCTCAT-TAAAT-AGAGGCACAAC
*
22534128 GACATTGAAAAAATAAATGG
63 GACTTTG-AAAAATAAATGG
* * * *
22534148 CTCTTCTAATCAGAGGCTCAATAACTTTGAAAAGTAAATGGCTCATTTAATCAGAGGCTCAACGA
1 CTCCTCTAATCAGAGGCTCAACAACTTTGAAAAGTAAATGGCTCATTAAAT-AGAGGCACAACGA
22534213 CTTTGAAAAAATAAATGG
65 CTTTG-AAAAATAAATGG
* * * * *
22534231 CTCTTCTAATCAAAGG-TTAACAACTTTGAAAAGTAAATGGCTTC-TCTAAATAGAGGCACCACA
1 CTCCTCTAATCAGAGGCTCAACAACTTTGAAAAGTAAATGGC-TCAT-TAAATAGAGGCACAACG
* *
22534294 ACTTTGAAAAGTAAATTG
64 ACTTTGAAAAATAAATGG
* * * ** * * * * *
22534312 CTCCTCTAAACAGAAGCACCTCAACTTTTGGAAAGTAAATCGCTCCTCTAAATAGAGGCACCATG
1 CTCCTCTAATCAGAGGCTCAACAAC-TTTGAAAAGTAAATGGCTCAT-TAAATAGAGGCACAACG
*
22534377 ACTTTGAAAAATAAATTG
64 ACTTTGAAAAATAAATGG
* * * *
22534395 CTCCTCTAAACAGAGGCACCACAACTTTGAAAAGTAAATTGCTCATT
1 CTCCTCTAATCAGAGGCTCAACAACTTTGAAAAGTAAATGGCTCATT
22534442 GACAATCATG
Statistics
Matches: 250, Mismatches: 38, Indels: 15
0.83 0.13 0.05
Matches are distributed among these distances:
81 23 0.09
82 64 0.26
83 142 0.57
84 21 0.08
ACGTcount: A:0.38, C:0.20, G:0.16, T:0.26
Consensus pattern (81 bp):
CTCCTCTAATCAGAGGCTCAACAACTTTGAAAAGTAAATGGCTCATTAAATAGAGGCACAACGAC
TTTGAAAAATAAATGG
Found at i:22536143 original size:12 final size:12
Alignment explanation
Indices: 22536123--22536192 Score: 97
Period size: 12 Copynumber: 5.7 Consensus size: 12
22536113 TCAATTTGAA
22536123 TCTCTTTTTTTT
1 TCTCTTTTTTTT
22536135 TCTCATTTTTTCTT
1 TCTC-TTTTTT-TT
22536149 TCT-TTTTTTTT
1 TCTCTTTTTTTT
*
22536160 CCTCTTTTTTTT
1 TCTCTTTTTTTT
22536172 TCTCTTTTTTTT
1 TCTCTTTTTTTT
22536184 TCTCATTTT
1 TCTC-TTTT
22536193 CCATCCATTG
Statistics
Matches: 52, Mismatches: 2, Indels: 7
0.85 0.03 0.11
Matches are distributed among these distances:
11 4 0.08
12 33 0.63
13 10 0.19
14 5 0.10
ACGTcount: A:0.03, C:0.19, G:0.00, T:0.79
Consensus pattern (12 bp):
TCTCTTTTTTTT
Found at i:22536152 original size:24 final size:25
Alignment explanation
Indices: 22536123--22536192 Score: 108
Period size: 24 Copynumber: 2.8 Consensus size: 25
22536113 TCAATTTGAA
22536123 TCTCTTTTTTTTTCTCATTTTTTCT
1 TCTCTTTTTTTTTCTCATTTTTTCT
*
22536148 T-TCTTTTTTTTTCCTC-TTTTTTTT
1 TCTCTTTTTTTTT-CTCATTTTTTCT
22536172 TCTCTTTTTTTTTCTCATTTT
1 TCTCTTTTTTTTTCTCATTTT
22536193 CCATCCATTG
Statistics
Matches: 41, Mismatches: 1, Indels: 6
0.85 0.02 0.12
Matches are distributed among these distances:
24 22 0.54
25 19 0.46
ACGTcount: A:0.03, C:0.19, G:0.00, T:0.79
Consensus pattern (25 bp):
TCTCTTTTTTTTTCTCATTTTTTCT
Found at i:22536168 original size:25 final size:25
Alignment explanation
Indices: 22536123--22536192 Score: 101
Period size: 25 Copynumber: 2.9 Consensus size: 25
22536113 TCAATTTGAA
22536123 TCTCTTTTTTTTT-CTCATTTTTTCT
1 TCTCTTTTTTTTTCCTCATTTTTT-T
*
22536148 T-TCTTTTTTTTTCCTCTTTTTTTT
1 TCTCTTTTTTTTTCCTCATTTTTTT
22536172 TCTCTTTTTTTTT-CTCATTTT
1 TCTCTTTTTTTTTCCTCATTTT
22536193 CCATCCATTG
Statistics
