Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01001838.1 Hibiscus syriacus cultivar Beakdansim tig00003721_pilon, 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: 3924084
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 14 of 18
Found at i:2797871 original size:3 final size:3
Alignment explanation
Indices: 2797857--2797916 Score: 52
Period size: 3 Copynumber: 20.0 Consensus size: 3
2797847 AACTTGTATT
** *
2797857 TAA TATA TAA TAA T-A TAAA TAA TAA TAA TAA TGG TAA T-A TAC TAA
1 TAA TA-A TAA TAA TAA T-AA TAA TAA TAA TAA TAA TAA TAA TAA TAA
*
2797902 TAA TAA TAA AAA TAA
1 TAA TAA TAA TAA TAA
2797917 ATAAGCTTGG
Statistics
Matches: 45, Mismatches: 8, Indels: 8
0.74 0.13 0.13
Matches are distributed among these distances:
2 4 0.09
3 36 0.80
4 5 0.11
ACGTcount: A:0.62, C:0.02, G:0.03, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:2798505 original size:247 final size:248
Alignment explanation
Indices: 2798069--2798555 Score: 820
Period size: 247 Copynumber: 2.0 Consensus size: 248
2798059 ACCCTGAGGT
* * *
2798069 TTTACAAATTTGTGGTAAATAATTTTCTAGGTAAGAAACTTCTTACTTTTCAAAATATTCATTTT
1 TTTACAAATTTGTGGAAAATAATTTACTAAGTAAGAAACTTCTTACTTTTCAAAATATTCATTTT
*
2798134 CTTGAACATTAAATGAGAAGCTTTGAAAATCGCTTCCTCATTTTCATGCGAAAACCATATGTAAA
66 CTTGAACATTAAATGAGAAACTTTGAAAATCGCTTCCTCATTTTCATGCGAAAACCATATGTAAA
*
2798199 CATCTTACCCAAAGGTATGACGGATGGCCCTAAGGACTTATCATCTGGCTCGAAAGACTGATAGA
131 CATCTTACCCAAAGGTATGACGGATGGCCCTAAGGACTTATCATCTGGCTCGAAAGACTGACAGA
2798264 -ACCCTAAGGTTTTAAACATCATGCTCGAAAGACTGAA-AGATGATCCGAAGGA
196 GACCCTAAGGTTTTAAACATCATGCTCGAAAGACT-AACAGATGATCCGAAGGA
2798316 TTTACAAATTTGTGGAAAATAATTTACTAAGTAAGAAACTTCTTACTTTTCAAAA-ATTTCATTT
1 TTTACAAATTTGTGGAAAATAATTTACTAAGTAAGAAACTTCTTACTTTTCAAAATA-TTCATTT
* * * *
2798380 TCTTTAACATTAAATGAGAAACTTTGAAAATTGCTTTCTCATTTTCATGCGAAAATCATATGTAA
65 TCTTGAACATTAAATGAGAAACTTTGAAAATCGCTTCCTCATTTTCATGCGAAAACCATATGTAA
*
2798445 ACAT-TCTACCCAAAGGTATGACGGATGGCCCTAAGGACTTATCATCTGGCTTGAAAGACTGACA
130 ACATCT-TACCCAAAGGTATGACGGATGGCCCTAAGGACTTATCATCTGGCTCGAAAGACTGACA
2798509 GATGACCCTAAGGTTTTAAACATCATGCTCGAAAGACTAACAGATGA
194 GA-GACCCTAAGGTTTTAAACATCATGCTCGAAAGACTAACAGATGA
2798556 CCCTAAGGTT
Statistics
Matches: 225, Mismatches: 10, Indels: 8
0.93 0.04 0.03
Matches are distributed among these distances:
246 2 0.01
247 181 0.80
248 2 0.01
249 40 0.18
ACGTcount: A:0.36, C:0.17, G:0.16, T:0.32
Consensus pattern (248 bp):
TTTACAAATTTGTGGAAAATAATTTACTAAGTAAGAAACTTCTTACTTTTCAAAATATTCATTTT
CTTGAACATTAAATGAGAAACTTTGAAAATCGCTTCCTCATTTTCATGCGAAAACCATATGTAAA
CATCTTACCCAAAGGTATGACGGATGGCCCTAAGGACTTATCATCTGGCTCGAAAGACTGACAGA
GACCCTAAGGTTTTAAACATCATGCTCGAAAGACTAACAGATGATCCGAAGGA
Found at i:2798546 original size:42 final size:42
Alignment explanation
Indices: 2798497--2798610 Score: 174
Period size: 42 Copynumber: 2.7 Consensus size: 42
2798487 CATCTGGCTT
2798497 GAAAGACTGACAGATGACCCTAAGGTTTTAAACATCATGCTC
1 GAAAGACTGACAGATGACCCTAAGGTTTTAAACATCATGCTC
*
2798539 GAAAGACTAACAGATGACCCTAAGGTTTTAAACATCATGCTC
1 GAAAGACTGACAGATGACCCTAAGGTTTTAAACATCATGCTC
* * * * *
2798581 GAAAGAATGAAAGATAACCCGAAGGATTTA
1 GAAAGACTGACAGATGACCCTAAGGTTTTA
2798611 CAAATTTGTG
Statistics
Matches: 65, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
42 65 1.00
ACGTcount: A:0.40, C:0.18, G:0.19, T:0.22
Consensus pattern (42 bp):
GAAAGACTGACAGATGACCCTAAGGTTTTAAACATCATGCTC
Found at i:2798653 original size:291 final size:291
Alignment explanation
Indices: 2798246--2798847 Score: 1012
Period size: 291 Copynumber: 2.1 Consensus size: 291
2798236 TTATCATCTG
* * *
2798246 GCTCGAAAGACTGATAGA--ACCCTAAGGTTTTAAACATCATGCTCGAAAGACTGAAAGATGATC
1 GCTCGAAAGACTGATAGATGACCCTAAGGTTTTAAACATCATGCTCGAAAGAATGAAAGATAACC
*
2798309 CGAAGGATTTACAAATTTGTGGAAAATAATTTACTAAGTAAGAAACTTCTTACTTTTCAAAAATT
66 CGAAGGATTTACAAATTTGTGGAAAATAATTTACTAAGTAAGAAACATCTTACTTTTCAAAAATT
* *
2798374 TCATTTTCTTTAACATTAAATGAGAAACTTTGAAAATTGCTTTCTCATTTTCATGCGAAAATCAT
131 TCATTTTCTTGAACATTAAATGAGAAACTTTGAAAATCGCTTTCTCATTTTCATGCGAAAATCAT
* * *
2798439 ATGTAAACATTCTACCCAAAGGTATGACGGATGGCCCTAAGGACTTATCATCTGGCTTGAAAGAC
196 ATGCAAACATCCTACCCAAAGGTATGACGGATGGCCCTAAGGACTTATCATCTGGCTCGAAAGAC
2798504 TGACAGATGACCCTAAGGTTTTAAACATCAT
261 TGACAGATGACCCTAAGGTTTTAAACATCAT
* *
2798535 GCTCGAAAGACTAACAGATGACCCTAAGGTTTTAAACATCATGCTCGAAAGAATGAAAGATAACC
1 GCTCGAAAGACTGATAGATGACCCTAAGGTTTTAAACATCATGCTCGAAAGAATGAAAGATAACC
*
2798600 CGAAGGATTTACAAATTTGTGGGAAATAATTTACTAAGTAAGAAGA-ATCTTACTTTTCAAAAAT
66 CGAAGGATTTACAAATTTGTGGAAAATAATTTACTAAGTAAGAA-ACATCTTACTTTTCAAAAAT
* *
2798664 TTCATTTTCTTGAACATTAAATGAGAAACTTTGAAAATCGTTTTCTCATTTTTATGCGAAAATCA
130 TTCATTTTCTTGAACATTAAATGAGAAACTTTGAAAATCGCTTTCTCATTTTCATGCGAAAATCA
* *
2798729 TATGCAAACATCCTACCCAAATGTATGACGGATGGCCCTAAGGACTTATCATTTGGCTCGAAAGA
195 TATGCAAACATCCTACCCAAAGGTATGACGGATGGCCCTAAGGACTTATCATCTGGCTCGAAAGA
* *
2798794 TTGATAGATGACCCTAAGGTTTTAAACATCAT
260 CTGACAGATGACCCTAAGGTTTTAAACATCAT
2798826 GCTCGAAAGACTGATAGATGAC
1 GCTCGAAAGACTGATAGATGAC
2798848 TCGAAGGATT
Statistics
Matches: 290, Mismatches: 20, Indels: 4
0.92 0.06 0.01
Matches are distributed among these distances:
289 16 0.06
291 273 0.94
292 1 0.00
ACGTcount: A:0.37, C:0.17, G:0.16, T:0.30
Consensus pattern (291 bp):
GCTCGAAAGACTGATAGATGACCCTAAGGTTTTAAACATCATGCTCGAAAGAATGAAAGATAACC
CGAAGGATTTACAAATTTGTGGAAAATAATTTACTAAGTAAGAAACATCTTACTTTTCAAAAATT
TCATTTTCTTGAACATTAAATGAGAAACTTTGAAAATCGCTTTCTCATTTTCATGCGAAAATCAT
ATGCAAACATCCTACCCAAAGGTATGACGGATGGCCCTAAGGACTTATCATCTGGCTCGAAAGAC
TGACAGATGACCCTAAGGTTTTAAACATCAT
Found at i:2798973 original size:249 final size:249
Alignment explanation
Indices: 2798535--2799235 Score: 1197
Period size: 249 Copynumber: 2.8 Consensus size: 249
2798525 TAAACATCAT
* * * *
2798535 GCTCGAAAGACTAACAGATGACCCTAAGGTTTTAAACATCATGCTCGAAAGAATGAAAGATAACC
1 GCTCGAAAGACTGATAGATGACCCTAAGGTTTTAAACATCATGCTCGAAAGACTGAAAGATGACC
*
2798600 CGAAGGATTTACAAATTTGTGGGAAATAATTTACTAAGTAAGAAGA-ATCTTACTTTTCAAAAAT
66 CGAAGGATTTACAAATTTGTGGGAAATAATTTACTAAGTAAGAA-ACTTCTTACTTTTCAAAAAT
* *
2798664 TTCATTTTCTTGAACATTAAATGAGAAACTTTGAAAATCGTTTTCTCATTTTTATGCGAAAATCA
130 TTCATTTTCTTGAACATTAAATGAGAAACTTTGAAAATCGCTTTCTCATTTTCATGCGAAAATCA
* * * * *
2798729 TATGCAAACATCCTACCCAAATGTATGACGGATGGCCCTAAGGACTTATCATTTG
195 TATGTAAACATCCTACCCAAAGGTATGAAGAATGGCCCTAAGGACTTATCATCTG
* * *
2798784 GCTCGAAAGATTGATAGATGACCCTAAGGTTTTAAACATCATGCTCGAAAGACTGATAGATGACT
1 GCTCGAAAGACTGATAGATGACCCTAAGGTTTTAAACATCATGCTCGAAAGACTGAAAGATGACC
2798849 CGAAGGATTTACAAATTTGTGGGAAATAATTTACTAAGTAAGAAACTTCTTACTTTTCAAAAATT
66 CGAAGGATTTACAAATTTGTGGGAAATAATTTACTAAGTAAGAAACTTCTTACTTTTCAAAAATT
* *
2798914 TCATTTTCTTGAACATTAAATGAAAAACTTTGAAAACCGCTTTCTCATTTTCATGCGAAAATCAT
131 TCATTTTCTTGAACATTAAATGAGAAACTTTGAAAATCGCTTTCTCATTTTCATGCGAAAATCAT
2798979 ATGTAAACATCCTACCCAAAGGTATGAAGAATGGCCCTAAGGACTTATCATCTG
196 ATGTAAACATCCTACCCAAAGGTATGAAGAATGGCCCTAAGGACTTATCATCTG
*
2799033 GCTCGAAAGACTGATAGATGACCCTAAGGTTTTAAGCATCATGCTCGAAAGACTGAAAGATGACC
1 GCTCGAAAGACTGATAGATGACCCTAAGGTTTTAAACATCATGCTCGAAAGACTGAAAGATGACC
*
2799098 CGAAGGATTTACAAATTTGTGGGAAATAATTTACTAAGTAAGAAACTTCTTACTTTTCAAAAAAT
66 CGAAGGATTTACAAATTTGTGGGAAATAATTTACTAAGTAAGAAACTTCTTACTTTTCAAAAATT
* *
2799163 TCATTTTCTTGAACATTAAATGAGAAACTTTGAAAATCGCTTTCTCATTTTCATGCGAGAATCGT
131 TCATTTTCTTGAACATTAAATGAGAAACTTTGAAAATCGCTTTCTCATTTTCATGCGAAAATCAT
2799228 ATGTAAAC
196 ATGTAAAC
2799236 TGTAACATCC
Statistics
Matches: 425, Mismatches: 26, Indels: 2
0.94 0.06 0.00
Matches are distributed among these distances:
248 1 0.00
249 424 1.00
ACGTcount: A:0.37, C:0.16, G:0.16, T:0.31
Consensus pattern (249 bp):
GCTCGAAAGACTGATAGATGACCCTAAGGTTTTAAACATCATGCTCGAAAGACTGAAAGATGACC
CGAAGGATTTACAAATTTGTGGGAAATAATTTACTAAGTAAGAAACTTCTTACTTTTCAAAAATT
TCATTTTCTTGAACATTAAATGAGAAACTTTGAAAATCGCTTTCTCATTTTCATGCGAAAATCAT
ATGTAAACATCCTACCCAAAGGTATGAAGAATGGCCCTAAGGACTTATCATCTG
Found at i:2799085 original size:540 final size:538
Alignment explanation
Indices: 2798069--2799108 Score: 1746
Period size: 540 Copynumber: 1.9 Consensus size: 538
2798059 ACCCTGAGGT
* * * *
2798069 TTTACAAATTTGTGGTAAATAATTTTCTAGGTAAGAAACTTCTTACTTTTCAAAATATTCATTTT
1 TTTACAAATTTGTGGGAAATAATTTACTAAGTAAGAAACATCTTACTTTTCAAAATATTCATTTT
* *
2798134 CTTGAACATTAAATGAGAAGCTTTGAAAATCGCTTCCTCATTTTCATGCGAAAACCATATGTAAA
66 CTTGAACATTAAATGAGAAACTTTGAAAATCGCTTCCTCATTTTCATGCGAAAACCATATGCAAA
*
2798199 CATCTTACCCAAAGGTATGACGGATGGCCCTAAGGACTTATCATCTGGCTCGAAAGACTGATAGA
131 CATCCTACCCAAAGGTATGACGGATGGCCCTAAGGACTTATCATCTGGCTCGAAAGACTGATAGA
2798264 ACCCTAAGGTTTTAAACATCATGCTCGAAAGACTGAAAGATGATCCGAAGGATTTACAAATTTGT
196 ACCCTAAGGTTTTAAACATCATGCTCGAAAGACTGAAAGATGATCCGAAGGATTTACAAATTTGT
*
2798329 GGAAAATAATTTACTAAGTAAGAAACTTCTTACTTTTCAAAAATTTCATTTTCTTTAACATTAAA
261 GGAAAATAATTTACTAAGTAAGAAACTTCTTACTTTTCAAAAATTTCATTTTCTTGAACATTAAA
* ** *
2798394 TGAGAAACTTTGAAAATTGCTTTCTCATTTTCATGCGAAAATCATATGTAAACATTCTACCCAAA
326 TGAAAAACTTTGAAAACCGCTTTCTCATTTTCATGCGAAAATCATATGTAAACATCCTACCCAAA
* * *
2798459 GGTATGACGGATGGCCCTAAGGACTTATCATCTGGCTTGAAAGACTGACAGATGACCCTAAGGTT
391 GGTATGAAGAATGGCCCTAAGGACTTATCATCTGGCTCGAAAGACTGACAGATGACCCTAAGGTT
* *
2798524 TTAAACATCATGCTCGAAAGACT-AACAGATGACCCTAAGGTTTTAAACATCATGCTCGAAAGAA
456 TTAAACATCATGCTCGAAAGACTGAA-AGATGACCCGAAGGATTTAAACATCATGCTCGAAAGAA
2798588 TGAAAGATAACCCGAAGGA
520 TGAAAGATAACCCGAAGGA
2798607 TTTACAAATTTGTGGGAAATAATTTACTAAGTAAGAAGA-ATCTTACTTTTCAAAA-ATTTCATT
1 TTTACAAATTTGTGGGAAATAATTTACTAAGTAAGAA-ACATCTTACTTTTCAAAATA-TTCATT
* * * *
2798670 TTCTTGAACATTAAATGAGAAACTTTGAAAATCGTTTTCTCATTTTTATGCGAAAATCATATGCA
64 TTCTTGAACATTAAATGAGAAACTTTGAAAATCGCTTCCTCATTTTCATGCGAAAACCATATGCA
* * *
2798735 AACATCCTACCCAAATGTATGACGGATGGCCCTAAGGACTTATCATTTGGCTCGAAAGATTGATA
129 AACATCCTACCCAAAGGTATGACGGATGGCCCTAAGGACTTATCATCTGGCTCGAAAGACTGATA
*
2798800 GATGACCCTAAGGTTTTAAACATCATGCTCGAAAGACTGATAGATGA-CTCGAAGGATTTACAAA
194 GA--ACCCTAAGGTTTTAAACATCATGCTCGAAAGACTGAAAGATGATC-CGAAGGATTTACAAA
*
2798864 TTTGTGGGAAATAATTTACTAAGTAAGAAACTTCTTACTTTTCAAAAATTTCATTTTCTTGAACA
256 TTTGTGGAAAATAATTTACTAAGTAAGAAACTTCTTACTTTTCAAAAATTTCATTTTCTTGAACA
2798929 TTAAATGAAAAACTTTGAAAACCGCTTTCTCATTTTCATGCGAAAATCATATGTAAACATCCTAC
321 TTAAATGAAAAACTTTGAAAACCGCTTTCTCATTTTCATGCGAAAATCATATGTAAACATCCTAC
*
2798994 CCAAAGGTATGAAGAATGGCCCTAAGGACTTATCATCTGGCTCGAAAGACTGATAGATGACCCTA
386 CCAAAGGTATGAAGAATGGCCCTAAGGACTTATCATCTGGCTCGAAAGACTGACAGATGACCCTA
*
2799059 AGGTTTTAAGCATCATGCTCGAAAGACTGAAAGATGACCCGAAGGATTTA
451 AGGTTTTAAACATCATGCTCGAAAGACTGAAAGATGACCCGAAGGATTTA
2799109 CAAATTTGTG
Statistics
Matches: 468, Mismatches: 28, Indels: 10
0.92 0.06 0.02
Matches are distributed among these distances:
537 1 0.00
538 177 0.38
539 2 0.00
540 286 0.61
541 2 0.00
ACGTcount: A:0.36, C:0.17, G:0.16, T:0.31
Consensus pattern (538 bp):
TTTACAAATTTGTGGGAAATAATTTACTAAGTAAGAAACATCTTACTTTTCAAAATATTCATTTT
CTTGAACATTAAATGAGAAACTTTGAAAATCGCTTCCTCATTTTCATGCGAAAACCATATGCAAA
CATCCTACCCAAAGGTATGACGGATGGCCCTAAGGACTTATCATCTGGCTCGAAAGACTGATAGA
ACCCTAAGGTTTTAAACATCATGCTCGAAAGACTGAAAGATGATCCGAAGGATTTACAAATTTGT
GGAAAATAATTTACTAAGTAAGAAACTTCTTACTTTTCAAAAATTTCATTTTCTTGAACATTAAA
TGAAAAACTTTGAAAACCGCTTTCTCATTTTCATGCGAAAATCATATGTAAACATCCTACCCAAA
GGTATGAAGAATGGCCCTAAGGACTTATCATCTGGCTCGAAAGACTGACAGATGACCCTAAGGTT
TTAAACATCATGCTCGAAAGACTGAAAGATGACCCGAAGGATTTAAACATCATGCTCGAAAGAAT
GAAAGATAACCCGAAGGA
Found at i:2801337 original size:17 final size:19
Alignment explanation
Indices: 2801295--2801332 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
2801285 TTGTACCCTT
*
2801295 AGTGCATCGGTGCACTAAG
1 AGTGCATCGATGCACTAAG
2801314 AGTGCATCGATGCACTAAG
1 AGTGCATCGATGCACTAAG
2801333 TGCATTCGAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.29, C:0.21, G:0.29, T:0.21
Consensus pattern (19 bp):
AGTGCATCGATGCACTAAG
Found at i:2801359 original size:25 final size:26
Alignment explanation
Indices: 2801330--2801395 Score: 100
Period size: 25 Copynumber: 2.5 Consensus size: 26
2801320 TCGATGCACT
2801330 AAGTGCATTCGATGTTTCAAAATA-C
1 AAGTGCATTCGATGTTTCAAAATACC
2801355 AAGTGCATTCGATGTTTCAAAATAGCC
1 AAGTGCATTCGATGTTTCAAAATA-CC
2801382 AGAGTGCA-TCGATG
1 A-AGTGCATTCGATG
2801396 CATGACTGGT
Statistics
Matches: 38, Mismatches: 0, Indels: 4
0.90 0.00 0.10
Matches are distributed among these distances:
25 24 0.63
27 8 0.21
28 6 0.16
ACGTcount: A:0.33, C:0.17, G:0.21, T:0.29
Consensus pattern (26 bp):
AAGTGCATTCGATGTTTCAAAATACC
Found at i:2801463 original size:65 final size:65
Alignment explanation
Indices: 2801358--2801499 Score: 175
Period size: 65 Copynumber: 2.2 Consensus size: 65
2801348 AAAATACAAG
* *
2801358 TGCATTCGATG-TTTCAAAATAGCCAGAGTGCATCGATGCAT-G-ACTGGTGCATCGATGCATCA
1 TGCATTCGATGTTTTCAAAACAGCCAGAGTGCATCGATGCATGGTA-T-GTGCATCGATACATCA
2801420 AA
64 AA
* * * *
2801422 TGCATTCGATGTTTTCATAACATCCTA-AGTGCATCGGTGCATGGTATGTGCATCGATACATGAA
1 TGCATTCGATGTTTTCAAAACAGCC-AGAGTGCATCGATGCATGGTATGTGCATCGATACATCAA
2801486 A
65 A
2801487 TGCATTCGATGTT
1 TGCATTCGATGTT
2801500 CAATTTAATT
Statistics
Matches: 68, Mismatches: 6, Indels: 7
0.84 0.07 0.09
Matches are distributed among these distances:
64 11 0.16
65 53 0.78
66 3 0.04
67 1 0.01
ACGTcount: A:0.27, C:0.19, G:0.23, T:0.31
Consensus pattern (65 bp):
TGCATTCGATGTTTTCAAAACAGCCAGAGTGCATCGATGCATGGTATGTGCATCGATACATCAAA
Found at i:2801538 original size:65 final size:65
