Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr13 124041150
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: 124041150
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 335 characters in sequence are not A, C, G, or T
File 373 of 410
Found at i:114080429 original size:22 final size:22
Alignment explanation
Indices: 114080404--114080446 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
114080394 TATCTAAACA
*
114080404 ATAACAATAAAATAGTGGCAAC
1 ATAACAATAAAATAGTAGCAAC
* *
114080426 ATAATAGTAAAATAGTAGCAA
1 ATAACAATAAAATAGTAGCAA
114080447 AATAGGGAGA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.56, C:0.09, G:0.14, T:0.21
Consensus pattern (22 bp):
ATAACAATAAAATAGTAGCAAC
Found at i:114082961 original size:127 final size:127
Alignment explanation
Indices: 114082821--114083126 Score: 479
Period size: 127 Copynumber: 2.4 Consensus size: 127
114082811 TAGCCCAACG
*
114082821 AAAAATCGAAACCCAGCACGATAGGGCACGATTCCTCGAATTTCCAAACATTGAACATTGCCTTA
1 AAAAATCGAAACCCAGCACGATAGGGCACGATTCCCCGAATTTCCAAACATTGAACATTGCCTTA
* *
114082886 CTTTAGAATGTAGAAAACACGAGTGAAATTC-AAATTGAATATTCGATTATTTTGAACAAACA
66 CTTTAAAATGTAGAAAACACGAGTGAAATTCTAAA-AGAATATTCGATTATTTTGAACAAACA
* *
114082948 AAAAATTGAAACCCAGCACGATAGGGCACGATTCCCCGAATTTCCAAACATTGAACATTGCCTTG
1 AAAAATCGAAACCCAGCACGATAGGGCACGATTCCCCGAATTTCCAAACATTGAACATTGCCTTA
* * * *
114083013 TTTTAAAATTTGGGAAACACGAGTGAAATTCTAAAAGAATATTCGATTATTTTGAACAAACA
66 CTTTAAAATGTAGAAAACACGAGTGAAATTCTAAAAGAATATTCGATTATTTTGAACAAACA
** * *
114083075 GGAAATCAAAATCCAGCACGATAGGGCACGATTCCCCGAATTTCCAAACATT
1 AAAAATCGAAACCCAGCACGATAGGGCACGATTCCCCGAATTTCCAAACATT
114083127 AAATATTACT
Statistics
Matches: 164, Mismatches: 14, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
127 161 0.98
128 3 0.02
ACGTcount: A:0.39, C:0.20, G:0.16, T:0.25
Consensus pattern (127 bp):
AAAAATCGAAACCCAGCACGATAGGGCACGATTCCCCGAATTTCCAAACATTGAACATTGCCTTA
CTTTAAAATGTAGAAAACACGAGTGAAATTCTAAAAGAATATTCGATTATTTTGAACAAACA
Found at i:114086595 original size:137 final size:137
Alignment explanation
Indices: 114086349--114086772 Score: 803
Period size: 137 Copynumber: 3.1 Consensus size: 137
114086339 CATTGGGCCT
** * *
114086349 AAGCCCATTCAGGTAACAGTGGTACTGGGCTAGAGCCCTTTTCAGATTATAATAAACTGGGCCTT
1 AAGCCCATTTGGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
114086414 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAGTAAA
66 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAGTAAA
114086479 CATATGC
131 CATATGC
114086486 AAGCCCATTTGGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
1 AAGCCCATTTGGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
114086551 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAGTAAA
66 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAGTAAA
114086616 CATATGC
131 CATATGC
*
114086623 AAGCCCATTTGGGGAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
1 AAGCCCATTTGGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
114086688 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAGTAAA
66 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAGTAAA
114086753 CATATGC
131 CATATGC
114086760 AAGCCCATTTGGG
1 AAGCCCATTTGGG
114086773 GAGACTACTC
Statistics
Matches: 282, Mismatches: 5, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
137 282 1.00
ACGTcount: A:0.31, C:0.25, G:0.19, T:0.25
Consensus pattern (137 bp):
AAGCCCATTTGGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAGTAAA
CATATGC
Found at i:114088591 original size:26 final size:26