Matches: 41, Mismatches: 2, Indels: 5
0.85 0.04 0.10
Matches are distributed among these distances:
24 20 0.49
25 21 0.51
ACGTcount: A:0.03, C:0.19, G:0.00, T:0.79
Consensus pattern (25 bp):
TCTCTTTTTTTTTCCTCATTTTTTT
Found at i:22540262 original size:5 final size:5
Alignment explanation
Indices: 22540252--22540335 Score: 79
Period size: 5 Copynumber: 16.8 Consensus size: 5
22540242 TTATCTAAAG
22540252 AAAAT AAAAT --AAT AAAAT AAAAT AAAAAT GAAAAT GAAAAT AAAA-
1 AAAAT AAAAT AAAAT AAAAT AAAAT -AAAAT -AAAAT -AAAAT AAAAT
*
22540297 AATA- AAAAT -AAAT AAAAAT AAAAAT AAAAT AAAAT AAAA
1 AAAAT AAAAT AAAAT -AAAAT -AAAAT AAAAT AAAAT AAAA
22540336 ATATTAAACA
Statistics
Matches: 70, Mismatches: 3, Indels: 12
0.82 0.04 0.14
Matches are distributed among these distances:
3 3 0.04
4 10 0.14
5 31 0.44
6 26 0.37
ACGTcount: A:0.80, C:0.00, G:0.02, T:0.18
Consensus pattern (5 bp):
AAAAT
Found at i:22540285 original size:6 final size:6
Alignment explanation
Indices: 22540252--22540338 Score: 87
Period size: 6 Copynumber: 15.0 Consensus size: 6
22540242 TTATCTAAAG
* *
22540252 AAAAT- AAAATA ATAAA-A TAAAATA AAAATG AAAATG AAAATAA AAAATA
1 AAAATA AAAATA A-AAATA -AAAATA AAAATA AAAATA AAAAT-A AAAATA
22540301 AAAAT- -AAATA AAAATA AAAAT- AAAAT- AAAATA AAAATA
1 AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA
22540339 TTAAACAATT
Statistics
Matches: 72, Mismatches: 2, Indels: 15
0.81 0.02 0.17
Matches are distributed among these distances:
4 4 0.06
5 15 0.21
6 43 0.60
7 10 0.14
ACGTcount: A:0.79, C:0.00, G:0.02, T:0.18
Consensus pattern (6 bp):
AAAATA
Found at i:22541282 original size:17 final size:17
Alignment explanation
Indices: 22541242--22541289 Score: 60
Period size: 17 Copynumber: 2.8 Consensus size: 17
22541232 TAAGTATATT
*
22541242 AATAGATAACAAAAAACA
1 AATAGATAA-ATAAAACA
* *
22541260 ATTAGATAAATAAAAGA
1 AATAGATAAATAAAACA
22541277 AATAGATAAATAA
1 AATAGATAAATAA
22541290 TAATAAAAAA
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
17 18 0.69
18 8 0.31
ACGTcount: A:0.69, C:0.04, G:0.08, T:0.19
Consensus pattern (17 bp):
AATAGATAAATAAAACA
Found at i:22541319 original size:30 final size:30
Alignment explanation
Indices: 22541267--22541324 Score: 73
Period size: 30 Copynumber: 1.9 Consensus size: 30
22541257 ACAATTAGAT
* *
22541267 AAATAAAAGAAATAGATAAATAATAATAAA
1 AAATAAAAGAAATAAATAAATAAAAATAAA
*
22541297 AAATAAAAGCAGATAAAT-AATAAAAATA
1 AAATAAAAG-AAATAAATAAATAAAAATA
22541325 TTAATAGATG
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
30 18 0.75
31 6 0.25
ACGTcount: A:0.72, C:0.02, G:0.07, T:0.19
Consensus pattern (30 bp):
AAATAAAAGAAATAAATAAATAAAAATAAA
Found at i:22543519 original size:35 final size:34
Alignment explanation
Indices: 22543480--22543546 Score: 82
Period size: 35 Copynumber: 1.9 Consensus size: 34
22543470 AATTTTCAAG
*
22543480 TTTTT-TTTCGTTTTTGGTTTTTCTTGATTTTTTTA