Alignment explanation
Indices: 2801384--2801549 Score: 173
Period size: 65 Copynumber: 2.6 Consensus size: 65
2801374 AAATAGCCAG
* * *
2801384 AGTGCATCGATGCAT-GACTGGTGCATCGATGCATCAAATGCATTCGATGTTTTCATAACATCCT
1 AGTGCATCGATGCATGGATTGGTGCATCGATACATCAAATGCATTCGATGTTTT-ATAACATCAT
2801448 A
65 A
* * *
2801449 AGTGCATCGGTGCATGG-TAT-GTGCATCGATACATGAAATGCATTCGATGTTCAATT-TAA-TT
1 AGTGCATCGATGCATGGAT-TGGTGCATCGATACATCAAATGCATTCGATGTT---TTATAACAT
2801510 CAT-
62 CATA
* *
2801513 GGTGCATCGATGCATGGATTGGTGCATCGATGCATCA
1 AGTGCATCGATGCATGGATTGGTGCATCGATACATCA
2801550 CTCTGAAAAA
Statistics
Matches: 84, Mismatches: 10, Indels: 14
0.78 0.09 0.13
Matches are distributed among these distances:
64 16 0.19
65 61 0.73
66 5 0.06
68 2 0.02
ACGTcount: A:0.27, C:0.19, G:0.23, T:0.31
Consensus pattern (65 bp):
AGTGCATCGATGCATGGATTGGTGCATCGATACATCAAATGCATTCGATGTTTTATAACATCATA
Found at i:2802182 original size:23 final size:23
Alignment explanation
Indices: 2802156--2802216 Score: 86
Period size: 23 Copynumber: 2.7 Consensus size: 23
2802146 TATGGCATTT
2802156 CGGTGCATTTCTACGTGGCACTA
1 CGGTGCATTTCTACGTGGCACTA
* * *
2802179 CGGTGTAATTCTACGTGGCACTT
1 CGGTGCATTTCTACGTGGCACTA
*
2802202 CGGTGCATTTATACG
1 CGGTGCATTTCTACG
2802217 AGCTGTGGTG
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
23 32 1.00
ACGTcount: A:0.18, C:0.23, G:0.26, T:0.33
Consensus pattern (23 bp):
CGGTGCATTTCTACGTGGCACTA
Found at i:2807428 original size:23 final size:23
Alignment explanation
Indices: 2807397--2807464 Score: 66
Period size: 23 Copynumber: 3.0 Consensus size: 23
2807387 GGGACAATCT
2807397 TATATGGCAATTCGGTGCATTTC
1 TATATGGCAATTCGGTGCATTTC
* * *
2807420 TATAAGGC-ATTACAGTGCAATTC
1 TATATGGCAATT-CGGTGCATTTC
** *
2807443 TACGTGGCACTTCGGTGCATTT
1 TATATGGCAATTCGGTGCATTT
2807465 ATACGAGCTG
Statistics
Matches: 34, Mismatches: 9, Indels: 4
0.72 0.19 0.09
Matches are distributed among these distances:
22 3 0.09
23 29 0.85
24 2 0.06
ACGTcount: A:0.24, C:0.19, G:0.22, T:0.35
Consensus pattern (23 bp):
TATATGGCAATTCGGTGCATTTC
Found at i:2816813 original size:3 final size:3
Alignment explanation
Indices: 2816805--2816832 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
2816795 CAAAATGCTT
2816805 ACA ACA ACA ACA ACA ACA ACA ACA ACA A
1 ACA ACA ACA ACA ACA ACA ACA ACA ACA A
2816833 AACCCAATTC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.68, C:0.32, G:0.00, T:0.00
Consensus pattern (3 bp):
ACA
Found at i:2817070 original size:14 final size:14
Alignment explanation
Indices: 2817047--2817085 Score: 51
Period size: 14 Copynumber: 2.8 Consensus size: 14
2817037 TAATGGGGAG
*
2817047 TAATCCCTGCAAAA
1 TAATCTCTGCAAAA
*
2817061 TAATCTCTGCGAAA
1 TAATCTCTGCAAAA
*
2817075 GAATCTCTGCA
1 TAATCTCTGCA
2817086 TATAGACAGA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.36, C:0.26, G:0.13, T:0.26
Consensus pattern (14 bp):
TAATCTCTGCAAAA
Found at i:2822717 original size:3 final size:3
Alignment explanation
Indices: 2822703--2822771 Score: 61
Period size: 3 Copynumber: 23.0 Consensus size: 3
2822693 AACTTGTATC
* **
2822703 TAA TATA TAA TAA TAA TAA TAA T-A TAAA TAT TAA TAA TAA TGG TAA
1 TAA TA-A TAA TAA TAA TAA TAA TAA T-AA TAA TAA TAA TAA TAA TAA
* *
2822749 T-A TAC TAA TAA TAA TAA AAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA
2822772 AAAAGCTTGG
Statistics
Matches: 52, Mismatches: 10, Indels: 8
0.74 0.14 0.11
Matches are distributed among these distances:
2 4 0.08
3 43 0.83
4 5 0.10
ACGTcount: A:0.61, C:0.01, G:0.03, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:2825088 original size:33 final size:33
Alignment explanation
Indices: 2825046--2825114 Score: 120
Period size: 33 Copynumber: 2.1 Consensus size: 33
2825036 ACCCAAAATC
*
2825046 TCTAAACCTGACTAAAAGATAAGGAATTTGGGG
1 TCTAAACCTGACTAAAAGACAAGGAATTTGGGG
*
2825079 TCTAAACCTGACTAAAAGACGAGGAATTTGGGG
1 TCTAAACCTGACTAAAAGACAAGGAATTTGGGG
2825112 TCT
1 TCT
2825115 CAATGAGGAT
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 34 1.00
ACGTcount: A:0.36, C:0.14, G:0.25, T:0.25
Consensus pattern (33 bp):
TCTAAACCTGACTAAAAGACAAGGAATTTGGGG
Found at i:2850226 original size:18 final size:17
Alignment explanation
Indices: 2850203--2850268 Score: 71
Period size: 18 Copynumber: 3.8 Consensus size: 17
2850193 ATACTTAAAA
2850203 TTATCAGATGATTTTTAG
1 TTATCAGAT-ATTTTTAG
*
2850221 TTATCAGATATTTACT-G
1 TTATCAGATATTT-TTAG
*
2850238 TTATCAGATGATTTTCAG
1 TTATCAGAT-ATTTTTAG
*
2850256 TAATCAGATATTT
1 TTATCAGATATTT
2850269 ACAGATATCA
Statistics
Matches: 41, Mismatches: 4, Indels: 7
0.79 0.08 0.13
Matches are distributed among these distances:
17 18 0.44
18 23 0.56
ACGTcount: A:0.30, C:0.09, G:0.14, T:0.47
Consensus pattern (17 bp):
TTATCAGATATTTTTAG
Found at i:2850240 original size:17 final size:17
Alignment explanation
Indices: 2850179--2850330 Score: 108
Period size: 17 Copynumber: 8.8 Consensus size: 17
2850169 ATTCTAAATG
*
2850179 TTTACAGTTATCATATA
1 TTTACAGTTATCAGATA
* * *
2850196 CTTAAAATTATCAGATGA
1 TTTACAGTTATCAGAT-A
**
2850214 TTTTTAGTTATCAGATA
1 TTTACAGTTATCAGATA
*
2850231 TTTACTGTTATCAGATGA
1 TTTACAGTTATCAGAT-A
* *
2850249 TTTTCAGTAATCAGATA
1 TTTACAGTTATCAGATA
* *
2850266 TTTACAGATATCATATGA
1 TTTACAGTTATCAGAT-A
* * *
2850284 -TTAGAGTTATTATATA
1 TTTACAGTTATCAGATA
** *
2850300 TTTACAAATATCAAATA
1 TTTACAGTTATCAGATA
2850317 TTTTACAGTTATCA
1 -TTTACAGTTATCA
2850331 CACACAAATT
Statistics
Matches: 102, Mismatches: 28, Indels: 9
0.73 0.20 0.06
Matches are distributed among these distances:
16 1 0.01
17 62 0.61
18 39 0.38
ACGTcount: A:0.37, C:0.10, G:0.10, T:0.43
Consensus pattern (17 bp):
TTTACAGTTATCAGATA
Found at i:2850242 original size:35 final size:35
Alignment explanation
Indices: 2850203--2850285 Score: 121
Period size: 35 Copynumber: 2.4 Consensus size: 35
2850193 ATACTTAAAA
* * *
2850203 TTATCAGATGATTTTTAGTTATCAGATATTTACTG
1 TTATCAGATGATTTTCAGTAATCAGATATTTACAG
2850238 TTATCAGATGATTTTCAGTAATCAGATATTTACAG
1 TTATCAGATGATTTTCAGTAATCAGATATTTACAG
* *
2850273 ATATCATATGATT
1 TTATCAGATGATT
2850286 AGAGTTATTA
Statistics
Matches: 43, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
35 43 1.00
ACGTcount: A:0.33, C:0.10, G:0.13, T:0.45
Consensus pattern (35 bp):
TTATCAGATGATTTTCAGTAATCAGATATTTACAG
Found at i:2857082 original size:2 final size:2
Alignment explanation
Indices: 2857075--2857110 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
2857065 TCTATTAATT
2857075 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
2857111 AATAAGATTT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:2857373 original size:134 final size:132
Alignment explanation
Indices: 2857080--2857373 Score: 288
Period size: 134 Copynumber: 2.2 Consensus size: 132
2857070 TAATTTATAT
* * *
2857080 ATATATATATATATATATATATATATATATAAATAAGATTTTTATTTATTTAAAAATATCAGAAA
1 ATATATATATATAAATATATTTATATATATAAATAAGATATTTATTTATTTAAAAATATCAGAAA
*
2857145 AAGACTTCTAGGTGCTTTAAGACAGCTCTTTTCTTAATATTAAAAAATAAATAAATATTAATAAA
66 AAGACATCTAGGTGCTTTAAGACAGCTCTTTTCTTAATATTAAAAAATAAATAAATATTAATAAA
*
2857210 AT
131 AC
* * * * * * ** * *
2857212 ATTTATCTAAAAAAATAGATTAATATATAATTTATAGGATATTTATTTATTTTTAAAATATCAGA
1 ATATATATATATAAATATATTTATATAT-ATAAATAAGATATTTATTTA-TTTAAAAATATCAGA
* * * * * *
2857277 ATATGACATCTAGTTGTTTTAAGACTGC-CATTTTCTTTGATATT-AAAAATAAATAAACATTAT
64 AAAAGACATCTAGGTGCTTTAAGACAGCTC-TTTTC-TTAATATTAAAAAATAAAT-AA-A-TAT
* *
2857340 TATTTAAAC
124 TAATAAAAC
*
2857349 A-ATATATATATACATATATTTATAT
1 ATATATATATATAAATATATTTATAT
2857374 GACTAAGATA
Statistics
Matches: 125, Mismatches: 30, Indels: 10
0.76 0.18 0.06
Matches are distributed among these distances:
132 20 0.16
133 17 0.14
134 51 0.41
135 9 0.07
136 18 0.14
137 10 0.08
ACGTcount: A:0.45, C:0.06, G:0.06, T:0.42
Consensus pattern (132 bp):
ATATATATATATAAATATATTTATATATATAAATAAGATATTTATTTATTTAAAAATATCAGAAA
AAGACATCTAGGTGCTTTAAGACAGCTCTTTTCTTAATATTAAAAAATAAATAAATATTAATAAA
AC
Found at i:2859070 original size:3 final size:3
Alignment explanation
Indices: 2859053--2859116 Score: 87
Period size: 3 Copynumber: 21.0 Consensus size: 3
2859043 GCATGTAATT
2859053 TAA TAA -AA TTAA TAA TAA TAA TAAA TAA TAA TAA TAA TAA TAA TTAA
1 TAA TAA TAA -TAA TAA TAA TAA T-AA TAA TAA TAA TAA TAA TAA -TAA
2859100 TAA TAA TAA -AA TAA TAA
1 TAA TAA TAA TAA TAA TAA
2859117 CAACGAATGG
Statistics
Matches: 56, Mismatches: 0, Indels: 10
0.85 0.00 0.15
Matches are distributed among these distances:
2 4 0.07
3 44 0.79
4 8 0.14
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:2859079 original size:22 final size:22
Alignment explanation
Indices: 2859054--2859116 Score: 94
Period size: 22 Copynumber: 2.9 Consensus size: 22
2859044 CATGTAATTT
2859054 AATAA-AATTAATAATAATAATA
1 AATAATAA-TAATAATAATAATA
*
2859076 AATAATAATAATAATAATAATT
1 AATAATAATAATAATAATAATA
2859098 AATAATAATAA-AATAATAA
1 AATAATAATAATAATAATAA
2859117 CAACGAATGG
Statistics
Matches: 39, Mismatches: 1, Indels: 3
0.91 0.02 0.07
Matches are distributed among these distances:
21 8 0.21
22 29 0.74
23 2 0.05
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (22 bp):
AATAATAATAATAATAATAATA
Found at i:2859086 original size:19 final size:19
Alignment explanation
Indices: 2859053--2859113 Score: 90
Period size: 19 Copynumber: 3.3 Consensus size: 19
2859043 GCATGTAATT
*
2859053 TAATAAA-ATTAATAATAA
1 TAATAAATAATAATAATAA
2859071 TAATAAATAATAATAATAA
1 TAATAAATAATAATAATAA
*
2859090 TAATAATTAATAATAATAA
1 TAATAAATAATAATAATAA
2859109 -AATAA
1 TAATAA
2859114 TAACAACGAA
Statistics
Matches: 40, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
18 12 0.30
19 28 0.70
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (19 bp):
TAATAAATAATAATAATAA
Found at i:2859734 original size:123 final size:113
Alignment explanation
Indices: 2859577--2860022 Score: 485
Period size: 112 Copynumber: 3.9 Consensus size: 113
2859567 AACTCCATAG
* *
2859577 GTGATGAA-TCAAGC-TAAGGTCGAACAAATTCTTCTCATTATGAACTTCTTCTTCC-TCTTCAG
1 GTGATGAATTCAAGCAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCATCTTCAG
* * **
2859639 ATAAGTTCTTCTCATTATGAACTTTATCTGGAAATGTTGGTGCTGATCTATCTCTTTCT
66 ATGAGTTCTTCTCATTATGAACTTTATCTGGAAA---T-GT--TGATCCA--TC---AA
* * * *
2859698 GTGAT-AGAGTCAATCAAAAGGTTGAACAAGTTCTTCTCATTATGAACTTTTTCTTCC-TCTTCA
1 GTGATGA-ATTCAAGCAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCATCTTCA
* ** * *
2859761 GATGAGTTCTTCTCATTATAAACTTCCTCTGGAAAAGTTGATCCATCGA
65 GATGAGTTCTTCTCATTATGAACTTTATCTGGAAATGTTGATCCATCAA
* * *
2859810 GTGATGAATTCAAGCAAAAGGCTGAACAAATTCTTCTCATTATAAATTTCTTC-TCCATCTTCAG
1 GTGATGAATTCAAGCAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCATCTTCAG
* * * *
2859874 ATGAGTTATTCTCATTATG-ATTTCTACCTGGCAATGTTGATCCATCAA
66 ATGAGTTCTTCTCATTATGAACTT-TATCTGGAAATGTTGATCCATCAA
* * *
2859922 GTGATGAATTTAAGCAAAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAG
1 GTGATGAATTCAAGCAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCATCTTCAG
*
2859987 ATGAGTTCTTCTCATTATGAACTCT-TCTGGAAATGT
66 ATGAGTTCTTCTCATTATGAACTTTATCTGGAAATGT
2860023 CGGTCCATTG
Statistics
Matches: 277, Mismatches: 40, Indels: 25
0.81 0.12 0.07
Matches are distributed among these distances:
111 6 0.02
112 143 0.52
113 30 0.11
114 2 0.01
115 2 0.01
117 6 0.02
119 2 0.01
120 1 0.00
121 6 0.02
122 5 0.02
123 74 0.27
ACGTcount: A:0.28, C:0.19, G:0.15, T:0.38
Consensus pattern (113 bp):
GTGATGAATTCAAGCAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCATCTTCAG
ATGAGTTCTTCTCATTATGAACTTTATCTGGAAATGTTGATCCATCAA
Found at i:2860430 original size:22 final size:22
Alignment explanation
Indices: 2860405--2860483 Score: 122
Period size: 22 Copynumber: 3.6 Consensus size: 22
2860395 TCCAATAAAG
2860405 CTATCATCTTTGAAAAGAGAAT
1 CTATCATCTTTGAAAAGAGAAT
*
2860427 CTATCATCTTTGGAAAGAGAAT
1 CTATCATCTTTGAAAAGAGAAT
* *
2860449 CTATCATTTTTGAAGAGAGAAT
1 CTATCATCTTTGAAAAGAGAAT
*
2860471 ATATCATCTTTGA
1 CTATCATCTTTGA
2860484 GGAATATAGA
Statistics
Matches: 51, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
22 51 1.00
ACGTcount: A:0.37, C:0.13, G:0.15, T:0.35
Consensus pattern (22 bp):
CTATCATCTTTGAAAAGAGAAT
Found at i:2868775 original size:43 final size:44
Alignment explanation
Indices: 2868703--2868789 Score: 131
Period size: 43 Copynumber: 2.0 Consensus size: 44
2868693 CCGTGCATCA
*
2868703 AACAAAACTTTTACATATAAGGGACAACTTTCAGTCCTAACTTC
1 AACAAAACTTTTACATATAAGGGACAACTTTCACTCCTAACTTC
* * *
2868747 AACAAAAC-TTTACATATAGGGGATAACTTTCCCTCCTAACTTC
1 AACAAAACTTTTACATATAAGGGACAACTTTCACTCCTAACTTC
2868790 TCTAAAGCCA
Statistics
Matches: 39, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
43 31 0.79
44 8 0.21
ACGTcount: A:0.37, C:0.24, G:0.09, T:0.30
Consensus pattern (44 bp):
AACAAAACTTTTACATATAAGGGACAACTTTCACTCCTAACTTC
Found at i:2869678 original size:46 final size:46
Alignment explanation
Indices: 2869610--2869697 Score: 124
Period size: 46 Copynumber: 1.9 Consensus size: 46
2869600 AGGTATAACT
* * * *
2869610 CCTAACCTCATGTTTTATAGTTCCATGCTTTGTTTGGAAAAATTAA
1 CCTAACCGCATGTATTATAGTTCCATGCTTTATTTAGAAAAATTAA
2869656 CCTAACCGCATG-ATTACTAGTTCCATGCTTTATTTAGAAAAA
1 CCTAACCGCATGTATTA-TAGTTCCATGCTTTATTTAGAAAAA
2869698 AAACAAAAGT
Statistics
Matches: 37, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
45 3 0.08
46 34 0.92
ACGTcount: A:0.31, C:0.19, G:0.12, T:0.38
Consensus pattern (46 bp):
CCTAACCGCATGTATTATAGTTCCATGCTTTATTTAGAAAAATTAA