Alignment explanation
Indices: 114088560--114088665 Score: 185
Period size: 26 Copynumber: 4.1 Consensus size: 26
114088550 TGAAATGCCC
*
114088560 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAACCCATT
114088586 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
* *
114088612 ATCATGGAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAACCCATT
114088638 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
114088664 AT
1 AT
114088666 TAATTTGTAC
Statistics
Matches: 75, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 75 1.00
ACGTcount: A:0.36, C:0.24, G:0.08, T:0.33
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:114089377 original size:12 final size:14
Alignment explanation
Indices: 114089349--114089380 Score: 50
Period size: 12 Copynumber: 2.4 Consensus size: 14
114089339 TTAATTGATG
114089349 TTTTATATATATAA
1 TTTTATATATATAA
114089363 TTTTATA-ATAT-A
1 TTTTATATATATAA
114089375 TTTTAT
1 TTTTAT
114089381 TTATTATCAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
12 7 0.39
13 4 0.22
14 7 0.39
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (14 bp):
TTTTATATATATAA
Found at i:114091266 original size:3 final size:3
Alignment explanation
Indices: 114091258--114091346 Score: 55
Period size: 3 Copynumber: 31.0 Consensus size: 3
114091248 TTATTTTAAC
* * *
114091258 TAT TAT TAT TAT TAT T-T TGT TAT T-T CAC TAT TAT TAT T-T CTAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT -TAT
* * * *
114091301 T-T TGT TAT TA- TATT TAT TAT TAT T-G TAT TAC TAA TAT TAT TAT
1 TAT TAT TAT TAT TA-T TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
114091344 TAT
1 TAT
114091347 ATTGTTTTCC
Statistics
Matches: 67, Mismatches: 11, Indels: 16
0.71 0.12 0.17
Matches are distributed among these distances:
2 9 0.13
3 55 0.82
4 3 0.04
ACGTcount: A:0.28, C:0.04, G:0.03, T:0.64
Consensus pattern (3 bp):
TAT
Found at i:114091289 original size:28 final size:26
Alignment explanation
Indices: 114091256--114091352 Score: 100
Period size: 28 Copynumber: 3.9 Consensus size: 26
114091246 CATTATTTTA
114091256 ACTATTATTATTATTATTTTGTTATTT
1 ACTATTATTATTATTATTTTGTTA-TT
114091283 CACTATTATTATT-TCTATTTTGTTATT
1 -ACTATTATTATTAT-TATTTTGTTATT
114091310 A-TA-T-TTATTATTA--TTG-TATT
1 ACTATTATTATTATTATTTTGTTATT
* *
114091330 ACTAATATTATTATTATATTGTT
1 ACTATTATTATTATTATTTTGTT
114091353 TTCCTTTTTT
Statistics
Matches: 61, Mismatches: 0, Indels: 18
0.77 0.00 0.23
Matches are distributed among these distances:
20 5 0.08
21 5 0.08
22 1 0.02
23 16 0.26
24 2 0.03
25 5 0.08
26 2 0.03
27 3 0.05
28 22 0.36
ACGTcount: A:0.28, C:0.05, G:0.04, T:0.63
Consensus pattern (26 bp):
ACTATTATTATTATTATTTTGTTATT
Found at i:114091444 original size:3 final size:3
Alignment explanation
Indices: 114091426--114091500 Score: 50
Period size: 3 Copynumber: 26.3 Consensus size: 3
114091416 TTAAACACAT
* * ***
114091426 TTA TT- TTA TT- TTA TTA TTA TTA TTA TT- TTA -TA TCA TCA CCC TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* * *
114091470 TTA TTA TCA TTA TTA TTG TTA TTA TTT TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
114091501 CTCGTCTTTG
Statistics
Matches: 56, Mismatches: 12, Indels: 8
0.74 0.16 0.11
Matches are distributed among these distances:
2 8 0.14
3 48 0.86
ACGTcount: A:0.27, C:0.08, G:0.01, T:0.64
Consensus pattern (3 bp):
TTA
Found at i:114093570 original size:19 final size:22
Alignment explanation
Indices: 114093531--114093570 Score: 59
Period size: 19 Copynumber: 2.0 Consensus size: 22