1 TTTTTATTTCGTTTTT-G-TTTTCTTAATTTTTTTA
*
22543515 TTTTTCATTTTGTTTTTGTTTTCTTAATTTTT
1 TTTTT-ATTTCGTTTTTGTTTTCTTAATTTTT
22543547 AGTTTTTTTT
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
35 18 0.64
36 1 0.04
37 9 0.32
ACGTcount: A:0.07, C:0.06, G:0.09, T:0.78
Consensus pattern (34 bp):
TTTTTATTTCGTTTTTGTTTTCTTAATTTTTTTA
Found at i:22543769 original size:22 final size:22
Alignment explanation
Indices: 22543721--22543773 Score: 61
Period size: 22 Copynumber: 2.4 Consensus size: 22
22543711 AACCTGTTCG
* * *
22543721 AAGGACTTAGAGATTGCGTTTA
1 AAGGTCTTAGAGATTACGCTTA
*
22543743 AAGGTCTTAGAGATTATGCTTA
1 AAGGTCTTAGAGATTACGCTTA
*
22543765 GAGGTCTTA
1 AAGGTCTTA
22543774 CAAATCTTGA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
22 26 1.00
ACGTcount: A:0.30, C:0.09, G:0.26, T:0.34
Consensus pattern (22 bp):
AAGGTCTTAGAGATTACGCTTA
Found at i:22544133 original size:40 final size:40
Alignment explanation
Indices: 22544008--22544304 Score: 133
Period size: 40 Copynumber: 7.3 Consensus size: 40
22543998 TACCCAAAGA
* * * * *
22544008 TCTTGAAAATCATGTAAAAAATCAGAGGTTTTGCCCGA-AGG
1 TCTTGAAAATCATTTAAAAATTTA-AGATTTT-CCCTAGAGG
* * * * *
22544049 TTTTTGAAAATCATTCAAAAATTTAAAAGTTTAT-CCGA-AAG
1 -TCTTGAAAATCATTTAAAAATTTAAGA-TTT-TCCCTAGAGG
* *
22544090 TCTT-AAAGATCATTTAAAGATTTAAGATTTTGCCC-GGAGG
1 TCTTGAAA-ATCATTTAAAAATTTAAGATTTT-CCCTAGAGG
* * *
22544130 TCTTGAAAATTATTCAAAAATTTGAGATTTTCCCTAGAGG
1 TCTTGAAAATCATTTAAAAATTTAAGATTTTCCCTAGAGG
* * * * *
22544170 TCTTGAAAATCATGTTAAAAA-ATGAGGTTTT-GCTTGAAGG
1 TCTTGAAAATCAT-TTAAAAATTTAAGATTTTCCCTAG-AGG
* * * * * *
22544210 TCTTTGAAAATCACTTAAAATTTTAAAAATTT-GCTCAAAGG
1 TC-TTGAAAATCATTTAAAAATTTAAGATTTTCCCT-AGAGG
* * * ** * *
22544251 TCTTTGGAAATCATTCAAAAATCTAAGATTTAGCTTGGAGG
1 TC-TTGAAAATCATTTAAAAATTTAAGATTTTCCCTAGAGG
22544292 TCTTGAAAATCAT
1 TCTTGAAAATCAT
22544305 GTACTCATTC
Statistics
Matches: 194, Mismatches: 47, Indels: 30
0.72 0.17 0.11
Matches are distributed among these distances:
38 1 0.01
39 12 0.06
40 91 0.47
41 66 0.34
42 23 0.12
43 1 0.01
ACGTcount: A:0.37, C:0.12, G:0.16, T:0.35
Consensus pattern (40 bp):
TCTTGAAAATCATTTAAAAATTTAAGATTTTCCCTAGAGG
Found at i:22544201 original size:80 final size:80
Alignment explanation
Indices: 22544003--22544237 Score: 212
Period size: 80 Copynumber: 2.9 Consensus size: 80
22543993 ATCTTTACCC
*
22544003 AAAGATCTTGAAAATCATG-TAAAAAATCAGAGGTTTTGCCCGAAGGTTTTTGAAAATCATTCAA
1 AAAG-TCTTGAAAATCATGTTAAAAAAT--GAGGTTTTGCCCGAAGG-TCTTGAAAATCATTCAA
22544067 AAATTTAAAAGTTTATCCG
62 AAATTTAAAAGTTTATCCG
** * * * *
22544086 AAAGTCTT-AAAGATCAT-TTAAAGATTTAAGATTTTGCCCGGAGGTCTTGAAAATTATTCAAAA
1 AAAGTCTTGAAA-ATCATGTTAAA-AAATGAGGTTTTGCCCGAAGGTCTTGAAAATCATTCAAAA
* * *
22544149 ATTTGAGA-TTT-TCCCT
64 ATTTAAAAGTTTAT-CCG
* **
22544165 AGAGGTCTTGAAAATCATGTTAAAAAATGAGGTTTTGCTTGAAGGTCTTTGAAAATCACTT-AAA
1 A-AAGTCTTGAAAATCATGTTAAAAAATGAGGTTTTGCCCGAAGGTC-TTGAAAATCA-TTCAAA