Found at i:2870193 original size:18 final size:16
Alignment explanation
Indices: 2870156--2870193 Score: 51
Period size: 15 Copynumber: 2.3 Consensus size: 16
2870146 TAATGCATGA
2870156 AAATAAAAAAGATATT
1 AAATAAAAAAGATATT
2870172 -AATAAAAAAGAATATAT
1 AAATAAAAAAG-ATAT-T
2870189 AAATA
1 AAATA
2870194 TTATGAAATA
Statistics
Matches: 19, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
15 10 0.53
16 4 0.21
17 1 0.05
18 4 0.21
ACGTcount: A:0.71, C:0.00, G:0.05, T:0.24
Consensus pattern (16 bp):
AAATAAAAAAGATATT
Found at i:2870740 original size:2 final size:2
Alignment explanation
Indices: 2870733--2870760 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
2870723 TCTATTAATT
2870733 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
2870761 AATAAGATAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:2872691 original size:3 final size:3
Alignment explanation
Indices: 2872671--2872740 Score: 74
Period size: 3 Copynumber: 23.3 Consensus size: 3
2872661 AATGGGCCTG
*
2872671 TAA T-A TAA TAA -AA TTAA TAA TAA TAA TAAA TAA TAA TAA TAA TAT
1 TAA TAA TAA TAA TAA -TAA TAA TAA TAA T-AA TAA TAA TAA TAA TAA
*
2872716 TAA TTAT TAA TAA TAA TAA -AA TAA T
1 TAA -TAA TAA TAA TAA TAA TAA TAA T
2872741 GAAACCGAAT
Statistics
Matches: 57, Mismatches: 4, Indels: 12
0.78 0.05 0.16
Matches are distributed among these distances:
2 6 0.11
3 44 0.77
4 7 0.12
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (3 bp):
TAA
Found at i:2872704 original size:25 final size:25
Alignment explanation
Indices: 2872675--2872740 Score: 82
Period size: 25 Copynumber: 2.7 Consensus size: 25
2872665 GGCCTGTAAT
2872675 ATAATAA-AATTAATAATAATAATAA
1 ATAATAATAA-TAATAATAATAATAA
* * *
2872700 ATAATAATAATAATATTAATTATTA
1 ATAATAATAATAATAATAATAATAA
2872725 ATAATAATAA-AATAAT
1 ATAATAATAATAATAAT
2872741 GAAACCGAAT
Statistics
Matches: 36, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
24 5 0.14
25 29 0.81
26 2 0.06
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (25 bp):
ATAATAATAATAATAATAATAATAA
Found at i:2872710 original size:22 final size:22
Alignment explanation
Indices: 2872671--2872740 Score: 81
Period size: 22 Copynumber: 3.2 Consensus size: 22
2872661 AATGGGCCTG
2872671 TAATATAATAA-AATTAATAATAA
1 TAATA-AATAATAA-TAATAATAA
*
2872694 TAATAAATAATAATAATAATAT
1 TAATAAATAATAATAATAATAA
* *
2872716 TAATTATTAATAATAATAA-AA
1 TAATAAATAATAATAATAATAA
2872737 TAAT
1 TAAT
2872741 GAAACCGAAT
Statistics
Matches: 42, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
21 5 0.12
22 30 0.71
23 7 0.17
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (22 bp):
TAATAAATAATAATAATAATAA
Found at i:2875640 original size:86 final size:85
Alignment explanation
Indices: 2875491--2875823 Score: 400
Period size: 86 Copynumber: 3.9 Consensus size: 85
2875481 TTTTTTCACA
* * * * *
2875491 AAAAACGCCGCAATAAGTATTGATATTTAGTGGCGTTTGTGTGAAAAACGTCGCAATATGTGTTG
1 AAAAACGCCGCAATAGGTGTTGATATTTAGTGGCGTTTGT-TAAAAAACGCCGCAATAGGTGTTG
* * *
2875556 ATATTTAGTGACGTTTGTTAT
65 ATATTTAGCGGCGTTTGTCAT
* * *
2875577 AAAAACGCCACAATAGGTGTTGATATTTAGTGGTGTTTGTTATAAAAACGCCACAATAGGTGTTG
1 AAAAACGCCGCAATAGGTGTTGATATTTAGTGGCGTTTGTTA-AAAAACGCCGCAATAGGTGTTG
2875642 ATATTTAGCGGCGTTTGTCAT
65 ATATTTAGCGGCGTTTGTCAT
* * * * *
2875663 AAAAAAGCCGCAATAGGTGTTGATATTTAGTAGCGTTT-TCAACAAACGCCGCAAAAGGTGTTGA
1 AAAAACGCCGCAATAGGTGTTGATATTTAGTGGCGTTTGTTAAAAAACGCCGCAATAGGTGTTGA
2875727 TATTTAGCGGCGTTTGTCAT
66 TATTTAGCGGCGTTTGTCAT
* ** * * * *
2875747 AAAAACGCCGCAATAGGTGTTAATATTTAGCAGCGTTTCTCAGACAAACGCCGCAATATGT-TAT
1 AAAAACGCCGCAATAGGTGTTGATATTTAGTGGCGTTTGTTA-AAAAACGCCGCAATAGGTGT-T
*
2875811 GATGTTTAGCGGC
64 GATATTTAGCGGC
2875824 TTTTTTTTGT
Statistics
Matches: 218, Mismatches: 25, Indels: 8
0.87 0.10 0.03
Matches are distributed among these distances:
84 75 0.34
85 7 0.03
86 136 0.62
ACGTcount: A:0.31, C:0.14, G:0.23, T:0.32
Consensus pattern (85 bp):
AAAAACGCCGCAATAGGTGTTGATATTTAGTGGCGTTTGTTAAAAAACGCCGCAATAGGTGTTGA
TATTTAGCGGCGTTTGTCAT
Found at i:2875819 original size:127 final size:129
Alignment explanation
Indices: 2875491--2875886 Score: 415
Period size: 127 Copynumber: 3.1 Consensus size: 129
2875481 TTTTTTCACA
* * * ** *
2875491 AAAAACGCCGCAATAAGTATTGATATTTAGTGGCGTTTGTGTGAAAAACGTCGCAATATGTGTTG
1 AAAAACGCCGCAATAGGTGTTGATATTTAGCGGCGTTTGTCAGAAAAACGCCGCAATATGTGTTG
* * * * *
2875556 ATATTTAGTGACGTTTGTTATAAAAACGCCACAATAGGTGTTGATATTTAGTGGTGTTTGTTAT
66 ATATTTAGTGACGTTTGTCATAAAAACGCCACAAAAGGTGTTGATATTTAGCGGCGTTTGTCAT
* * * *
2875620 AAAAACGCCACAATAGGTGTTGATATTTAGCGGCGTTTGTCATAAAAAAGCCGCAATAGGTGTTG
1 AAAAACGCCGCAATAGGTGTTGATATTTAGCGGCGTTTGTCAGAAAAACGCCGCAATATGTGTTG
* *
2875685 ATATTTAGT-AGCGTTT-TCA-ACAAACGCCGCAAAAGGTGTTGATATTTAGCGGCGTTTGTCAT
66 ATATTTAGTGA-CGTTTGTCATAAAAACGCCACAAAAGGTGTTGATATTTAGCGGCGTTTGTCAT
* * * *
2875747 AAAAACGCCGCAATAGGTGTTAATATTTAGCAGCGTTTCTCAGACAAACGCCGCAATATGT-TAT
1 AAAAACGCCGCAATAGGTGTTGATATTTAGCGGCGTTTGTCAGAAAAACGCCGCAATATGTGT-T
* * * * * ** * ** * * *
2875811 GATGTTTAGCGGCTTTTTTTTGTTAAAACGCCACAGTAGGTGTTGATGTTTTGCGGCGTTTCTGC
65 GATATTTAGTGAC-GTTTGTCATAAAAACGCCACAAAAGGTGTTGATATTTAGCGGCGTTTGT-C
2875876 -T
128 AT
2875877 AAAAACGCCG
1 AAAAACGCCG
2875887 GTACAGGTCT
Statistics
Matches: 221, Mismatches: 39, Indels: 13
0.81 0.14 0.05
Matches are distributed among these distances:
126 1 0.00
127 100 0.45
128 6 0.03
129 70 0.32
130 43 0.19
131 1 0.00
ACGTcount: A:0.29, C:0.15, G:0.23, T:0.33
Consensus pattern (129 bp):
AAAAACGCCGCAATAGGTGTTGATATTTAGCGGCGTTTGTCAGAAAAACGCCGCAATATGTGTTG
ATATTTAGTGACGTTTGTCATAAAAACGCCACAAAAGGTGTTGATATTTAGCGGCGTTTGTCAT
Found at i:2875820 original size:43 final size:43
Alignment explanation
Indices: 2875491--2875804 Score: 357
Period size: 43 Copynumber: 7.3 Consensus size: 43
2875481 TTTTTTCACA
* * ** *
2875491 AAAAACGCCGCAATAAGTATTGATATTTAGTGGCGTTTGT-GT
1 AAAAACGCCGCAATAGGTGTTGATATTTAGCAGCGTTTGTCAT
* * * *
2875533 GAAAAACGTCGCAATATGTGTTGATATTTAG-TGACGTTTGTTAT
1 -AAAAACGCCGCAATAGGTGTTGATATTTAGCAG-CGTTTGTCAT
* ** * *
2875577 AAAAACGCCACAATAGGTGTTGATATTTAGTGGTGTTTGTTAT
1 AAAAACGCCGCAATAGGTGTTGATATTTAGCAGCGTTTGTCAT
* *
2875620 AAAAACGCCACAATAGGTGTTGATATTTAGCGGCGTTTGTCAT
1 AAAAACGCCGCAATAGGTGTTGATATTTAGCAGCGTTTGTCAT
* *
2875663 AAAAAAGCCGCAATAGGTGTTGATATTTAGTAGCGTTT-TCA-
1 AAAAACGCCGCAATAGGTGTTGATATTTAGCAGCGTTTGTCAT
* * *
2875704 ACAAACGCCGCAAAAGGTGTTGATATTTAGCGGCGTTTGTCAT
1 AAAAACGCCGCAATAGGTGTTGATATTTAGCAGCGTTTGTCAT
* * *
2875747 AAAAACGCCGCAATAGGTGTTAATATTTAGCAGCGTTTCTCAG
1 AAAAACGCCGCAATAGGTGTTGATATTTAGCAGCGTTTGTCAT
*
2875790 ACAAACGCCGCAATA
1 AAAAACGCCGCAATA
2875805 TGTTATGATG
Statistics
Matches: 237, Mismatches: 29, Indels: 10
0.86 0.11 0.04
Matches are distributed among these distances:
41 33 0.14
42 7 0.03
43 195 0.82
44 2 0.01
ACGTcount: A:0.32, C:0.15, G:0.23, T:0.31
Consensus pattern (43 bp):
AAAAACGCCGCAATAGGTGTTGATATTTAGCAGCGTTTGTCAT
Found at i:2876312 original size:21 final size:21
Alignment explanation
Indices: 2876288--2876337 Score: 55
Period size: 21 Copynumber: 2.4 Consensus size: 21
2876278 CTGATATGTT
*
2876288 GCTTCTCTCTGTGCTGCCGCA
1 GCTTCTCTCTCTGCTGCCGCA
* * *
2876309 GCTTATTTCTCTGCTTCCGCA
1 GCTTCTCTCTCTGCTGCCGCA
*
2876330 GCTGCTCT
1 GCTTCTCT
2876338 GGTTACTTCT
Statistics
Matches: 22, Mismatches: 7, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.06, C:0.36, G:0.20, T:0.38
Consensus pattern (21 bp):
GCTTCTCTCTCTGCTGCCGCA
Found at i:2880857 original size:30 final size:29
Alignment explanation
Indices: 2880821--2880884 Score: 76
Period size: 30 Copynumber: 2.1 Consensus size: 29
2880811 GAAGGACCTG
*
2880821 TCCAGAGGT-TACAAAGAACCCCGGTAACTA
1 TCCAGAGGTATA-AAAG-ACCCCGGCAACTA
*
2880851 TCCAGAGGTCATAAAAGATCCCGGCAACTA
1 TCCAGAGGT-ATAAAAGACCCCGGCAACTA
2880881 TCCA
1 TCCA
2880885 TATGTTCCTT
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
30 24 0.80
31 4 0.13
32 2 0.07
ACGTcount: A:0.36, C:0.28, G:0.19, T:0.17
Consensus pattern (29 bp):
TCCAGAGGTATAAAAGACCCCGGCAACTA
Found at i:2882302 original size:2 final size:2
Alignment explanation
Indices: 2882297--2882333 Score: 51
Period size: 2 Copynumber: 19.5 Consensus size: 2
2882287 CATCCTTATC
*
2882297 TA TA TA T- TA TA TA TA TA TA -A TA TA TA TC TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
2882334 CATTATTTAA
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
1 2 0.06
2 29 0.94
ACGTcount: A:0.46, C:0.03, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:2882313 original size:13 final size:12
Alignment explanation
Indices: 2882297--2882333 Score: 51
Period size: 11 Copynumber: 3.2 Consensus size: 12
2882287 CATCCTTATC
2882297 TATATAT-TATA
1 TATATATATATA
2882308 TATATATA-ATA
1 TATATATATATA
*
2882319 TATATCTATATA
1 TATATATATATA
2882331 TAT
1 TAT
2882334 CATTATTTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
11 17 0.74
12 6 0.26
ACGTcount: A:0.46, C:0.03, G:0.00, T:0.51
Consensus pattern (12 bp):
TATATATATATA
Found at i:2882721 original size:3 final size:3
Alignment explanation
Indices: 2882713--2882740 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
2882703 TTGTACTTGG
2882713 TAT TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT T
2882741 TTTTTCCTCA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:2885632 original size:30 final size:30
Alignment explanation
Indices: 2885596--2885659 Score: 92
Period size: 30 Copynumber: 2.1 Consensus size: 30
2885586 GAAGGACCTG
*
2885596 TCCAGAGGTTACAAAGAACCCCGGTAACTA
1 TCCAGAGGTCACAAAGAACCCCGGTAACTA
* * *
2885626 TCCAGAGGTCATAAAGATCCTCGGTAACTA
1 TCCAGAGGTCACAAAGAACCCCGGTAACTA
2885656 TCCA
1 TCCA
2885660 TATGTTCCTT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.34, C:0.27, G:0.19, T:0.20
Consensus pattern (30 bp):
TCCAGAGGTCACAAAGAACCCCGGTAACTA
Found at i:2892408 original size:43 final size:41
Alignment explanation
Indices: 2892309--2892422 Score: 133
Period size: 43 Copynumber: 2.7 Consensus size: 41
2892299 CTGCCCTAGC
* *
2892309 CTATAGCGGCGTTT-T-TAAAAACGCCGCAAAATATTATTATAT
1 CTATTGCGGCGTTTATCTAAAAACGCCAC-AAA-A-TATTATAT
* *
2892351 CTATTGCGGTGTTTATATTATAAAACGCCACAAAATATTATAT
1 CTATTGCGGCGTTTAT-CTA-AAAACGCCACAAAATATTATAT
2892394 CTATTGCGGCGTTTATCTAAAAACGCCAC
1 CTATTGCGGCGTTTATCTAAAAACGCCAC
2892423 TAAGGGTACG
Statistics
Matches: 63, Mismatches: 5, Indels: 9
0.82 0.06 0.12
Matches are distributed among these distances:
41 10 0.16
42 14 0.22
43 24 0.38
44 1 0.02
45 5 0.08
46 9 0.14
ACGTcount: A:0.34, C:0.18, G:0.14, T:0.33
Consensus pattern (41 bp):
CTATTGCGGCGTTTATCTAAAAACGCCACAAAATATTATAT
Found at i:2892448 original size:42 final size:41
Alignment explanation
Indices: 2892393--2892738 Score: 329
Period size: 41 Copynumber: 8.4 Consensus size: 41
2892383 AAATATTATA
* * *
2892393 TCTATTGCGGCGTTTATCTAAAAACGCCACTAAGGGTACGAG
1 TCTATAGCGGCGTTTATATAAAAACGCCACTAA-AGTACGAG
* * *
2892435 TCTATAGCAGCGTTTGTATAAAAACGCCACTAAAGTACAAG
1 TCTATAGCGGCGTTTATATAAAAACGCCACTAAAGTACGAG
* * **
2892476 TCTATAGCTGCATTTATATAAAAACGCTGCTAAAGTACGAG
1 TCTATAGCGGCGTTTATATAAAAACGCCACTAAAGTACGAG
* * *
2892517 TATTTAGCGGCGTTT-TCATTCAAAACGCCACTAAAGTACGAG
1 TCTATAGCGGCGTTTAT-A-TAAAAACGCCACTAAAGTACGAG
* * * * *
2892559 TTTATAGCAGCGTTTAGATTCAAAACGCCACTAAAGTATGAG
1 TCTATAGCGGCGTTTATA-TAAAAACGCCACTAAAGTACGAG
* * * *
2892601 TATATAGCGGCGTTTGTATAGAAACGCCACTAAAGTACTAG
1 TCTATAGCGGCGTTTATATAAAAACGCCACTAAAGTACGAG
* * * * *
2892642 TATATAGAGACGTTTATATAAAAATGCCAC-AAACGTACGAT
1 TCTATAGCGGCGTTTATATAAAAACGCCACTAAA-GTACGAG
* * *
2892683 TCTATAGCGGCGTTTGTATAAAAGCGTCACTAAAGTACGTA-
1 TCTATAGCGGCGTTTATATAAAAACGCCACTAAAGTACG-AG
* *
2892724 CCTATAGCGGTGTTT
1 TCTATAGCGGCGTTT
2892739 TTGGATACAA
Statistics
Matches: 250, Mismatches: 48, Indels: 13
0.80 0.15 0.04
Matches are distributed among these distances:
40 4 0.02
41 143 0.57
42 103 0.41
ACGTcount: A:0.34, C:0.18, G:0.20, T:0.28
Consensus pattern (41 bp):
TCTATAGCGGCGTTTATATAAAAACGCCACTAAAGTACGAG
Found at i:2892693 original size:166 final size:166
Alignment explanation
Indices: 2892413--2892721 Score: 394
Period size: 166 Copynumber: 1.9 Consensus size: 166
2892403 CGTTTATCTA
* * *
2892413 AAAACGCCACTAAGGGTACGAGTCTATAGCAGCGTTTGTATAAAAACGCCACTAAAGTACAAGTC
1 AAAACGCCACTAAGAGTACGAGTATATAGCAGCGTTTGTATAAAAACGCCACTAAAGTACAAGTA
* ** *
2892478 TATAGCTGCATTTATATAAAAACGCTGCTAAAGTACGAGTATTTAGCGGCGTTT-TCATTCAAAA
66 TATAGCAGCATTTATATAAAAACGCCACTAAAGTACGAGTATATAGCGGCGTTTGT-A-T-AAAA
2892542 -CGCCACTAAAGTACGAGTTTATAGCAGCGTTTAGATTC
128 GCGCCACTAAAGTACGAGTTTATAGCAGCGTTTAGATTC
* * * *
2892580 AAAACGCCACTAA-AGTATGAGTATATAGCGGCGTTTGTATAGAAACGCCACTAAAGTACTAGTA
1 AAAACGCCACTAAGAGTACGAGTATATAGCAGCGTTTGTATAAAAACGCCACTAAAGTACAAGTA
* * * *
2892644 TATAG-AGACGTTTATATAAAAATGCCAC-AAACGTACGATTCTATAGCGGCGTTTGTATAAAAG
66 TATAGCAG-CATTTATATAAAAACGCCACTAAA-GTACGAGTATATAGCGGCGTTTGTATAAAAG
*
2892707 CGTCACTAAAGTACG
129 CGCCACTAAAGTACG
2892722 TACCTATAGC
Statistics
Matches: 122, Mismatches: 16, Indels: 10
0.82 0.11 0.07
Matches are distributed among these distances:
164 4 0.03
165 19 0.16
166 85 0.70
167 14 0.11
ACGTcount: A:0.36, C:0.18, G:0.19, T:0.26
Consensus pattern (166 bp):
AAAACGCCACTAAGAGTACGAGTATATAGCAGCGTTTGTATAAAAACGCCACTAAAGTACAAGTA
TATAGCAGCATTTATATAAAAACGCCACTAAAGTACGAGTATATAGCGGCGTTTGTATAAAAGCG
CCACTAAAGTACGAGTTTATAGCAGCGTTTAGATTC
Found at i:2893300 original size:21 final size:21
Alignment explanation
Indices: 2893204--2893315 Score: 67
Period size: 21 Copynumber: 5.4 Consensus size: 21
2893194 ATATATTTTA
2893204 TAAA-AATATA-TTT-ATAAT
1 TAAATAATATATTTTAATAAT
** *
2893222 TATTTATTATATTTTAA-ACAGT
1 TAAATAATATATTTTAATA-A-T
2893244 TAAAATAATATATTTT-ATAA-
1 T-AAATAATATATTTTAATAAT
** **
2893264 TATTTTTTATATTTTTAATAAT
1 TAAATAATATA-TTTTAATAAT
2893286 TAAATAATATATTTTAATAAT
1 TAAATAATATATTTTAATAAT
2893307 ATAAA-AATA
1 -TAAATAATA
2893316 AAAATTCTTA
Statistics
Matches: 69, Mismatches: 14, Indels: 19
0.68 0.14 0.19
Matches are distributed among these distances:
18 2 0.03
19 11 0.16
20 9 0.13
21 20 0.29
22 15 0.22
23 12 0.17
ACGTcount: A:0.48, C:0.01, G:0.01, T:0.50
Consensus pattern (21 bp):
TAAATAATATATTTTAATAAT
Found at i:2893306 original size:42 final size:41
Alignment explanation
Indices: 2893204--2893308 Score: 133
Period size: 42 Copynumber: 2.5 Consensus size: 41
2893194 ATATATTTTA
*
2893204 TAAA-AATATA-TTTATAATTATTTATTATATTTTAAACAGT
1 TAAATAATATATTTTATAA-TATTTATTATATTTTAAACAAT
* * *
2893244 TAAAATAATATATTTTATAATATTTTTTATATTTTTAATAAT
1 T-AAATAATATATTTTATAATATTTATTATATTTTAAACAAT
2893286 TAAATAATATATTTTAATAATAT
1 TAAATAATATATTTT-ATAATAT
2893309 AAAAATAAAA
Statistics
Matches: 57, Mismatches: 4, Indels: 6
0.85 0.06 0.09
Matches are distributed among these distances:
40 1 0.02
41 17 0.30
42 32 0.56
43 7 0.12
ACGTcount: A:0.46, C:0.01, G:0.01, T:0.52
Consensus pattern (41 bp):
TAAATAATATATTTTATAATATTTATTATATTTTAAACAAT
Found at i:2894963 original size:115 final size:115
Alignment explanation
Indices: 2894754--2894963 Score: 305
Period size: 115 Copynumber: 1.8 Consensus size: 115
2894744 TAAACTAAAA
* * *
2894754 CATTGATCACCTAACTATTACCTATTTTTATTTTGACCATCATTTTTGAAATTTTATCAATCATG
1 CATTGACCACCTAACTACTACCTATTTTTATTTTGACCATCATTTTTGAAATTTGATCAATCATG
* * *
2894819 TCATTCAATTATTTAAATGCATTCAATCAAATCAATTACCGTTAATATAT
66 TCATCCAATTATTTAAATACACTCAATCAAATCAATTACCGTTAATATAT
** *
2894869 CATTGACCACCTAACTACTGTCTATTTTTATTTTGACCA-CTATTTTTGAAATTTGATCAATCGT
1 CATTGACCACCTAACTACTACCTATTTTTATTTTGACCATC-ATTTTTGAAATTTGATCAATCAT
* *
2894933 GTCATCCATTTATTTAAATACACTCGATCAA
65 GTCATCCAATTATTTAAATACACTCAATCAA
2894964 GCCACTTGCC
Statistics
Matches: 83, Mismatches: 11, Indels: 2
0.86 0.11 0.02
Matches are distributed among these distances:
114 1 0.01
115 82 0.99
ACGTcount: A:0.32, C:0.19, G:0.07, T:0.42
Consensus pattern (115 bp):
CATTGACCACCTAACTACTACCTATTTTTATTTTGACCATCATTTTTGAAATTTGATCAATCATG
TCATCCAATTATTTAAATACACTCAATCAAATCAATTACCGTTAATATAT
Found at i:2895914 original size:36 final size:37
Alignment explanation
Indices: 2895866--2896041 Score: 127
Period size: 36 Copynumber: 4.9 Consensus size: 37
2895856 TTTATTTATT
* *
2895866 ATATATATATATATTATAGTTTGAAATCATTTT-AAAA
1 ATATATA-ATATATTATATTTTGAAAACATTTTGAAAA
***
2895903 ATATATAATATAGGGT-TTTT-AAAACATTTTGAAAA
1 ATATATAATATATTATATTTTGAAAACATTTTGAAAA
* * *
2895938 TTTATATAATATA-TA-ATTTTGAAATCATTTTG-AAT
1 -ATATATAATATATTATATTTTGAAAACATTTTGAAAA
* * *
2895973 ATATAT-ATATTATAATTTTTTAAAAACATTTTTGAAAA
1 ATATATAATA-TATTATATTTTGAAAACA-TTTTGAAAA
* *
2896011 ATTATATAATATA-TA-GTTTTAAAAACATTTT
1 A-TATATAATATATTATATTTTGAAAACATTTT
2896042 TTGAAAACTA
Statistics
Matches: 110, Mismatches: 18, Indels: 23
0.73 0.12 0.15
Matches are distributed among these distances:
33 3 0.03
34 16 0.15
35 14 0.13
36 40 0.36
37 23 0.21
38 4 0.04
39 7 0.06
40 3 0.03
ACGTcount: A:0.45, C:0.03, G:0.06, T:0.47
Consensus pattern (37 bp):
ATATATAATATATTATATTTTGAAAACATTTTGAAAA
Found at i:2896042 original size:37 final size:36
Alignment explanation
Indices: 2895923--2896041 Score: 136
Period size: 36 Copynumber: 3.3 Consensus size: 36
2895913 TAGGGTTTTT
* *
2895923 AAAACATTTTGAAAATTTATATAATATATAATTTTG
1 AAAACATTTTGAAAAATTATATAATATATAATTTTA
* *
2895959 AAATCATTTTG-AATA-TATAT-ATATTATAATTTTTTA
1 AAAACATTTTGAAAAATTATATAATA-TATAA--TTTTA
*
2895995 AAAACATTTTTGAAAAATTATATAATATATAGTTTTA
1 AAAACA-TTTTGAAAAATTATATAATATATAATTTTA
2896032 AAAACATTTT
1 AAAACATTTT
2896042 TTGAAAACTA
Statistics
Matches: 69, Mismatches: 7, Indels: 14
0.77 0.08 0.16
Matches are distributed among these distances:
33 3 0.04
34 10 0.14
35 2 0.03
36 23 0.33
37 16 0.23
38 3 0.04
39 9 0.13
40 3 0.04
ACGTcount: A:0.46, C:0.03, G:0.04, T:0.46
Consensus pattern (36 bp):
AAAACATTTTGAAAAATTATATAATATATAATTTTA
Found at i:2896061 original size:30 final size:28
Alignment explanation
Indices: 2896027--2896085 Score: 91
Period size: 28 Copynumber: 2.0 Consensus size: 28
2896017 TAATATATAG
2896027 TTTTAAAAACATTTTTTGAAAACTATAATA
1 TTTT-AAAACA-TTTTTGAAAACTATAATA
*
2896057 TTTTAAATCATTTTTGAAAACTATAATA
1 TTTTAAAACATTTTTGAAAACTATAATA
2896085 T
1 T
2896086 ATAGTTTTGA
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
28 19 0.68
29 5 0.18
30 4 0.14
ACGTcount: A:0.44, C:0.07, G:0.03, T:0.46
Consensus pattern (28 bp):
TTTTAAAACATTTTTGAAAACTATAATA
Found at i:2896112 original size:30 final size:31
Alignment explanation
Indices: 2896014--2896154 Score: 107
Period size: 31 Copynumber: 4.5 Consensus size: 31
2896004 TTGAAAAATT
*
2896014 ATATAATATATAGTTTTAAAAACATTTTTTGAAA
1 ATATAATATATAG-TTT-AAAA-ATTTTTTTAAA
* *
2896048 ACTAT-A-ATAT--TTTAAATCA-TTTTTGAAA
1 A-TATAATATATAGTTTAAA-AATTTTTTTAAA
**
2896076 ACTATAATATATAGTTT-TGAATTTTTTTAAA
1 A-TATAATATATAGTTTAAAAATTTTTTTAAA
* *
2896107 ATATAATATATAGTTTAAAAATCTTTTTGAA
1 ATATAATATATAGTTTAAAAATTTTTTTAAA
2896138 ATA-ATATATATAGTTTA
1 ATATA-ATATATAGTTTA
2896155 TATTATTATT
Statistics
Matches: 89, Mismatches: 9, Indels: 21
0.75 0.08 0.18
Matches are distributed among these distances:
28 14 0.16
29 5 0.06
30 24 0.27
31 34 0.38
32 3 0.03
33 4 0.04
34 2 0.02
35 3 0.03
ACGTcount: A:0.44, C:0.04, G:0.06, T:0.47
Consensus pattern (31 bp):
ATATAATATATAGTTTAAAAATTTTTTTAAA
Found at i:2896203 original size:22 final size:21
Alignment explanation
Indices: 2896175--2896215 Score: 64
Period size: 22 Copynumber: 1.9 Consensus size: 21
2896165 AATTAGTATA
2896175 TTATTATTATTATTCTATTTGT
1 TTATTATTATTATT-TATTTGT
*
2896197 TTATTATTATTGTTTATTT
1 TTATTATTATTATTTATTT
2896216 TTCTTTTTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 5 0.28
22 13 0.72
ACGTcount: A:0.22, C:0.02, G:0.05, T:0.71
Consensus pattern (21 bp):
TTATTATTATTATTTATTTGT
Found at i:2896299 original size:184 final size:192
Alignment explanation
Indices: 2896091--2896466 Score: 696
Period size: 191 Copynumber: 2.0 Consensus size: 192
2896081 AATATATAGT
2896091 TTTGAATTTTTTTAAAATATAATATATAGTTTAAAAATCTTTTTGAAAT-A-ATA-TATATAGTT
1 TTTGAATTTTTTTAAAATATAATATATAGTTTAAAAATCTTTTTGAAATAATATATTATATAGTT
2896153 TATA-T-TATTATTAATTAGTATATTATTATTATTATTCTATTTG-TTTATT-ATTATTGTTTAT
66 TATATTATATTATTAATTAGTATATTATTATTATTATTCTATTTGTTTTATTAATTATTGTTTAT
2896214 TTTTCTTTTTTTTGAAATCTCGTCCAGGTCCAAAGTCAAGGTTC-GGTCAAAGCCTAACCGA
131 TTTTCTTTTTTTTGAAATCTCGTCCAGGTCCAAAGTCAAGGTTCGGGTCAAAGCCTAACCGA
2896275 TTTGAATTTTTTTAAAATATAATATATAGTTTAAAAATCTTTTTGAAATAATATATTATATAGTT
1 TTTGAATTTTTTTAAAATATAATATATAGTTTAAAAATCTTTTTGAAATAATATATTATATAGTT
2896340 TATATTATATTATTAATTAGTATATTATTATTATTATTCTATTTGTTTTATTAATTATTGTTTAT
66 TATATTATATTATTAATTAGTATATTATTATTATTATTCTATTTGTTTTATTAATTATTGTTTAT
2896405 TTTTCTTTTTTTTGAAATCTCGTCCAGGTCCAAAGTCAAGGTTCGGGTCAAAGCCTAACCGA
131 TTTTCTTTTTTTTGAAATCTCGTCCAGGTCCAAAGTCAAGGTTCGGGTCAAAGCCTAACCGA
2896467 GCCTGCAAGC
Statistics
Matches: 184, Mismatches: 0, Indels: 8
0.96 0.00 0.04
Matches are distributed among these distances:
184 49 0.27
185 1 0.01
186 3 0.02
187 13 0.07
188 1 0.01
189 38 0.21
190 6 0.03
191 56 0.30
192 17 0.09
ACGTcount: A:0.32, C:0.09, G:0.10, T:0.49
Consensus pattern (192 bp):
TTTGAATTTTTTTAAAATATAATATATAGTTTAAAAATCTTTTTGAAATAATATATTATATAGTT
TATATTATATTATTAATTAGTATATTATTATTATTATTCTATTTGTTTTATTAATTATTGTTTAT
TTTTCTTTTTTTTGAAATCTCGTCCAGGTCCAAAGTCAAGGTTCGGGTCAAAGCCTAACCGA
Found at i:2897573 original size:15 final size:16
Alignment explanation
Indices: 2897555--2897603 Score: 50
Period size: 14 Copynumber: 3.2 Consensus size: 16
2897545 CCTTTTATGA
*
2897555 TTATTT-CTTTTTGTT
1 TTATTTACTTTTTATT
*
2897570 TTATTTAGTTTTTATT
1 TTATTTACTTTTTATT
*
2897586 TTA-TTA-TTTTTAAT
1 TTATTTACTTTTTATT
2897600 TTAT
1 TTAT
2897604 CCTTATTTTA
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
14 10 0.34
15 9 0.31
16 10 0.34
ACGTcount: A:0.18, C:0.02, G:0.04, T:0.76
Consensus pattern (16 bp):
TTATTTACTTTTTATT
Found at i:2897626 original size:15 final size:14
Alignment explanation
Indices: 2897579--2897629 Score: 50
Period size: 15 Copynumber: 3.4 Consensus size: 14
2897569 TTTATTTAGT
2897579 TTTTATTT-TATTA
1 TTTTATTTATATTA
*
2897592 TTTTTAATTTATCCTTA
1 -TTTT-ATTTAT-ATTA
2897609 TTTTATTTATATTCA
1 TTTTATTTATATT-A
2897624 TTTTAT
1 TTTTAT
2897630 CTAATATATT
Statistics
Matches: 31, Mismatches: 2, Indels: 7
0.77 0.05 0.17
Matches are distributed among these distances:
14 6 0.19
15 17 0.55
16 5 0.16
17 3 0.10
ACGTcount: A:0.24, C:0.06, G:0.00, T:0.71
Consensus pattern (14 bp):
TTTTATTTATATTA
Found at i:2901533 original size:95 final size:96
Alignment explanation
Indices: 2901360--2901558 Score: 303
Period size: 95 Copynumber: 2.1 Consensus size: 96
2901350 AGATTATAAT
*
2901360 ATTATATATATACAATAAAGCTTGAGATGTCCCTCTAAAGCAATTAGTTAAACGCCCTGGATTTA
1 ATTATATATATACAATAAAGCTTGAGATGTCCCTCTAAAGCAATTAGTTAAACGCCCTCGATTTA
*
2901425 TGGATAAGATTCAGCTAGCCTGATAAAGGTG
66 TGGATAAGATTCAGCTAGCATGATAAAGGTG
* * * * *
2901456 ATTATA-ATGTACAATAAAGCTTGAGTTGTCCCTCTAGAGCAATTGGTTAAATGCCC-CGACTTT
1 ATTATATATATACAATAAAGCTTGAGATGTCCCTCTAAAGCAATTAGTTAAACGCCCTCGA-TTT
*
2901519 ATGGATAATATTCAGCTAGCATGATAAAGGTG
65 ATGGATAAGATTCAGCTAGCATGATAAAGGTG
2901551 ATTATATA
1 ATTATATA
2901559 ATATCTATAC
Statistics
Matches: 93, Mismatches: 8, Indels: 4
0.89 0.08 0.04
Matches are distributed among these distances:
94 2 0.02
95 84 0.90
96 7 0.08
ACGTcount: A:0.35, C:0.15, G:0.19, T:0.32
Consensus pattern (96 bp):
ATTATATATATACAATAAAGCTTGAGATGTCCCTCTAAAGCAATTAGTTAAACGCCCTCGATTTA
TGGATAAGATTCAGCTAGCATGATAAAGGTG
Found at i:2902962 original size:36 final size:36
Alignment explanation
Indices: 2902921--2903010 Score: 135
Period size: 36 Copynumber: 2.4 Consensus size: 36
2902911 AGTTGTCTCT
*
2902921 CTTGAAAAAAATTTTGTCTCTCTTGAGACAGTTTCC
1 CTTGAAAAAAATTTTGTCTCTCTTGAGACAATTTCC
* *
2902957 CTTGAAACAAATTTTATCTCTCTTGAGACAATTTCC
1 CTTGAAAAAAATTTTGTCTCTCTTGAGACAATTTCC
2902993 CTTGAAACAAAATCTTTG
1 CTTGAAA-AAAAT-TTTG
2903011 AATATGTTTT
Statistics
Matches: 47, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
36 40 0.85
37 4 0.09
38 3 0.06
ACGTcount: A:0.31, C:0.20, G:0.11, T:0.38
Consensus pattern (36 bp):
CTTGAAAAAAATTTTGTCTCTCTTGAGACAATTTCC
Found at i:2902987 original size:21 final size:20
Alignment explanation
Indices: 2902905--2902987 Score: 59
Period size: 21 Copynumber: 4.3 Consensus size: 20
2902895 AATTTACTCA
* *
2902905 AAACAAAGTTGTCTCTCTTG
1 AAACAAATTTTTCTCTCTTG
*
2902925 AAAAAAATTTTGTCTCTCTTG
1 AAACAAATTTT-TCTCTCTTG
* *
2902946 AGAC--A-GTTTC-C-CTTG
1 AAACAAATTTTTCTCTCTTG
2902961 AAACAAATTTTATCTCTCTTG
1 AAACAAATTTT-TCTCTCTTG
*
2902982 AGACAA
1 AAACAA
2902988 TTTCCCTTGA
Statistics
Matches: 47, Mismatches: 9, Indels: 13
0.68 0.13 0.19
Matches are distributed among these distances:
15 7 0.15
16 1 0.02
17 3 0.06
18 4 0.09
19 3 0.06
20 9 0.19
21 20 0.43
ACGTcount: A:0.33, C:0.19, G:0.12, T:0.36
Consensus pattern (20 bp):
AAACAAATTTTTCTCTCTTG
Found at i:2903117 original size:21 final size:21
Alignment explanation
Indices: 2903092--2903192 Score: 73
Period size: 21 Copynumber: 5.4 Consensus size: 21
2903082 TGAGACAGTT
2903092 TCTCTTGAAACAAATTTTGTC
1 TCTCTTGAAACAAATTTTGTC
* *
2903113 TCTCTTGAGAC--A-GTT-TC
1 TCTCTTGAAACAAATTTTGTC
2903130 -C-CTTGAAACAAATTTTGTC
1 TCTCTTGAAACAAATTTTGTC
* *
2903149 TCTCTTGAGAC--A-GTT-TC
1 TCTCTTGAAACAAATTTTGTC
*
2903166 -C-ATTGAAACAAATTTTGTC
1 TCTCTTGAAACAAATTTTGTC
2903185 TCTCTTGA
1 TCTCTTGA
2903193 GACAGTTTCC
Statistics
Matches: 58, Mismatches: 10, Indels: 24
0.63 0.11 0.26
Matches are distributed among these distances:
15 13 0.22
16 2 0.03
17 6 0.10
18 8 0.14
19 6 0.10
20 2 0.03
21 21 0.36
ACGTcount: A:0.26, C:0.21, G:0.13, T:0.41
Consensus pattern (21 bp):
TCTCTTGAAACAAATTTTGTC
Found at i:2903117 original size:36 final size:36
Alignment explanation
Indices: 2903037--2903213 Score: 273
Period size: 36 Copynumber: 4.9 Consensus size: 36
2903027 ATTAAATATC
* ** * *
2903037 GTCTCCCTTGAGACAGTTTCTTTTGGAACTAAGTTTT
1 GTCTCTCTTGAGACAGTTTCCCTTGAAAC-AAATTTT
*
2903074 GTCTCTCTTGAGACAGTTTCTCTTGAAACAAATTTT
1 GTCTCTCTTGAGACAGTTTCCCTTGAAACAAATTTT
2903110 GTCTCTCTTGAGACAGTTTCCCTTGAAACAAATTTT
1 GTCTCTCTTGAGACAGTTTCCCTTGAAACAAATTTT
*
2903146 GTCTCTCTTGAGACAGTTTCCATTGAAACAAATTTT
1 GTCTCTCTTGAGACAGTTTCCCTTGAAACAAATTTT
*
2903182 GTCTCTCTTGAGACAGTTTCCCTTTAAACAAA
1 GTCTCTCTTGAGACAGTTTCCCTTGAAACAAA
2903214 ATCTTTGAAT
Statistics
Matches: 132, Mismatches: 8, Indels: 1
0.94 0.06 0.01
Matches are distributed among these distances:
36 106 0.80
37 26 0.20
ACGTcount: A:0.25, C:0.21, G:0.15, T:0.40
Consensus pattern (36 bp):
GTCTCTCTTGAGACAGTTTCCCTTGAAACAAATTTT
Found at i:2903283 original size:210 final size:209
Alignment explanation
Indices: 2902921--2903386 Score: 770
Period size: 210 Copynumber: 2.2 Consensus size: 209
2902911 AGTTGTCTCT
*
2902921 CTTGAAAAAAATTTTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAATTTTATCTCTCTTGAGAC
1 CTTGAAACAAATTTTGTCTCTCTTGAGACAGTTT-CCTTGAAACAAATTTTATCTCTCTTGAGAC
** *
2902986 AATTTCCCTTGAAACAAAATCTTTGAATATGTTTTCCTTGAATTAAATATCGTCTCCCTTGAGAC
65 AATTTCCCTTGAAACAAAATCTTTGAATATGTTTTCCTTGAAACAAATATCGTCTCCCTCGAGAC
* *
2903051 AGTTTCTTTTGGAACTAAGTTTTGTCTCTCTTGAGACAGTTTCTCTTGAAACAAATTTTGTCTCT
130 AGTTTCTTTTGGAACTAAGTTTTATCTCTCTTGAGACAGTTTCTCCTGAAACAAATTTTGTCTCT
2903116 CTTGAGACAGTTTCC
195 CTTGAGACAGTTTCC
*
2903131 CTTGAAACAAATTTTGTCTCTCTTGAGACAGTTTCCATTGAAACAAATTTTGTCTCTCTTGAGAC
1 CTTGAAACAAATTTTGTCTCTCTTGAGACAGTTTCC-TTGAAACAAATTTTATCTCTCTTGAGAC
* * * * * *
2903196 AGTTTCCCTTTAAACAAAATCTTTGAATCTGTTTTCCTTGAAACAAATTTCGTTTCCCTCGAGAT
65 AATTTCCCTTGAAACAAAATCTTTGAATATGTTTTCCTTGAAACAAATATCGTCTCCCTCGAGAC
2903261 AGTTTCTTTTGGAACTAAGTTTTATCTCTCTTGAGACAGTTTCTCCTGAAACAAATTTTGTCTCT
130 AGTTTCTTTTGGAACTAAGTTTTATCTCTCTTGAGACAGTTTCTCCTGAAACAAATTTTGTCTCT
2903326 CTTGAGACAGTTTCC
195 CTTGAGACAGTTTCC
*
2903341 CTTGAAACAAAGTTTTGGCTCTCTTGAGACAGTTTCTCTTGAAACA
1 CTTGAAACAAA-TTTTGTCTCTCTTGAGACAGTTTC-CTTGAAACA
2903387 CCAATCTTTG
Statistics
Matches: 239, Mismatches: 14, Indels: 5
0.93 0.05 0.02
Matches are distributed among these distances:
209 2 0.01
210 205 0.86
211 31 0.13
212 1 0.00
ACGTcount: A:0.26, C:0.20, G:0.14, T:0.40
Consensus pattern (209 bp):
CTTGAAACAAATTTTGTCTCTCTTGAGACAGTTTCCTTGAAACAAATTTTATCTCTCTTGAGACA
ATTTCCCTTGAAACAAAATCTTTGAATATGTTTTCCTTGAAACAAATATCGTCTCCCTCGAGACA
GTTTCTTTTGGAACTAAGTTTTATCTCTCTTGAGACAGTTTCTCCTGAAACAAATTTTGTCTCTC
TTGAGACAGTTTCC
Found at i:2903291 original size:174 final size:175
Alignment explanation
Indices: 2903074--2903452 Score: 557
Period size: 174 Copynumber: 2.2 Consensus size: 175
2903064 ACTAAGTTTT
* * * *
2903074 GTCTCTCTTGAGACAGTTTCTCTTGAAACAAATTTTGTCTCTCTTGAGACAGTTTC-CCTTGAAA
1 GTCTCCCTCGAGATAGTTTCTCTTGAAACAAATTTTATCTCTCTTGAGACAGTTTCTCC-TGAAA
*
2903138 CAAATTTTGTCTCTCTTGAGACAGTTTCCATTGAAACAAA-TTTTGTCTCTCTTGAGACAGTTTC
65 CAAATTTTGTCTCTCTTGAGACAGTTTCCATTGAAACAAAGTTTTGGCTCTCTTGAGACAGTTTC
* * *
2903202 CCTTTAAACA-AAATCTTTGAATCTGTTTTCCTTGAAACAAATTTC
130 CCTTGAAACACAAATCTTTGAATATGTTTCCCTTGAAACAAATTTC
* * * *
2903247 GTTTCCCTCGAGATAGTTTCTTTTGGAACTAAGTTTTATCTCTCTTGAGACAGTTTCTCCTGAAA
1 GTCTCCCTCGAGATAGTTTCTCTTGAAAC-AAATTTTATCTCTCTTGAGACAGTTTCTCCTGAAA
*
2903312 CAAATTTTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAAGTTTTGGCTCTCTTGAGACAGTTTC
65 CAAATTTTGTCTCTCTTGAGACAGTTTCCATTGAAACAAAGTTTTGGCTCTCTTGAGACAGTTTC
* * *
2903377 TCTTGAAACACCAATCTTTGAATATGTTTCCCTTGAAACAAATTTT
130 CCTTGAAACACAAATCTTTGAATATGTTTCCCTTGAAACAAATTTC
* *
2903423 GTCTCCCTTGAGATAGTTTCTCTTAAAACA
1 GTCTCCCTCGAGATAGTTTCTCTTGAAACA
2903453 CAAAAAAACC
Statistics
Matches: 181, Mismatches: 21, Indels: 6
0.87 0.10 0.03
Matches are distributed among these distances:
173 23 0.13
174 69 0.38
175 34 0.19
176 55 0.30
ACGTcount: A:0.26, C:0.21, G:0.14, T:0.40
Consensus pattern (175 bp):
GTCTCCCTCGAGATAGTTTCTCTTGAAACAAATTTTATCTCTCTTGAGACAGTTTCTCCTGAAAC
AAATTTTGTCTCTCTTGAGACAGTTTCCATTGAAACAAAGTTTTGGCTCTCTTGAGACAGTTTCC
CTTGAAACACAAATCTTTGAATATGTTTCCCTTGAAACAAATTTC
Found at i:2903311 original size:138 final size:138
Alignment explanation
Indices: 2903090--2903351 Score: 384
Period size: 138 Copynumber: 1.9 Consensus size: 138
2903080 CTTGAGACAG
* * * *
2903090 TTTCTCTTGAAACAAATTTTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAATTTTGTCTCTCTT
1 TTTCTCTTGAAACAAATTTCGTCTCCCTCGAGACAGTTTCCCTTGAAACAAATTTTATCTCTCTT
* *
2903155 GAGACAGTTTCCATTGAAACAAATTTTGTCTCTCTTGAGACAGTTTCCCTTTAAACAAAATCTTT
66 GAGACAGTTTCCACTGAAACAAATTTTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAAATCTTT
2903220 GAATCTGT
131 GAATCTGT
* * ** * *
2903228 TTTC-CTTGAAACAAATTTCGTTTCCCTCGAGATAGTTTCTTTTGGAACTAAGTTTTATCTCTCT
1 TTTCTCTTGAAACAAATTTCGTCTCCCTCGAGACAGTTTCCCTTGAAAC-AAATTTTATCTCTCT
2903292 TGAGACAGTTTCTC-CTGAAACAAATTTTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAA
65 TGAGACAGTTTC-CACTGAAACAAATTTTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAA
2903352 GTTTTGGCTC
Statistics
Matches: 110, Mismatches: 12, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
137 36 0.33
138 73 0.66
139 1 0.01
ACGTcount: A:0.26, C:0.21, G:0.13, T:0.40
Consensus pattern (138 bp):
TTTCTCTTGAAACAAATTTCGTCTCCCTCGAGACAGTTTCCCTTGAAACAAATTTTATCTCTCTT
GAGACAGTTTCCACTGAAACAAATTTTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAAATCTTT
GAATCTGT
Found at i:2903356 original size:73 final size:73
Alignment explanation
Indices: 2903226--2903386 Score: 198
Period size: 73 Copynumber: 2.2 Consensus size: 73
2903216 CTTTGAATCT
* * ** * * *
2903226 GTTT-TCCTTGAAACAAATTTCGTTTCCCTCGAGATAGTTTCTTTTGGAACTAAGTTTTATCTCT
1 GTTTCTCC-TGAAACAAATTTCGTCTCCCTCGAGACAGTTTCCCTTGAAACAAAGTTTTAGCTCT
2903290 CTTGAGACA
65 CTTGAGACA
* * * *
2903299 GTTTCTCCTGAAACAAATTTTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAAGTTTTGGCTCTC
1 GTTTCTCCTGAAACAAATTTCGTCTCCCTCGAGACAGTTTCCCTTGAAACAAAGTTTTAGCTCTC
2903364 TTGAGACA
66 TTGAGACA
*
2903372 GTTTCTCTTGAAACA
1 GTTTCTCCTGAAACA
2903387 CCAATCTTTG
Statistics
Matches: 75, Mismatches: 12, Indels: 2
0.84 0.13 0.02
Matches are distributed among these distances:
73 72 0.96
74 3 0.04
ACGTcount: A:0.24, C:0.20, G:0.16, T:0.40
Consensus pattern (73 bp):
GTTTCTCCTGAAACAAATTTCGTCTCCCTCGAGACAGTTTCCCTTGAAACAAAGTTTTAGCTCTC
TTGAGACA
Found at i:2903366 original size:37 final size:37
Alignment explanation
Indices: 2903226--2903386 Score: 175
Period size: 37 Copynumber: 4.4 Consensus size: 37
2903216 CTTTGAATCT
* * * * * *
2903226 GTTTTCCTTGAAACAAA-TTTCGTTTCCCTCGAGATA
1 GTTTCCCTTGAAACAAAGTTTTGTCTCTCTTGAGACA
** * * *
2903262 GTTTCTTTTGGAACTAAGTTTTATCTCTCTTGAGACA
1 GTTTCCCTTGAAACAAAGTTTTGTCTCTCTTGAGACA
2903299 GTTTCTCC-TGAAACAAA-TTTTGTCTCTCTTGAGACA
1 GTTTC-CCTTGAAACAAAGTTTTGTCTCTCTTGAGACA
*
2903335 GTTTCCCTTGAAACAAAGTTTTGGCTCTCTTGAGACA
1 GTTTCCCTTGAAACAAAGTTTTGTCTCTCTTGAGACA
*
2903372 GTTTCTCTTGAAACA
1 GTTTCCCTTGAAACA
2903387 CCAATCTTTG
Statistics
Matches: 103, Mismatches: 18, Indels: 7
0.80 0.14 0.05
Matches are distributed among these distances:
35 2 0.02
36 44 0.43
37 57 0.55
ACGTcount: A:0.24, C:0.20, G:0.16, T:0.40
Consensus pattern (37 bp):
GTTTCCCTTGAAACAAAGTTTTGTCTCTCTTGAGACA
Found at i:2903496 original size:33 final size:34
Alignment explanation
Indices: 2903438--2903524 Score: 115
Period size: 33 Copynumber: 2.6 Consensus size: 34
2903428 CCTTGAGATA
* *
2903438 GTTTCTCTTAAAACACAAAAAAACCT-TTGAAATT
1 GTTTCTCTTGAAACA-AAAAAAACCTCTGGAAATT
*
2903472 GTTTCTCTTGATACAAAAAAAACCTCTGGAAATT
1 GTTTCTCTTGAAACAAAAAAAACCTCTGGAAATT
*
2903506 -TTTCTCTTGAAACATAAAA
1 GTTTCTCTTGAAACAAAAAA
2903525 CCTTCGAGTT
Statistics
Matches: 47, Mismatches: 5, Indels: 3
0.85 0.09 0.05
Matches are distributed among these distances:
33 27 0.57
34 20 0.43
ACGTcount: A:0.41, C:0.17, G:0.08, T:0.33
Consensus pattern (34 bp):
GTTTCTCTTGAAACAAAAAAAACCTCTGGAAATT
Found at i:2904233 original size:36 final size:36
Alignment explanation
Indices: 2904155--2904450 Score: 226
Period size: 36 Copynumber: 8.5 Consensus size: 36
2904145 ATTTATTATA
* * *
2904155 TATATATTATATAG-TTTGAAATCA-TTTTGAAAA-
1 TATATAATATATAGTTTTTAAAACATTTTTGAAAAT
** *
2904188 TATATAATATAGGGTTTTTAAAACA-TCTTGAAAACT
1 TATATAATATATAGTTTTTAAAACATTTTTGAAAA-T
* * * *
2904224 TATATAATATATAATTTTGAAATCA-TTTTGAATAT
1 TATATAATATATAGTTTTTAAAACATTTTTGAAAAT
*
2904259 ATATATATTATATAGTTTTTAAAAACATTTTTGAAAAAT
1 -TATATAATATATAGTTTTT-AAAACATTTTTG-AAAAT
* *
2904298 TATATAATATATAGTTTTAAAAACATTTTTTGAAAAC
1 TATATAATATATAGTTTTTAAAACA-TTTTTGAAAAT
* * *
2904335 T-TAT-ATA-ATA-TTTTTAAATCATTTTTTAAAAC
1 TATATAATATATAGTTTTTAAAACATTTTTGAAAAT
* * *
2904367 TATATAATATATAGTTTTGAAAGC-TTTTT-TAAA-
1 TATATAATATATAGTTTTTAAAACATTTTTGAAAAT
* *
2904400 -ATATAATATATAG-TTTAAAAATATTTTTG-AAAT
1 TATATAATATATAGTTTTTAAAACATTTTTGAAAAT
**
2904433 ATATATTTTATATAGTTT
1 -TATATAATATATAGTTT
2904451 ATATTATATT
Statistics
Matches: 213, Mismatches: 32, Indels: 33
0.77 0.12 0.12
Matches are distributed among these distances:
31 6 0.03
32 32 0.15
33 23 0.11
34 25 0.12
35 23 0.11
36 56 0.26
37 16 0.08
38 28 0.13
39 4 0.02
ACGTcount: A:0.43, C:0.04, G:0.06, T:0.47
Consensus pattern (36 bp):
TATATAATATATAGTTTTTAAAACATTTTTGAAAAT
Found at i:2904447 original size:67 final size:69
Alignment explanation
Indices: 2904215--2904450 Score: 200
Period size: 67 Copynumber: 3.4 Consensus size: 69
2904205 TTAAAACATC
* * *
2904215 TTGAAAACTTATATAATATATAATTTTGAAATCA--TTTTGAATATATATATATTATATAGTTTT
1 TTGAAAAC-TATATAATATATAGTTTTAAAAACATTTTTTGAA-A-ATATA-A-TATATAG--TT
*
2904278 TAAAAACATTT
59 TAAAAATATTT
* **
2904289 TTGAAAAATTATATAATATATAGTTTTAAAAACATTTTTTGAAAACT-T-ATATAATA-TTTTTA
1 TTG-AAAACTATATAATATATAGTTTTAAAAACATTTTTTGAAAA-TATAATAT-ATAGTTTAAA
2904351 AATCATTT
63 AAT-ATTT
* * *
2904359 TTTAAAACTATATAATATATAGTTTTGAAAGC-TTTTTT-AAAATATAATATATAGTTTAAAAAT
1 TTGAAAACTATATAATATATAGTTTTAAAAACATTTTTTGAAAATATAATATATAGTTTAAAAAT
2904422 ATTT
66 ATTT
**
2904426 TTGAAATA-TATATTTTATATAGTTT
1 TTGAAA-ACTATATAATATATAGTTT
2904451 ATATTATATT
Statistics
Matches: 136, Mismatches: 16, Indels: 27
0.76 0.09 0.15
Matches are distributed among these distances:
66 1 0.01
67 32 0.24
68 18 0.13
69 32 0.24
70 6 0.04
71 3 0.02
72 4 0.03
74 27 0.20
75 6 0.04
76 7 0.05
ACGTcount: A:0.43, C:0.03, G:0.06, T:0.48
Consensus pattern (69 bp):
TTGAAAACTATATAATATATAGTTTTAAAAACATTTTTTGAAAATATAATATATAGTTTAAAAAT
ATTT
Found at i:2904513 original size:14 final size:13
Alignment explanation
Indices: 2904457--2904515 Score: 50
Period size: 14 Copynumber: 4.3 Consensus size: 13
2904447 GTTTATATTA
*
2904457 TATTATTAATTAGTA
1 TATTATT-ATT-GTT
2904472 TATTATTATTG-T
1 TATTATTATTGTT
2904484 TATT-TTATTTGTTT
1 TATTATTA-TTG-TT
2904498 TATTAATTATTGTT
1 TATT-ATTATTGTT
2904512 TATT
1 TATT
2904516 TTTCTTTTTT
Statistics
Matches: 38, Mismatches: 1, Indels: 11
0.76 0.02 0.22
Matches are distributed among these distances:
11 3 0.08
12 7 0.18
13 1 0.03
14 14 0.37
15 10 0.26
16 3 0.08
ACGTcount: A:0.27, C:0.00, G:0.07, T:0.66
Consensus pattern (13 bp):
TATTATTATTGTT
Found at i:2905605 original size:15 final size:15
Alignment explanation
Indices: 2905565--2905598 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
2905555 CCTTTTCACT
*
2905565 TTTTTTATATATTCA
1 TTTTTTATTTATTCA
*
2905580 TTTTTTATTTATTTA
1 TTTTTTATTTATTCA
2905595 TTTT
1 TTTT
2905599 ATTTTTACTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.21, C:0.03, G:0.00, T:0.76
Consensus pattern (15 bp):
TTTTTTATTTATTCA
Found at i:2905716 original size:21 final size:20
Alignment explanation
Indices: 2905679--2905717 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
2905669 TTTTATTTAG
* *
2905679 TTTTTATTTTATTTTATTAT
1 TTTTTAATTTATCTTATTAT
2905699 TTTTTAATTTATCCTTATT
1 TTTTTAATTTAT-CTTATT
2905718 TTATTTATAT
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 11 0.69
21 5 0.31
ACGTcount: A:0.21, C:0.05, G:0.00, T:0.74
Consensus pattern (20 bp):
TTTTTAATTTATCTTATTAT
Found at i:2905723 original size:15 final size:15
Alignment explanation
Indices: 2905682--2905736 Score: 51
Period size: 15 Copynumber: 3.6 Consensus size: 15
2905672 TATTTAGTTT
*
2905682 TTATTTTATTTTATTA
1 TTATTTTA-TTTATCA
*
2905698 TT-TTTTAATTTATCC
1 TTATTTT-ATTTATCA
2905713 TTATTTTATTTAT-A
1 TTATTTTATTTATCA
2905727 TTCATTTTAT
1 TT-ATTTTAT
2905737 CTAATATATT
Statistics
Matches: 33, Mismatches: 3, Indels: 7
0.77 0.07 0.16
Matches are distributed among these distances:
14 2 0.06
15 24 0.73
16 7 0.21
ACGTcount: A:0.24, C:0.05, G:0.00, T:0.71
Consensus pattern (15 bp):
TTATTTTATTTATCA
Found at i:2913214 original size:17 final size:19
Alignment explanation
Indices: 2913173--2913225 Score: 63
Period size: 22 Copynumber: 2.7 Consensus size: 19
2913163 CCGCCTCAAT
2913173 TAATATTATATATATTATA
1 TAATATTATATATATTATA
*
2913192 TAATATTATAAATTATGTTATA
1 TAATATTAT--A-TATATTATA
2913214 TAATA-TATATAT
1 TAATATTATATAT
2913226 TTGCAATTAA
Statistics
Matches: 30, Mismatches: 1, Indels: 7
0.79 0.03 0.18
Matches are distributed among these distances:
18 3 0.10
19 10 0.33
21 4 0.13
22 13 0.43
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (19 bp):
TAATATTATATATATTATA
Found at i:2918442 original size:95 final size:95
Alignment explanation
Indices: 2918270--2918532 Score: 330
Period size: 95 Copynumber: 2.7 Consensus size: 95
2918260 GTATTATAAT
* * *
2918270 ATTATATATATACAATAAAGCTCAAGCTGTCCCTCTAAAGCAATTGGTTAAACGCCCCGGCTTTA
1 ATTATA-ATATACAATAAAGCTTAAGTTGTCCCTCTAGAGCAATTGGTTAAACGCCCCGGCTTTA
* *
2918335 TGGATAAGATTCAGCTAACCTGATAAAGGTG
65 TGGATAAAATTCAGCTAACCTGATAAAGGCG
* * *
2918366 ATTATAATATACAATAAAGCTTGAGTTATCCCTCTAGAGCAATTGGTTAAACGCCCCGACTTTAT
1 ATTATAATATACAATAAAGCTTAAGTTGTCCCTCTAGAGCAATTGGTTAAACGCCCCGGCTTTAT
* * *
2918431 GTATAAAATTCAGCTAGCTTGATAAAGGCG
66 GGATAAAATTCAGCTAACCTGATAAAGGCG
* ** * *
2918461 ATTATAATAT-CTATACATTGATATTAAGTTGTCCCTCTAGAGCAATTGGTTAAACACCCTGGCT
1 ATTATAATATACAATA-A---AGCTTAAGTTGTCCCTCTAGAGCAATTGGTTAAACGCCCCGGCT
2918525 TTATGGAT
62 TTATGGAT
2918533 TCAGCTAGCC
Statistics
Matches: 143, Mismatches: 20, Indels: 6
0.85 0.12 0.04
Matches are distributed among these distances:
94 4 0.03
95 89 0.62
96 6 0.04
98 44 0.31
ACGTcount: A:0.33, C:0.18, G:0.17, T:0.32
Consensus pattern (95 bp):
ATTATAATATACAATAAAGCTTAAGTTGTCCCTCTAGAGCAATTGGTTAAACGCCCCGGCTTTAT
GGATAAAATTCAGCTAACCTGATAAAGGCG