*
22544229 ATTTTAAAA
63 AATTTAAAA
22544238 ATTTGCTCAA
Statistics
Matches: 121, Mismatches: 22, Indels: 20
0.74 0.13 0.12
Matches are distributed among these distances:
78 1 0.01
79 6 0.05
80 50 0.41
81 43 0.36
82 15 0.12
83 6 0.05
ACGTcount: A:0.39, C:0.11, G:0.16, T:0.34
Consensus pattern (80 bp):
AAAGTCTTGAAAATCATGTTAAAAAATGAGGTTTTGCCCGAAGGTCTTGAAAATCATTCAAAAAT
TTAAAAGTTTATCCG
Found at i:22544243 original size:41 final size:40
Alignment explanation
Indices: 22544198--22544304 Score: 110
Period size: 41 Copynumber: 2.6 Consensus size: 40
22544188 AAAATGAGGT
* *
22544198 TTTGCTTGAAGGTCTTTGAAAATCACTT-AAAATTTTAAAAA
1 TTTGCTTGAAGGTCTTTGAAAATCA-TTCAAAAATCT-AAAA
** * *
22544239 TTTGCTCAAAGGTCTTTGGAAATCATTCAAAAATCTAAGA
1 TTTGCTTGAAGGTCTTTGAAAATCATTCAAAAATCTAAAA
*
22544279 TTTAGCTTGGAGGTC-TTGAAAATCAT
1 TTT-GCTTGAAGGTCTTTGAAAATCAT
22544305 GTACTCATTC
Statistics
Matches: 54, Mismatches: 10, Indels: 5
0.78 0.14 0.07
Matches are distributed among these distances:
40 18 0.33
41 36 0.67
ACGTcount: A:0.36, C:0.12, G:0.16, T:0.36
Consensus pattern (40 bp):
TTTGCTTGAAGGTCTTTGAAAATCATTCAAAAATCTAAAA
Found at i:22544293 original size:162 final size:161
Alignment explanation
Indices: 22544008--22544301 Score: 373
Period size: 162 Copynumber: 1.8 Consensus size: 161
22543998 TACCCAAAGA
*
22544008 TCTTGAAAATCATGTAAAAAATCAGAGGTTTTGCCCGAAGGTTTTTGAAAATCATTCAAAAATTT
1 TCTTGAAAATCATGTAAAAAAT-AGAGGTTTTGCCCGAAGGTCTTTGAAAATCATTCAAAAATTT
* * * * *
22544073 AAAAGTTTATCCGAAAGTCTTAAAGATCATTTAAAGATTTAAGATTTTGCCCGGAGGTCTTGAAA
65 AAAAATTTATCCGAAAGTCTTAAAGATCATTCAAAAATCTAAGATTTAGCCCGGAGGTCTTGAAA
22544138 ATTATTCAAAAATTTGAGATTTTCCCTAGAGG
130 ATTATTCAAAAATTTGAGATTTTCCCTAGAGG
** *
22544170 TCTTGAAAATCATGTTAAAAAAT-GAGGTTTTGCTTGAAGGTCTTTGAAAATCACTT-AAAATTT
1 TCTTGAAAATCATG-TAAAAAATAGAGGTTTTGCCCGAAGGTCTTTGAAAATCA-TTCAAAAATT
* * **
22544233 TAAAAATTT-GCTC-AAAGGTCTTTGGAA-ATCATTCAAAAATCTAAGATTTAGCTTGGAGGTCT
64 TAAAAATTTATC-CGAAA-GTC-TT-AAAGATCATTCAAAAATCTAAGATTTAGCCCGGAGGTCT
22544295 TGAAAAT
125 TGAAAAT
22544302 CATGTACTCA
Statistics
Matches: 113, Mismatches: 13, Indels: 12
0.82 0.09 0.09
Matches are distributed among these distances:
160 4 0.04
161 45 0.40
162 54 0.48
163 10 0.09
ACGTcount: A:0.37, C:0.12, G:0.17, T:0.35
Consensus pattern (161 bp):
TCTTGAAAATCATGTAAAAAATAGAGGTTTTGCCCGAAGGTCTTTGAAAATCATTCAAAAATTTA
AAAATTTATCCGAAAGTCTTAAAGATCATTCAAAAATCTAAGATTTAGCCCGGAGGTCTTGAAAA
TTATTCAAAAATTTGAGATTTTCCCTAGAGG
Found at i:22544593 original size:8 final size:8
Alignment explanation
Indices: 22544580--22544604 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
22544570 ACTTTACATC
22544580 ATGCAAAT
1 ATGCAAAT
22544588 ATGCAAAT
1 ATGCAAAT
22544596 ATGCAAAT
1 ATGCAAAT
22544604 A
1 A
22544605 AATGCTCTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.52, C:0.12, G:0.12, T:0.24
Consensus pattern (8 bp):
ATGCAAAT
Done.