Found at i:2919911 original size:36 final size:37
Alignment explanation
Indices: 2919858--2919971 Score: 153
Period size: 36 Copynumber: 3.1 Consensus size: 37
2919848 TTTACTCGAA
2919858 ACAAAGTTTTGTCTCTCTTGAGACAGTTTCTCTTAAAG
1 ACAAA-TTTTGTCTCTCTTGAGACAGTTTCTCTTAAAG
* * *
2919896 A-AAATTTTGTCTCTCTTGTGATATTTTCTCTTAAA-
1 ACAAATTTTGTCTCTCTTGAGACAGTTTCTCTTAAAG
* *
2919931 ACAAATTTTGTCTCTCTTGAGACAGATTCCCTTAAAG
1 ACAAATTTTGTCTCTCTTGAGACAGTTTCTCTTAAAG
2919968 -CAAA
1 ACAAA
2919972 CTCTTTGAAT
Statistics
Matches: 66, Mismatches: 8, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
35 1 0.02
36 61 0.92
37 3 0.05
38 1 0.02
ACGTcount: A:0.29, C:0.18, G:0.12, T:0.40
Consensus pattern (37 bp):
ACAAATTTTGTCTCTCTTGAGACAGTTTCTCTTAAAG
Found at i:2920114 original size:137 final size:137
Alignment explanation
Indices: 2919855--2920256 Score: 434
Period size: 137 Copynumber: 2.9 Consensus size: 137
2919845 TAATTTACTC
* * ** * ** * *
2919855 GAAACAAAGTTTTGTCTCTCTTGAGACAGTTTCTC-TTAAAGAAAATTTTGTCTCTCTTGTGATA
1 GAAACAAA-TTTCGTCTCCCTCAAGACAGTTTCTCTTTAAA-TAAATTTTGGATCTCTTGAGACA
* * * * *
2919919 TTTTCTCTTAAAACAAATTTTGTCTCTCTTGAGACAGATTCCCTT-AAAGCAAACTCTTTGAATC
64 ATTTCTCTTGAAACAAATTTTGTCTCTCTTGAGACAGTTTCCCTTGAAA-CAAAATCTTTGAATA
2919983 TGTTTTCCTT
128 TGTTTTCCTT
** * * * *
2919993 GAAACAAATTTCGTCTCCCTTGAGACA-TTTCT-TTTGGAACTAAGTTTTGGCTCTCTTTAGACA
1 GAAACAAATTTCGTCTCCCTCAAGACAGTTTCTCTTT--AAATAAATTTTGGATCTCTTGAGACA
* * *
2920056 GTTTCTCTTGAAACACATTTTGTCTCTCTTGAGATAGTTTCCCTTGAAACAAAATCTTTGAATAT
64 ATTTCTCTTGAAACAAATTTTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAAATCTTTGAATAT
2920121 GTTTTCCTT
129 GTTTTCCTT
* * * *
2920130 TAAACAAATTTCGTCTCTCTCAAGACAGTTTCTCTTTAAATAAATTTTGTATCTCTTGAGATAAT
1 GAAACAAATTTCGTCTCCCTCAAGACAGTTTCTCTTTAAATAAATTTTGGATCTCTTGAGACAAT
* * * *
2920195 TTCCCTTGAAACAAAGTTTTGTCTCTCTTGAGACAGTTTCTCTTGAAGCACCAATCTTTGAA
66 TTCTCTTGAAACAAA-TTTTGTCTCTCTTGAGACAGTTTCCCTTGAAACA-AAATCTTTGAA
2920257 ATTGTTTCTC
Statistics
Matches: 223, Mismatches: 33, Indels: 15
0.82 0.12 0.06
Matches are distributed among these distances:
136 7 0.03
137 154 0.69
138 49 0.22
139 13 0.06
ACGTcount: A:0.27, C:0.19, G:0.13, T:0.41
Consensus pattern (137 bp):
GAAACAAATTTCGTCTCCCTCAAGACAGTTTCTCTTTAAATAAATTTTGGATCTCTTGAGACAAT
TTCTCTTGAAACAAATTTTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAAATCTTTGAATATGT
TTTCCTT
Found at i:2920175 original size:36 final size:36
Alignment explanation
Indices: 2920123--2920238 Score: 135
Period size: 36 Copynumber: 3.2 Consensus size: 36
2920113 TTGAATATGT
* **
2920123 TTTC-CTTTAAACAAATTTCGTCTCTCTCAAGACAG
1 TTTCTCTTTAAACAAATTTTGTCTCTCTTGAGACAG
* * * *
2920158 TTTCTCTTTAAATAAATTTTGTATCTCTTGAGATAA
1 TTTCTCTTTAAACAAATTTTGTCTCTCTTGAGACAG
* *
2920194 TTTCCCTTGAAACAAAGTTTTGTCTCTCTTGAGACAG
1 TTTCTCTTTAAACAAA-TTTTGTCTCTCTTGAGACAG
2920231 TTTCTCTT
1 TTTCTCTT
2920239 GAAGCACCAA
Statistics
Matches: 65, Mismatches: 14, Indels: 2
0.80 0.17 0.02
Matches are distributed among these distances:
35 4 0.06
36 37 0.57
37 24 0.37
ACGTcount: A:0.26, C:0.20, G:0.10, T:0.44
Consensus pattern (36 bp):
TTTCTCTTTAAACAAATTTTGTCTCTCTTGAGACAG
Found at i:2920315 original size:35 final size:34
Alignment explanation
Indices: 2920250--2920408 Score: 148
Period size: 33 Copynumber: 4.7 Consensus size: 34
2920240 AAGCACCAAT
** * *
2920250 CTTTGAAATTGTTTCTCTT-TAAACACAAAAAAC
1 CTTTGAAACAGTTTCTCTTGAAAACAAAAAAAAC
* *
2920283 CTTTGAAACAATTTTTCTTGAAAGACAAAAAAAATC
1 CTTTGAAACAGTTTCTCTTGAAA-ACAAAAAAAA-C
* *
2920319 CTTT-AGACAGTTTCTCTTG-AAACACAAAAAAC
1 CTTTGAAACAGTTTCTCTTGAAAACAAAAAAAAC
**
2920351 CTTTGAAATTGTTTCTCTT-AAAACACAAAAAAACC
1 CTTTGAAACAGTTTCTCTTGAAAACA-AAAAAAA-C
2920386 CTTTGAAA-ATGTTTCTCTTGAAA
1 CTTTGAAACA-GTTTCTCTTGAAA
2920409 CACCAAACCT
Statistics
Matches: 102, Mismatches: 15, Indels: 15
0.77 0.11 0.11
Matches are distributed among these distances:
32 5 0.05
33 40 0.39
34 10 0.10
35 39 0.38
36 8 0.08
ACGTcount: A:0.41, C:0.18, G:0.08, T:0.33
Consensus pattern (34 bp):
CTTTGAAACAGTTTCTCTTGAAAACAAAAAAAAC
Found at i:2920379 original size:68 final size:68
Alignment explanation
Indices: 2920250--2920411 Score: 204
Period size: 68 Copynumber: 2.4 Consensus size: 68
2920240 AAGCACCAAT
* * *
2920250 CTTTGAAATTGTTTCTCTTTAAACACAAAAAACCTTTGAAACAATTTTTCTTGAAAGACA-AAAA
1 CTTTGAAAATGTTTCTCTTGAAACACAAAAAACCTTTGAAACAATTTCTCTT-AAA-ACACAAAA
*
2920314 AAATC
64 AAACC
* ***
2920319 CTTT-AGACA-GTTTCTCTTGAAACACAAAAAACCTTTGAAATTGTTTCTCTTAAAACACAAAAA
1 CTTTGA-AAATGTTTCTCTTGAAACACAAAAAACCTTTGAAACAATTTCTCTTAAAACACAAAAA
2920382 AACC
65 AACC
2920386 CTTTGAAAATGTTTCTCTTGAAACAC
1 CTTTGAAAATGTTTCTCTTGAAACAC
2920412 CAAACCTTCG
Statistics
Matches: 80, Mismatches: 9, Indels: 9
0.82 0.09 0.09
Matches are distributed among these distances:
66 3 0.04
67 17 0.21
68 55 0.69
69 5 0.06
ACGTcount: A:0.41, C:0.19, G:0.08, T:0.33
Consensus pattern (68 bp):
CTTTGAAAATGTTTCTCTTGAAACACAAAAAACCTTTGAAACAATTTCTCTTAAAACACAAAAAA
ACC
Found at i:2920410 original size:35 final size:33
Alignment explanation
Indices: 2920250--2920411 Score: 170
Period size: 35 Copynumber: 4.8 Consensus size: 33
2920240 AAGCACCAAT
* *
2920250 CTTTGAAATTGTTTCTCTTTAAACACAAAAAAC
1 CTTTGAAAATGTTTCTCTTGAAACACAAAAAAC
*
2920283 CTTTGAAACAAT-TTT-TCTTGAAAGACAAAAAAAATC
1 CTTTG-AA-AATGTTTCTCTTG-AA-ACACAAAAAA-C
*
2920319 CTTT-AGACA-GTTTCTCTTGAAACACAAAAAAC
1 CTTTGA-AAATGTTTCTCTTGAAACACAAAAAAC
* *
2920351 CTTTGAAATTGTTTCTCTTAAAACACAAAAAAACC
1 CTTTGAAAATGTTTCTCTTGAAACAC-AAAAAA-C
2920386 CTTTGAAAATGTTTCTCTTGAAACAC
1 CTTTGAAAATGTTTCTCTTGAAACAC
2920412 CAAACCTTCG
Statistics
Matches: 107, Mismatches: 10, Indels: 22
0.77 0.07 0.16
Matches are distributed among these distances:
32 6 0.06
33 34 0.32
34 20 0.19
35 42 0.39
36 5 0.05
ACGTcount: A:0.41, C:0.19, G:0.08, T:0.33
Consensus pattern (33 bp):
CTTTGAAAATGTTTCTCTTGAAACACAAAAAAC
Found at i:2920961 original size:17 final size:19
Alignment explanation
Indices: 2920920--2920970 Score: 61
Period size: 17 Copynumber: 2.8 Consensus size: 19
2920910 CCGCCTCAAT
2920920 TAATATTATATATATTATA
1 TAATATTATATATATTATA
*
2920939 TAATATTATA-A-ATTATG
1 TAATATTATATATATTATA
* *
2920956 TTATATGATATATAT
1 TAATATTATATATAT
2920971 ATTTACAATT
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
17 13 0.48
18 2 0.07
19 12 0.44
ACGTcount: A:0.45, C:0.00, G:0.04, T:0.51
Consensus pattern (19 bp):
TAATATTATATATATTATA
Found at i:2926666 original size:30 final size:30
Alignment explanation
Indices: 2926627--2926751 Score: 96
Period size: 30 Copynumber: 4.2 Consensus size: 30
2926617 CAAAAGGAGG
2926627 AAAACAGAAAGCTAAAGGACCAAAATAGTA
1 AAAACAGAAAGCTAAAGGACCAAAATAGTA
* *
2926657 AAAATAGAAA-CTTAAAGGA-CTAAATAGTA
1 AAAACAGAAAGC-TAAAGGACCAAAATAGTA
* * * * * *
2926686 CAAACAAAAAGTTAAGGGACTAAAATAATA
1 AAAACAGAAAGCTAAAGGACCAAAATAGTA
* * *
2926716 AAAGC-GAAAGCTTCAGGGACCAAAA-ATGTA
1 AAAACAGAAAGC-TAAAGGACCAAAATA-GTA
2926746 AAAACA
1 AAAACA
2926752 AAATCTTGGG
Statistics
Matches: 71, Mismatches: 18, Indels: 11
0.71 0.18 0.11
Matches are distributed among these distances:
29 28 0.39
30 43 0.61
ACGTcount: A:0.58, C:0.12, G:0.16, T:0.14
Consensus pattern (30 bp):
AAAACAGAAAGCTAAAGGACCAAAATAGTA
Found at i:2928820 original size:134 final size:134
Alignment explanation
Indices: 2928586--2928933 Score: 437
Period size: 134 Copynumber: 2.6 Consensus size: 134
2928576 ATGAAGAGGT
* * * * * **
2928586 CTGGTCATCTA-AGGGTGACACGGTTCCTACATGATGAAGAAATCTGGTCGAGGGATGACATTGC
1 CTGGTTATCTAGA-GGTGACACGGCTCCTACATGATGAGGAGATCTGGTCGGGGGATGACACGGC
* * *
2928650 TCATACGTGATGAAGAGTTCAGGTCATCTTTAGGAAGGGTGATAACTCGGTTCCTACGCGATGAG
65 TCATACGTGATGAAGAGTTCAGGTCATCTTTAGGAAGAGTGATAACTCGATTCCTACACGATGAG
2928715 GACGG
130 GACGG
**
2928720 CTGGTTATCTAGAGGTGACACGGCTCCTACGCGATGAGGAGATCTGGTCGGGGGATGACACGGCT
1 CTGGTTATCTAGAGGTGACACGGCTCCTACATGATGAGGAGATCTGGTCGGGGGATGACACGGCT
* * * *
2928785 CATACGTGATGAAGTGTTCTGGTCATCTTTTGGAAGAGTGATAACTTGATTCCTACACGATGAGG
66 CATACGTGATGAAGAGTTCAGGTCATCTTTAGGAAGAGTGATAACTCGATTCCTACACGATGAGG
2928850 ACGG
131 ACGG
* * * * * * ** * *
2928854 TTGGTTATCTAGGGGTGACACGACTCATACATGATGAGGAGGTATGGTTAGGGAATGACACGGTT
1 CTGGTTATCTAGAGGTGACACGGCTCCTACATGATGAGGAGATCTGGTCGGGGGATGACACGGCT
*
2928919 CCTACGTGATGAAGA
66 CATACGTGATGAAGA
2928934 CGACTGGCCA
Statistics
Matches: 183, Mismatches: 30, Indels: 2
0.85 0.14 0.01
Matches are distributed among these distances:
134 182 0.99
135 1 0.01
ACGTcount: A:0.25, C:0.17, G:0.32, T:0.26
Consensus pattern (134 bp):
CTGGTTATCTAGAGGTGACACGGCTCCTACATGATGAGGAGATCTGGTCGGGGGATGACACGGCT
CATACGTGATGAAGAGTTCAGGTCATCTTTAGGAAGAGTGATAACTCGATTCCTACACGATGAGG
ACGG
Found at i:2929195 original size:32 final size:33
Alignment explanation
Indices: 2929148--2929280 Score: 117
Period size: 38 Copynumber: 3.8 Consensus size: 33
2929138 CAAAGATCGG
*
2929148 TGTTTCGAGAGAAACAAACTCAAAGATGT-TTT
1 TGTTTCAAGAGAAACAAACTCAAAGATGTATTT
* * * *
2929180 TGTTTCAAGAAAAACATACTCAAAGATTTTTTTTGTTT
1 TGTTTCAAGAGAAACAAACTCAAAGA-----TGTATTT
*
2929218 TGTTTCAAGGGAAACAAACTCAAAGATGGTAAATTT
1 TGTTTCAAGAGAAACAAACTCAAAGAT-GT--ATTT
2929254 TGTTTCCAA-AGAAACAAACTCAAAGAT
1 TGTTT-CAAGAGAAACAAACTCAAAGAT
2929281 TTTTCTTAAA
Statistics
Matches: 81, Mismatches: 10, Indels: 16
0.76 0.09 0.15
Matches are distributed among these distances:
32 23 0.28
33 1 0.01
34 1 0.01
36 25 0.31
37 5 0.06
38 26 0.32
ACGTcount: A:0.40, C:0.13, G:0.15, T:0.32
Consensus pattern (33 bp):
TGTTTCAAGAGAAACAAACTCAAAGATGTATTT
Found at i:2929235 original size:70 final size:72
Alignment explanation
Indices: 2929148--2929284 Score: 190
Period size: 74 Copynumber: 1.9 Consensus size: 72
2929138 CAAAGATCGG
* *
2929148 TGTTTCGAGAGAAACAAACTCAAAGAT-GT-TTTTGTTT-CAAGAAAAACATACTCAAAGATTTT
1 TGTTTCAAGAGAAACAAACTCAAAGATGGTATTTTGTTTCCAA-AAAAACAAACTCAAAGATTTT
2929210 TTTTGTTT
65 TTTTGTTT
* *
2929218 TGTTTCAAGGGAAACAAACTCAAAGATGGTAAATTTTGTTTCCAAAGAAACAAACTCAAAGATTT
1 TGTTTCAAGAGAAACAAACTCAAAGATGGT--ATTTTGTTTCCAAAAAAACAAACTCAAAGATTT
2929283 TT
64 TT
2929285 CTTAAAAGAA
Statistics
Matches: 58, Mismatches: 4, Indels: 6
0.85 0.06 0.09
Matches are distributed among these distances:
70 25 0.43
71 2 0.03
74 28 0.48
75 3 0.05
ACGTcount: A:0.39, C:0.12, G:0.15, T:0.34
Consensus pattern (72 bp):
TGTTTCAAGAGAAACAAACTCAAAGATGGTATTTTGTTTCCAAAAAAACAAACTCAAAGATTTTT
TTTGTTT
Found at i:2929318 original size:65 final size:63
Alignment explanation
Indices: 2929248--2929386 Score: 179
Period size: 65 Copynumber: 2.2 Consensus size: 63
2929238 CAAAGATGGT
* *
2929248 AAATTTTGTTTCCAAAGAAACAAACTCAAAGATTTTTCTTAAAAGAAACTGTCTTAAAAGAGACA
1 AAATTTTGTTTCCAAAAAAACAAACTCAAAGATTTTTC--AAAAGAAACTGTCTCAAAAGAGACA
* * * * * *
2929313 AAATTTTGTTTCCAAAAAAATATATTCAATGATTTTTCAAAAGAAATTGTCTCAAGAGAGACA
1 AAATTTTGTTTCCAAAAAAACAAACTCAAAGATTTTTCAAAAGAAACTGTCTCAAAAGAGACA
*
2929376 AAACTTTGTTT
1 AAATTTTGTTT
2929387 TTCAGAAAAT
Statistics
Matches: 65, Mismatches: 9, Indels: 2
0.86 0.12 0.03
Matches are distributed among these distances:
63 32 0.49
65 33 0.51
ACGTcount: A:0.44, C:0.12, G:0.11, T:0.33
Consensus pattern (63 bp):
AAATTTTGTTTCCAAAAAAACAAACTCAAAGATTTTTCAAAAGAAACTGTCTCAAAAGAGACA
Found at i:2929396 original size:63 final size:64
Alignment explanation
Indices: 2929252--2929386 Score: 173
Period size: 63 Copynumber: 2.1 Consensus size: 64
2929242 GATGGTAAAT
* * * * * *
2929252 TTTGTTTCCAAAGAAACAAACTCAAAGATTTTTCTTAAAAGAAACTGTCTTAAAAGAGACAAAAT
1 TTTGTTTCCAAAAAAATATATTCAAAGATTTTTC-TAAAAGAAACTGTCTCAAAAGAGACAAAAC
* * *
2929317 TTTGTTTCCAAAAAAATATATTCAATGATTTTTC-AAAAGAAATTGTCTCAAGAGAGACAAAAC
1 TTTGTTTCCAAAAAAATATATTCAAAGATTTTTCTAAAAGAAACTGTCTCAAAAGAGACAAAAC
2929380 TTTGTTT
1 TTTGTTT
2929387 TTCAGAAAAT
Statistics
Matches: 61, Mismatches: 9, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
63 32 0.52
65 29 0.48
ACGTcount: A:0.43, C:0.13, G:0.11, T:0.33
Consensus pattern (64 bp):
TTTGTTTCCAAAAAAATATATTCAAAGATTTTTCTAAAAGAAACTGTCTCAAAAGAGACAAAAC
Found at i:2929591 original size:65 final size:66
Alignment explanation
Indices: 2929483--2929643 Score: 164
Period size: 65 Copynumber: 2.4 Consensus size: 66
2929473 GGATAAAACC
* * * * * * **
2929483 TTGTTTCCAGAGAAACTAACTCAAAGATGATCTTGTTTTAAGAGAAAATGTCTCAA-GAGTCAAA
1 TTGTTTCAATAGAAAC-GACTCAAAGATGATCTTATTTCAAGAGAAAATGCCTCAAGGAAACAAA
2929547 AT
65 AT
* * *
2929549 TTGTTTCAA-AGGAAACGACTCAAAGATGGTTTTATTTCAAGAGAAACTGCCTCAAGGGAAACAA
1 TTGTTTCAATA-GAAACGACTCAAAGATGATCTTATTTCAAGAGAAAATGCCTCAA-GGAAACAA
2929613 AAT
64 AAT
*
2929616 TTGTTTTAATAGAAACGATCTCAAAGAT
1 TTGTTTCAATAGAAACGA-CTCAAAGAT
2929644 AGGTGTTTCA
Statistics
Matches: 79, Mismatches: 11, Indels: 8
0.81 0.11 0.08
Matches are distributed among these distances:
65 33 0.42
66 13 0.16
67 23 0.29
68 10 0.13
ACGTcount: A:0.40, C:0.14, G:0.17, T:0.29
Consensus pattern (66 bp):
TTGTTTCAATAGAAACGACTCAAAGATGATCTTATTTCAAGAGAAAATGCCTCAAGGAAACAAAA
T
Found at i:2929973 original size:32 final size:31
Alignment explanation
Indices: 2929894--2929952 Score: 84
Period size: 31 Copynumber: 1.9 Consensus size: 31
2929884 TTTTTTTCAT
*
2929894 TTTGATTCAAGTGAAACAGACTCAAAGATCC
1 TTTGTTTCAAGTGAAACAGACTCAAAGATCC
**
2929925 TTTGTTTCAAAAGAAAC-GACTCAAAGAT
1 TTTGTTTCAAGTGAAACAGACTCAAAGAT
2929953 GATGTTTGTT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
30 11 0.44
31 14 0.56
ACGTcount: A:0.41, C:0.17, G:0.15, T:0.27
Consensus pattern (31 bp):
TTTGTTTCAAGTGAAACAGACTCAAAGATCC
Found at i:2930030 original size:36 final size:36
Alignment explanation
Indices: 2929990--2930127 Score: 156
Period size: 36 Copynumber: 3.8 Consensus size: 36
2929980 ATAATTTGGA
* *
2929990 AAATTGCCTCAAGTGAGACAACATTTGTTTTTAGAG
1 AAATTGTCTCAAGCGAGACAACATTTGTTTTTAGAG
* * *
2930026 AAATTGTCTCAAACGAGACAAAAATTGTTTTTAGAG
1 AAATTGTCTCAAGCGAGACAACATTTGTTTTTAGAG
2930062 AAATTGTCTCAAGCGAGACAA-AGTTTGTTTTT-GAG
1 AAATTGTCTCAAGCGAGACAACA-TTTGTTTTTAGAG
** *
2930097 AAAACGATCTCAAGTGAGATCAAC-TTTGTTT
1 AAATTG-TCTCAAGCGAGA-CAACATTTGTTT
2930128 AATGTGAAAC
Statistics
Matches: 88, Mismatches: 10, Indels: 8
0.83 0.09 0.08
Matches are distributed among these distances:
35 8 0.09
36 77 0.88
37 3 0.03
ACGTcount: A:0.36, C:0.13, G:0.19, T:0.33
Consensus pattern (36 bp):
AAATTGTCTCAAGCGAGACAACATTTGTTTTTAGAG
Found at i:2930250 original size:107 final size:106
Alignment explanation
Indices: 2930106--2930380 Score: 437
Period size: 106 Copynumber: 2.6 Consensus size: 106
2930096 GAAAACGATC
* * * *
2930106 TCAAGTGAGATCAA-CTTTGTTT-AATGTGAAACAAATTCGAAATTTGTATTCTCAAAGGAAAAA
1 TCAAGTGAGATTAATTTTTGTTTCAA-GTGAATCAAATTCGAAATTTGTA-TATCAAAGGAAAAA
2930169 TGTCTCAAACGAGACGAAATTCGTTTTGAAAGAAATAACAATA
64 TGTCTCAAACGAGACGAAATTCGTTTTGAAAGAAATAACAATA
* *
2930212 TCAAGTGAGATTAATTTTTGTTTCAAGTGAATCAAATTCGAAATTTGTATATCAGAGAAAAAATG
1 TCAAGTGAGATTAATTTTTGTTTCAAGTGAATCAAATTCGAAATTTGTATATCAAAGGAAAAATG
* * *
2930277 TCTCAAACGAGACGAAATTTGTTTTGAAATAAATAACAATC
66 TCTCAAACGAGACGAAATTCGTTTTGAAAGAAATAACAATA
2930318 TCAAGTGAGATTAATTTTTGTTTCAAGTGAATCAAATTCGAAATTTGTATATCAAAGGAAAAA
1 TCAAGTGAGATTAATTTTTGTTTCAAGTGAATCAAATTCGAAATTTGTATATCAAAGGAAAAA
2930381 AATGTATCAA
Statistics
Matches: 156, Mismatches: 11, Indels: 4
0.91 0.06 0.02
Matches are distributed among these distances:
106 125 0.80
107 29 0.19
108 2 0.01
ACGTcount: A:0.42, C:0.11, G:0.16, T:0.32
Consensus pattern (106 bp):
TCAAGTGAGATTAATTTTTGTTTCAAGTGAATCAAATTCGAAATTTGTATATCAAAGGAAAAATG
TCTCAAACGAGACGAAATTCGTTTTGAAAGAAATAACAATA
Found at i:2930440 original size:106 final size:104
Alignment explanation
Indices: 2930121--2930440 Score: 324
Period size: 106 Copynumber: 3.0 Consensus size: 104
2930111 TGAGATCAAC
* * * * *
2930121 TTTGTTT-AATGTGAAACAAATTCGAAATTTGTATTCTCAAAGGAAAAATGTCTCAAACGAGACG
1 TTTGTTTCAA-GTGAATCAAATTCGAAATTTGTA-TATCAAAGAAAAAATGTATCAAACAAGACG
* * * **
2930185 AAATTCGTTTTGAAAGAAATAACAATATCAAGTGAGATTAATT
64 AAATTTGTTTTGAAAGAAAT-A-AATCTCAAATGAGAAAAATT
* * *
2930228 TTTGTTTCAAGTGAATCAAATTCGAAATTTGTATATCAGAGAAAAAATGTCTCAAACGAGACGAA
1 TTTGTTTCAAGTGAATCAAATTCGAAATTTGTATATCAAAGAAAAAATGTATCAAACAAGACGAA
* * **
2930293 ATTTGTTTTGAAATAAATAACAATCTCAAGTGAGATTAATT
66 ATTTGTTTTGAAAGAAAT-A-AATCTCAAATGAGAAAAATT
*
2930334 TTTGTTTCAAGTGAATCAAATTCGAAATTTGTATATCAAAGGAAAAAAATGTATCAAGCAAGAC-
1 TTTGTTTCAAGTGAATCAAATTCGAAATTTGTATATCAAA-G-AAAAAATGTATCAAACAAGACG
** *
2930398 AAAGTTTGTTTT-AAGAGAAAT-TGTCTTAAATGAGACAAAATT
64 AAA-TTTGTTTTGAA-AGAAATAAATCTCAAATGAGA-AAAATT
2930440 T
1 T
2930441 GTTTTAAAAG
Statistics
Matches: 189, Mismatches: 18, Indels: 13
0.86 0.08 0.06
Matches are distributed among these distances:
105 10 0.05
106 111 0.59
107 35 0.19
108 33 0.17
ACGTcount: A:0.42, C:0.10, G:0.16, T:0.33
Consensus pattern (104 bp):
TTTGTTTCAAGTGAATCAAATTCGAAATTTGTATATCAAAGAAAAAATGTATCAAACAAGACGAA
ATTTGTTTTGAAAGAAATAAATCTCAAATGAGAAAAATT
Found at i:2930513 original size:35 final size:36
Alignment explanation
Indices: 2930464--2930568 Score: 151
Period size: 35 Copynumber: 2.9 Consensus size: 36
2930454 CAAAATTTAT
* *
2930464 GAGAAA-TGTCTCAAGCGAGACAAAATTTATTTTTA
1 GAGAAACTGTCTCAAGCGAGACAAAATTTGTTTTGA
*
2930499 GA-AAACTGTTTCAAGCGAGACAAAATTTGTTTTGA
1 GAGAAACTGTCTCAAGCGAGACAAAATTTGTTTTGA
*
2930534 GAGAAATTGTCTCAAGCGAGACAAAAATTTGTTTT
1 GAGAAACTGTCTCAAGCGAGAC-AAAATTTGTTTT
2930569 AAAATTCTCA
Statistics
Matches: 62, Mismatches: 5, Indels: 4
0.87 0.07 0.06
Matches are distributed among these distances:
34 3 0.05
35 30 0.48
36 17 0.27
37 12 0.19
ACGTcount: A:0.38, C:0.11, G:0.19, T:0.31
Consensus pattern (36 bp):
GAGAAACTGTCTCAAGCGAGACAAAATTTGTTTTGA
Found at i:2930539 original size:122 final size:125
Alignment explanation
Indices: 2930378--2930629 Score: 357
Period size: 122 Copynumber: 2.0 Consensus size: 125
2930368 ATCAAAGGAA
* * *
2930378 AAAAATGTATCAAGCAAGACAAAGTTTGTTTTAAGAGAAATTGTCTTAAATGAGAC-AAAATTTG
1 AAAAATGTATCAAGCAAGACAAAATTTGTTTTAAGAGAAATTGTCTCAAACGAGACAAAAATTTG
* *
2930442 TTTTAAAAGTCTCAAAATTTAT-GAGAAATGTCTCAAGCGAGACAAAA-TTTATTTTTAG
66 TTTTAAAAGTCTCAAAATTTATGGAAAAATGTCTCAAGCAAGACAAAATTTTATTTTTAG
* * * * *
2930500 AAAACTGTTTCAAGCGAGACAAAATTTGTTTTGAGAGAAATTGTCTCAAGCGAGACAAAAATTTG
1 AAAAATGTATCAAGCAAGACAAAATTTGTTTTAAGAGAAATTGTCTCAAACGAGACAAAAATTTG
* * **
2930565 TTTTAAAATTCTCAAAATTTGTGGAAAAATGTCTCAAGCAAGACAAAATTTTATTTCAAG
66 TTTTAAAAGTCTCAAAATTTATGGAAAAATGTCTCAAGCAAGACAAAATTTTATTTTTAG
2930625 AAAAA
1 AAAAA
2930630 CACCCTCCAA
Statistics
Matches: 112, Mismatches: 15, Indels: 3
0.86 0.12 0.02
Matches are distributed among these distances:
122 48 0.43
123 28 0.25
124 23 0.21
125 13 0.12
ACGTcount: A:0.43, C:0.10, G:0.15, T:0.31
Consensus pattern (125 bp):
AAAAATGTATCAAGCAAGACAAAATTTGTTTTAAGAGAAATTGTCTCAAACGAGACAAAAATTTG
TTTTAAAAGTCTCAAAATTTATGGAAAAATGTCTCAAGCAAGACAAAATTTTATTTTTAG
Found at i:2932150 original size:34 final size:35
Alignment explanation
Indices: 2932105--2932218 Score: 107
Period size: 34 Copynumber: 3.4 Consensus size: 35
2932095 AGTCAACGGA
2932105 CTCTTTGTCTTTGTG-T-TTTTGTC-TT-ATTTTTCTT
1 CTCTTTGTCTTT-TGCTATTTT-TCTTTGATTTTTC-T
*
2932139 CTCTTTTTCTTTTGCTATTTTTCTTTGATTTTTCT
1 CTCTTTGTCTTTTGCTATTTTTCTTTGATTTTTCT
* * *
2932174 CTCTTTGTTTTTTTC-ATTTTCCTTTGATTTTT-T
1 CTCTTTGTCTTTTGCTATTTTTCTTTGATTTTTCT
*
2932207 -TCTTTGTTTTTT
1 CTCTTTGTCTTTT
2932219 TCTTTGCTCT
Statistics
Matches: 71, Mismatches: 5, Indels: 10
0.83 0.06 0.12
Matches are distributed among these distances:
32 12 0.17
33 3 0.04
34 30 0.42
35 19 0.27
36 7 0.10
ACGTcount: A:0.04, C:0.15, G:0.08, T:0.73
Consensus pattern (35 bp):
CTCTTTGTCTTTTGCTATTTTTCTTTGATTTTTCT
Found at i:2932216 original size:12 final size:13
Alignment explanation
Indices: 2932190--2932224 Score: 54
Period size: 12 Copynumber: 2.8 Consensus size: 13
2932180 GTTTTTTTCA
*
2932190 TTTTCCTTTGATT
1 TTTTTCTTTGATT
2932203 TTTTTCTTTG-TT
1 TTTTTCTTTGATT
2932215 TTTTTCTTTG
1 TTTTTCTTTG
2932225 CTCTTCTGTG
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
12 12 0.57
13 9 0.43
ACGTcount: A:0.03, C:0.11, G:0.09, T:0.77
Consensus pattern (13 bp):
TTTTTCTTTGATT
Found at i:2932287 original size:24 final size:23
Alignment explanation
Indices: 2932239--2932293 Score: 60
Period size: 22 Copynumber: 2.4 Consensus size: 23
2932229 TCTGTGTTCT
*
2932239 TTTTCTCTTTTTTTCTTTGCTTC
1 TTTTCTCTTTTTTTCCTTGCTTC
*
2932262 TTTTCTGTTTGTTTTCCTTG--TC
1 TTTTCTCTTT-TTTTCCTTGCTTC
*
2932284 TCTTCTCTTT
1 TTTTCTCTTT
2932294 GATTTGATCT
Statistics
Matches: 27, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
22 10 0.37
23 9 0.33
24 8 0.30
ACGTcount: A:0.00, C:0.22, G:0.07, T:0.71
Consensus pattern (23 bp):
TTTTCTCTTTTTTTCCTTGCTTC
Found at i:2933222 original size:13 final size:13
Alignment explanation
Indices: 2933204--2933236 Score: 66
Period size: 13 Copynumber: 2.5 Consensus size: 13
2933194 AATCTTTATG
2933204 GATGCAAATGGCA
1 GATGCAAATGGCA
2933217 GATGCAAATGGCA
1 GATGCAAATGGCA
2933230 GATGCAA
1 GATGCAA
2933237 TGCCCCCATA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.39, C:0.15, G:0.30, T:0.15
Consensus pattern (13 bp):
GATGCAAATGGCA
Found at i:2936189 original size:30 final size:29
Alignment explanation
Indices: 2936155--2936282 Score: 82
Period size: 30 Copynumber: 4.3 Consensus size: 29
2936145 CAAAAGGAGG
2936155 AAAACAGAAAGCTAAAGGACCAAAATAGTA
1 AAAACA-AAAGCTAAAGGACCAAAATAGTA
* *
2936185 AAAACAAAAACTTAAAGGA-CTAAATAGTA
1 AAAACAAAAGC-TAAAGGACCAAAATAGTA
* * * *
2936214 CAAATA-AAAAGTTAAGGGACTAAAATAATA
1 -AAA-ACAAAAGCTAAAGGACCAAAATAGTA
* ** * *
2936244 AAAGCGGAAGCTTCAGGGACCAAAA-ATGTA
1 AAAACAAAAGC-TAAAGGACCAAAATA-GTA
2936274 AAAACAAAA
1 AAAACAAAA
2936283 TCTTGGGGAC
Statistics
Matches: 73, Mismatches: 18, Indels: 14
0.70 0.17 0.13
Matches are distributed among these distances:
29 26 0.36
30 46 0.63
31 1 0.01
ACGTcount: A:0.59, C:0.12, G:0.16, T:0.14
Consensus pattern (29 bp):
AAAACAAAAGCTAAAGGACCAAAATAGTA
Found at i:2936210 original size:29 final size:29
Alignment explanation
Indices: 2936167--2936246 Score: 88
Period size: 29 Copynumber: 2.7 Consensus size: 29
2936157 AACAGAAAGC
*
2936167 TAAAGGACCAAAATAGTAAAAACAAAAACT
1 TAAAGGA-CTAAATAGTAAAAACAAAAACT
* * *
2936197 TAAAGGACTAAATAGTACAAATAAAAAGT
1 TAAAGGACTAAATAGTAAAAACAAAAACT
* *
2936226 TAAGGGACTAAAATAATAAAA
1 TAAAGGACT-AAATAGTAAAA
2936247 GCGGAAGCTT
Statistics
Matches: 42, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
29 26 0.62
30 16 0.38
ACGTcount: A:0.61, C:0.09, G:0.12, T:0.17
Consensus pattern (29 bp):
TAAAGGACTAAATAGTAAAAACAAAAACT
Found at i:2947052 original size:21 final size:21
Alignment explanation
Indices: 2947023--2947124 Score: 102
Period size: 21 Copynumber: 4.8 Consensus size: 21
2947013 AGTCGAGGGT
* *
2947023 TTATTTGGTCCTTCGAGACAA
1 TTATGTGGTCCTTCGGGACAA
*
2947044 TTATGTGGTCCTTCGGGATAA
1 TTATGTGGTCCTTCGGGACAA
*
2947065 ATATGTGG-CACTTCGGTG-CAAA
1 TTATGTGGTC-CTTCGG-GAC-AA
2947087 TCTATGTGGTCCTTCGGGACAA
1 T-TATGTGGTCCTTCGGGACAA
2947109 TTATGTGG-CACTTCGG
1 TTATGTGGTC-CTTCGG
2947125 TGCAAATTAC
Statistics
Matches: 68, Mismatches: 6, Indels: 14
0.77 0.07 0.16
Matches are distributed among these distances:
20 2 0.03
21 44 0.65
22 7 0.10
23 14 0.21
24 1 0.01
ACGTcount: A:0.21, C:0.19, G:0.26, T:0.34
Consensus pattern (21 bp):
TTATGTGGTCCTTCGGGACAA
Found at i:2947095 original size:44 final size:44
Alignment explanation
Indices: 2947045--2947131 Score: 156
Period size: 44 Copynumber: 2.0 Consensus size: 44
2947035 TCGAGACAAT
*
2947045 TATGTGGTCCTTCGGGATAAATATGTGGCACTTCGGTGCAAATC
1 TATGTGGTCCTTCGGGACAAATATGTGGCACTTCGGTGCAAATC
*
2947089 TATGTGGTCCTTCGGGACAATTATGTGGCACTTCGGTGCAAAT
1 TATGTGGTCCTTCGGGACAAATATGTGGCACTTCGGTGCAAAT
2947132 TACGAGCTGT
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
44 41 1.00
ACGTcount: A:0.22, C:0.18, G:0.28, T:0.32
Consensus pattern (44 bp):
TATGTGGTCCTTCGGGACAAATATGTGGCACTTCGGTGCAAATC
Found at i:2948113 original size:2 final size:2
Alignment explanation
Indices: 2948106--2948172 Score: 134
Period size: 2 Copynumber: 33.5 Consensus size: 2
2948096 TCTATGATCA
2948106 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
2948148 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
2948173 GAAAGCCACT
Statistics
Matches: 65, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 65 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:2950937 original size:2 final size:2
Alignment explanation
Indices: 2950930--2950978 Score: 98
Period size: 2 Copynumber: 24.5 Consensus size: 2
2950920 ATCTCCTATT
2950930 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
2950972 TA TA TA T
1 TA TA TA T
2950979 TCGACCCTCA
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 47 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:2951836 original size:28 final size:29
Alignment explanation
Indices: 2951773--2951836 Score: 69
Period size: 28 Copynumber: 2.2 Consensus size: 29
2951763 ACCCACGATT
* *
2951773 TATTTAATTCTTTTAGTGATTTATTTTAA
1 TATTTAATACTTTTAGTGATTAATTTTAA
* *
2951802 TTTTTAATACTTTT-GT-ATTAACTTTTTA
1 TATTTAATACTTTTAGTGATTAA-TTTTAA
2951830 TATTTAA
1 TATTTAA
2951837 ATATATTCAT
Statistics
Matches: 29, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
27 4 0.14
28 13 0.45
29 12 0.41
ACGTcount: A:0.28, C:0.05, G:0.05, T:0.62
Consensus pattern (29 bp):
TATTTAATACTTTTAGTGATTAATTTTAA
Found at i:2959023 original size:3 final size:3
Alignment explanation
Indices: 2959015--2959040 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
2959005 CCGTTAACCT
2959015 TTC TTC TTC TTC TTC TTC TTC TTC TT
1 TTC TTC TTC TTC TTC TTC TTC TTC TT
2959041 GATCCCACCA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.00, C:0.31, G:0.00, T:0.69
Consensus pattern (3 bp):
TTC
Found at i:2960121 original size:3 final size:3
Alignment explanation
Indices: 2960115--2960169 Score: 110
Period size: 3 Copynumber: 18.3 Consensus size: 3
2960105 TTAATAAGAG
2960115 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
2960163 ATA ATA A
1 ATA ATA A
2960170 ATATTATTAT
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 52 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:2960748 original size:35 final size:35
Alignment explanation
Indices: 2960697--2960764 Score: 100
Period size: 35 Copynumber: 1.9 Consensus size: 35
2960687 ACTAAAAATT
*
2960697 AGTCAATTCACCAAGTGACATGACATATTATAATA
1 AGTCAATTCACCAAGTGACATAACATATTATAATA
* * *
2960732 AGTCTATTCACCAAGTGATATAACTTATTATAA
1 AGTCAATTCACCAAGTGACATAACATATTATAA
2960765 ATAGCATCAA
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
35 29 1.00
ACGTcount: A:0.41, C:0.16, G:0.10, T:0.32
Consensus pattern (35 bp):
AGTCAATTCACCAAGTGACATAACATATTATAATA
Found at i:2963163 original size:94 final size:95
Alignment explanation
Indices: 2963056--2963242 Score: 349
Period size: 94 Copynumber: 2.0 Consensus size: 95
2963046 AAAATTAAAT
2963056 ATAGAATATATCTTAAGATTGTTAGAAAAAAATGTTTGTCGACATTCGATTTTTCATCCCGTTAT
1 ATAGAATATATCTTAAGATTGTTAGAAAAAAATGTTTGTCGACATTCGATTTTTCATCCCGTTAT
*
2963121 TGTTATTA-TATTATTATTATTATTATTTA
66 TATTATTATTATTATTATTATTATTATTTA
2963150 ATAGAATATATCTTAAGATTGTTAGAAAAAAATGTTTGTCGACATTCGATTTTTCATCCCGTTAT
1 ATAGAATATATCTTAAGATTGTTAGAAAAAAATGTTTGTCGACATTCGATTTTTCATCCCGTTAT
*
2963215 TATTGTTATTATTATTATTATTATTATT
66 TATTATTATTATTATTATTATTATTATT
2963243 ATTATTTAAA
Statistics
Matches: 90, Mismatches: 2, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
94 71 0.79
95 19 0.21
ACGTcount: A:0.33, C:0.09, G:0.11, T:0.48
Consensus pattern (95 bp):
ATAGAATATATCTTAAGATTGTTAGAAAAAAATGTTTGTCGACATTCGATTTTTCATCCCGTTAT
TATTATTATTATTATTATTATTATTATTTA
Found at i:2963226 original size:3 final size:3
Alignment explanation
Indices: 2963211--2963248 Score: 67
Period size: 3 Copynumber: 12.7 Consensus size: 3
2963201 TTTCATCCCG
*
2963211 TTA TTA TTG TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
2963249 TAAAAGTACT
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:0.29, C:0.00, G:0.03, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:2965317 original size:3 final size:3
Alignment explanation
Indices: 2965309--2965389 Score: 117
Period size: 3 Copynumber: 27.0 Consensus size: 3
2965299 CCATATTGAT
* * * *
2965309 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TAA TAA TAA TAA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
*
2965357 TTA TTA TTA TCA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
2965390 AATATATTAA
Statistics
Matches: 74, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 74 1.00
ACGTcount: A:0.38, C:0.01, G:0.00, T:0.60
Consensus pattern (3 bp):
TTA
Found at i:2977030 original size:133 final size:132
Alignment explanation
Indices: 2976785--2977049 Score: 487
Period size: 133 Copynumber: 2.0 Consensus size: 132
2976775 GCAATGATCA
2976785 AATGCTATTGAGATGTTTAAATACCAGCGAAGCTCGAAGCATCATTAAAGAAGTACACATGGAAT
1 AATGCTATTGAGATGTTTAAATACCAGCGAAGCTCGAAGCATCATTAAAGAAGTACACATGGAAT
*
2976850 ATGTGGAACACATGCAAATGGTCTTTCCATGGCCGAAAAATGAGATATGGATACTATTGGGCTAC
66 ATGTGGAACACATGCAAATGGTCTTTCCATGGCCAAAAAAT-AGATATGGATACTATTGGGCTAC
2976915 CTC
130 CTC
2976918 AATGCTATTGAGATGTTTAAATACCAGCGAAGCTCGAAGCATCATTAAAGAAGTACACAGTGGAA
1 AATGCTATTGAGATGTTTAAATACCAGCGAAGCTCGAAGCATCATTAAAGAAGTACACA-TGGAA
2976983 TATGTGGAACACATGCAAATGGTCTTTCCATGGCCAAAATAAT-GATATGGATACTATTGGGCTA
65 TATGTGGAACACATGCAAATGGTCTTTCCATGGCCAAAA-AATAGATATGGATACTATTGGGCTA
2977047 CCT
129 CCT
2977050 TGCACACAGA
Statistics
Matches: 129, Mismatches: 1, Indels: 4
0.96 0.01 0.03
Matches are distributed among these distances:
133 83 0.64
134 43 0.33
135 3 0.02
ACGTcount: A:0.35, C:0.17, G:0.22, T:0.26
Consensus pattern (132 bp):
AATGCTATTGAGATGTTTAAATACCAGCGAAGCTCGAAGCATCATTAAAGAAGTACACATGGAAT
ATGTGGAACACATGCAAATGGTCTTTCCATGGCCAAAAAATAGATATGGATACTATTGGGCTACC
TC
Found at i:2978017 original size:10 final size:10
Alignment explanation
Indices: 2978002--2978054 Score: 72
Period size: 10 Copynumber: 5.3 Consensus size: 10
2977992 ATGCTTGAAG
2978002 AAAAAAAGAA
1 AAAAAAAGAA
2978012 AAAAAAAG-A
1 AAAAAAAGAA
2978021 AAAAAAAGAA
1 AAAAAAAGAA
*
2978031 GGAAAAAAGAA
1 -AAAAAAAGAA
*
2978042 AAAAGAAGAA
1 AAAAAAAGAA
2978052 AAA
1 AAA
2978055 GGGGGGACAA
Statistics
Matches: 38, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
9 9 0.24
10 20 0.53
11 9 0.24
ACGTcount: A:0.85, C:0.00, G:0.15, T:0.00
Consensus pattern (10 bp):
AAAAAAAGAA
Found at i:2978022 original size:18 final size:19
Alignment explanation
Indices: 2977999--2978054 Score: 80
Period size: 18 Copynumber: 3.0 Consensus size: 19
2977989 ATTATGCTTG
2977999 AAGAAAAAAAGAA-AAAAA
1 AAGAAAAAAAGAAGAAAAA
*
2978017 AAGAAAAAAAAGAAGGAAAA
1 AAG-AAAAAAAGAAGAAAAA
2978037 AAG-AAAAAAGAAGAAAAA
1 AAGAAAAAAAGAAGAAAAA
2978055 GGGGGGACAA
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
18 17 0.50
19 10 0.29
20 7 0.21
ACGTcount: A:0.84, C:0.00, G:0.16, T:0.00
Consensus pattern (19 bp):
AAGAAAAAAAGAAGAAAAA
Found at i:2978037 original size:30 final size:30
Alignment explanation
Indices: 2977998--2978054 Score: 96
Period size: 30 Copynumber: 1.9 Consensus size: 30
2977988 TATTATGCTT
2977998 GAAGAAAAAAAGAAAAAAAAAGAAAAAAAA
1 GAAGAAAAAAAGAAAAAAAAAGAAAAAAAA
* *
2978028 GAAGGAAAAAAGAAAAAAGAAGAAAAA
1 GAAGAAAAAAAGAAAAAAAAAGAAAAA
2978055 GGGGGGACAA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.82, C:0.00, G:0.18, T:0.00
Consensus pattern (30 bp):
GAAGAAAAAAAGAAAAAAAAAGAAAAAAAA
Found at i:2980287 original size:35 final size:35
Alignment explanation
Indices: 2980237--2980316 Score: 142
Period size: 35 Copynumber: 2.3 Consensus size: 35
2980227 TTTACTTGAA
*
2980237 TTCATCAATTGATGGATCAGCCTTTTCCAGAGAAAG
1 TTCAT-AATGGATGGATCAGCCTTTTCCAGAGAAAG
2980273 TTCATAATGGATGGATCAGCCTTTTCCAGAGAAAG
1 TTCATAATGGATGGATCAGCCTTTTCCAGAGAAAG
2980308 TTCATAATG
1 TTCATAATG
2980317 AGAAGAACTC
Statistics
Matches: 43, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
35 38 0.88
36 5 0.12
ACGTcount: A:0.31, C:0.17, G:0.20, T:0.31
Consensus pattern (35 bp):
TTCATAATGGATGGATCAGCCTTTTCCAGAGAAAG
Found at i:2980912 original size:339 final size:339
Alignment explanation
Indices: 2980273--2981473 Score: 1728
Period size: 339 Copynumber: 3.6 Consensus size: 339
2980263 CCAGAGAAAG
*
2980273 TTCAT-AATGGATGGATCAGCCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAAGA
1 TTCATCAATTGATGGATCAGCC-TTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTG-AAGA
2980337 A-GAAGAAGAAGTTCATAATG-GAAGAACTTGTTCAACC-TTTA-CTGAATTCATCAATTGATGG
64 AGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTAGCTGAATTCATCAATTGATGG
2980398 ATCAGCCTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCAT
129 ATCAGCCTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCAT
2980463 AATGAGAAGAACTTGTTCAACCTTTTACCTGAATTCATCAATTGATGGATCAACCTTTCCAGAGA
194 AATGAGAAGAACTTGTTCAACCTTTTACCTGAATTCATCAATTGATGGATCAACCTTTCCAGAGA
*
2980528 AAGTTCATAATGAGAAGAACTCATTTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTT
259 AAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTT
2980593 CAACCTTTTACCTGAA
324 CAACCTTTTACCTGAA
2980609 TTCATCAATTGATGGATCAGCCTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAG
1 TTCATCAATTGATGGATCAGCCTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAG
*
2980674 GAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTACCTGAATTCATCAATTGATGGAT
66 GAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTAGCTGAATTCATCAATTGATGGAT
2980739 CAGCCTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAA
131 CAGCCTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAA
*
2980804 TGAGAAGAACTTGTTCAACCTTTTACCTGAATTCATCAATTGATGGATCAGCCTTTCCAGAGAAA
196 TGAGAAGAACTTGTTCAACCTTTTACCTGAATTCATCAATTGATGGATCAACCTTTCCAGAGAAA
2980869 GTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCA
261 GTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCA
2980934 ACCTTTTACCTGAA
326 ACCTTTTACCTGAA
2980948 TTCATCAATTGATGGATCAGCCTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAG
1 TTCATCAATTGATGGATCAGCCTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAG
* * *
2981013 GAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTT-GCTCAAATCTATCACTTGATGGA
66 GAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTAGCTGAATTC-ATCAATTGATGGA
* * * *
2981077 TTATCTTTTCC------AG-----AA--AG-AG--TTCATCTGAAGAAGGAAGAAGAAGTTCATA
130 TCAGCCTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATA
* * * * * * *
2981126 ATGAGAAGAACTTGTTCAACCTTTT-GCTCAAATCTATCACTTGATGGATTATCTTTTCCAGA-A
195 ATGAGAAGAACTTGTTCAACCTTTTACCTGAATTC-ATCAATTGATGGATCAACCTTTCCAGAGA
*
2981189 AGAGTTCATAATGAGAAGAACTCATCTGAAGAA-G--GAAGAAGTTCATAATGAGAAGAATTTGT
259 A-AGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGT
* *
2981251 TCAACCTTTT-GCTCAA
323 TCAACCTTTTACCTGAA
* * * * * *** *
2981267 ATCTATCACTTGATAGATTAGCTTTTCCAGTTCAAGTTCATAATAAGAAGAACTCATCTGAAGAA
1 TTC-ATCAATTGATGGATCAGCCTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAA
* * * * * *
2981332 GGATGAAGAAGTTCATAATGAGAAGAATTTGTTCAGA--TTTTTGCTCAAATCCATCACTTGATG
65 GGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCA-ACCTTTTAGCT-GAATTCATCAATTGATG
* * * *
2981395 GATCA-ACTCTTCTAGAGAAAGTTCATAATGAGAAGAACTCATC-GAAAGAATGATGAAGAAGTT
128 GATCAGCCT-TTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTG-AAGAAGGAAGAAGAAGTT
2981458 CATAATGAGAAGAACT
191 CATAATGAGAAGAACT
2981474 CATCAAGAGC
Statistics
Matches: 793, Mismatches: 42, Indels: 60
0.89 0.05 0.07
Matches are distributed among these distances:
319 11 0.01
320 144 0.18
321 4 0.01
322 9 0.01
323 108 0.14
325 2 0.00
326 4 0.01
328 2 0.00
331 2 0.00
333 4 0.01
334 2 0.00
335 6 0.01
336 98 0.12
337 32 0.04
338 10 0.01
339 355 0.45
ACGTcount: A:0.38, C:0.15, G:0.19, T:0.28
Consensus pattern (339 bp):
TTCATCAATTGATGGATCAGCCTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAG
GAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTAGCTGAATTCATCAATTGATGGAT
CAGCCTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAA
TGAGAAGAACTTGTTCAACCTTTTACCTGAATTCATCAATTGATGGATCAACCTTTCCAGAGAAA
GTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCA
ACCTTTTACCTGAA
Found at i:2981109 original size:97 final size:97
Alignment explanation
Indices: 2981000--2981296 Score: 441
Period size: 97 Copynumber: 2.9 Consensus size: 97
2980990 TGAGAAGAAC
2981000 TCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGCTCAAATCTA
1 TCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGCTCAAATCTA
2981065 TCACTTGATGGATTATCTTTTCCAGAAAGAGT
66 TCACTTGATGGATTATCTTTTCCAGAAAGAGT
2981097 TCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGCTCAAATCTA
1 TCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGCTCAAATCTA
2981162 TCACTTGATGGATTATCTTTTCCAGAAAGAGT
66 TCACTTGATGGATTATCTTTTCCAGAAAGAGT
* *
2981194 TCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTT
1 TCAT-CT--GAAG-A---A---G--GAA-GAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTT
* *
2981259 TTGCTCAAATCTATCACTTGATAGATTAGCTTTTCCAG
53 TTGCTCAAATCTATCACTTGATGGATTATCTTTTCCAG
2981297 TTCAAGTTCA
Statistics
Matches: 183, Mismatches: 4, Indels: 13
0.92 0.02 0.06
Matches are distributed among these distances:
97 101 0.55
98 1 0.01
100 4 0.02
101 1 0.01
104 1 0.01
107 1 0.01
109 3 0.02
110 71 0.39
ACGTcount: A:0.35, C:0.15, G:0.18, T:0.31
Consensus pattern (97 bp):
TCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGCTCAAATCTA
TCACTTGATGGATTATCTTTTCCAGAAAGAGT
Found at i:2981109 original size:113 final size:113
Alignment explanation
Indices: 2980273--2981053 Score: 1482
Period size: 113 Copynumber: 6.9 Consensus size: 113
2980263 CCAGAGAAAG
*
2980273 TTCAT-AATGGATGGATCAGCCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAAGA
1 TTCATCAATTGATGGATCAGCC-TTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTG-AAGA
2980337 A-GAAGAAGAAGTTCATAATG-GAAGAACTTGTTCAACC-TTTA-CTGAA
64 AGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTACCTGAA
2980383 TTCATCAATTGATGGATCAGCCTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAG
1 TTCATCAATTGATGGATCAGCCTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAG
2980448 GAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTACCTGAA
66 GAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTACCTGAA
* *
2980496 TTCATCAATTGATGGATCAACCTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATTTGAAGAAG
1 TTCATCAATTGATGGATCAGCCTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAG
2980561 GAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTACCTGAA
66 GAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTACCTGAA
2980609 TTCATCAATTGATGGATCAGCCTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAG
1 TTCATCAATTGATGGATCAGCCTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAG
2980674 GAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTACCTGAA
66 GAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTACCTGAA
2980722 TTCATCAATTGATGGATCAGCCTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAG
1 TTCATCAATTGATGGATCAGCCTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAG
2980787 GAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTACCTGAA
66 GAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTACCTGAA
2980835 TTCATCAATTGATGGATCAGCCTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAG
1 TTCATCAATTGATGGATCAGCCTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAG
2980900 GAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTACCTGAA
66 GAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTACCTGAA
2980948 TTCATCAATTGATGGATCAGCCTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAG
1 TTCATCAATTGATGGATCAGCCTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAG
2981013 GAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTT
66 GAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTT
2981054 GCTCAAATCT
Statistics
Matches: 661, Mismatches: 5, Indels: 7
0.98 0.01 0.01
Matches are distributed among these distances:
109 5 0.01
110 61 0.09
111 32 0.05
112 4 0.01
113 559 0.85
ACGTcount: A:0.38, C:0.15, G:0.19, T:0.27
Consensus pattern (113 bp):
TTCATCAATTGATGGATCAGCCTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAG
GAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTACCTGAA
Done.