114093521 AGAAACCCAA
114093531 CCATATCCAACCGTATACACCC
1 CCATATCCAACCGTATACACCC
114093553 CCATA-CCAACC-T-TACACC
1 CCATATCCAACCGTATACACC
114093571 GTGTGGGGAG
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 6 0.33
20 1 0.06
21 6 0.33
22 5 0.28
ACGTcount: A:0.33, C:0.47, G:0.03, T:0.17
Consensus pattern (22 bp):
CCATATCCAACCGTATACACCC
Found at i:114093669 original size:27 final size:26
Alignment explanation
Indices: 114093632--114093746 Score: 149
Period size: 27 Copynumber: 4.3 Consensus size: 26
114093622 AGCATGGCTG
* *
114093632 CCAGAACAGATAATGTGACAGAGTCA
1 CCAGAACAGATAATGTGGCAGAGCCA
114093658 CCAGATACAGATAATCGTGGCAGAGCCA
1 CCAGA-ACAGATAAT-GTGGCAGAGCCA
114093686 CCAGAACAGATATATGTGGCAGAGCCA
1 CCAGAACAGATA-ATGTGGCAGAGCCA
* * *
114093713 CCAGATCAGATATTTGTGGCATAGCCA
1 CCAGAACAGATA-ATGTGGCAGAGCCA
114093740 CCAGAAC
1 CCAGAAC
114093747 GCTTCCTCCA
Statistics
Matches: 80, Mismatches: 6, Indels: 5
0.88 0.07 0.05
Matches are distributed among these distances:
26 5 0.06
27 58 0.73
28 17 0.21
ACGTcount: A:0.37, C:0.23, G:0.23, T:0.17
Consensus pattern (26 bp):
CCAGAACAGATAATGTGGCAGAGCCA
Found at i:114093691 original size:54 final size:54
Alignment explanation
Indices: 114093632--114093746 Score: 169
Period size: 54 Copynumber: 2.1 Consensus size: 54
114093622 AGCATGGCTG
*
114093632 CCAGAACAGATA-ATGTGACAGAGTCACCAGATACAGATAATCGTGGCAGAGCCA
1 CCAGAACAGATATATGTGACAGAGCCACCAGAT-CAGATAATCGTGGCAGAGCCA
* * * *
114093686 CCAGAACAGATATATGTGGCAGAGCCACCAGATCAGATATTTGTGGCATAGCCA
1 CCAGAACAGATATATGTGACAGAGCCACCAGATCAGATAATCGTGGCAGAGCCA
114093740 CCAGAAC
1 CCAGAAC
114093747 GCTTCCTCCA
Statistics
Matches: 55, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
54 37 0.67
55 18 0.33
ACGTcount: A:0.37, C:0.23, G:0.23, T:0.17
Consensus pattern (54 bp):
CCAGAACAGATATATGTGACAGAGCCACCAGATCAGATAATCGTGGCAGAGCCA
Found at i:114095408 original size:26 final size:26
Alignment explanation
Indices: 114095370--114095505 Score: 236
Period size: 26 Copynumber: 5.2 Consensus size: 26
114095360 CATGAAATTC
*
114095370 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGGAACATTTACCTAACCCA
114095396 TTATCATGGAACATTTACCTAACCCA
1 TTATCATGGAACATTTACCTAACCCA
114095422 TTATCATGGAACATTTACCTAACCCA
1 TTATCATGGAACATTTACCTAACCCA
*
114095448 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGGAACATTTACCTAACCCA
* *
114095474 TTATCATTGAACATTTACCTAACCTA
1 TTATCATGGAACATTTACCTAACCCA
114095500 TTATCA
1 TTATCA
114095506 ATTTGTATCA
Statistics
Matches: 107, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 107 1.00
ACGTcount: A:0.35, C:0.25, G:0.06, T:0.34
Consensus pattern (26 bp):
TTATCATGGAACATTTACCTAACCCA
Found at i:114096470 original size:18 final size:19
Alignment explanation
Indices: 114096443--114096490 Score: 66
Period size: 18 Copynumber: 2.7 Consensus size: 19
114096433 GAATAAAAGG
114096443 TTTATTATTTTAGTTTT-T
1 TTTATTATTTTAGTTTTAT
*
114096461 TTTGTTATTTTA-TTTTAT
1 TTTATTATTTTAGTTTTAT
114096479 TTTATT-TTTTAG
1 TTTATTATTTTAG
114096491 AGCCTATTTA
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
17 9 0.35
18 17 0.65
ACGTcount: A:0.17, C:0.00, G:0.06, T:0.77
Consensus pattern (19 bp):
TTTATTATTTTAGTTTTAT
Found at i:114097143 original size:3 final size:3
Alignment explanation
Indices: 114097118--114097270 Score: 104
Period size: 3 Copynumber: 51.0 Consensus size: 3
114097108 TTTAATCTAG
* *
114097118 TAT TAT TACT TGT TAT T-T T-T TAT TAT TAT CTAA TA- TAT TAT TAT
1 TAT TAT TA-T TAT TAT TAT TAT TAT TAT TAT -TAT TAT TAT TAT TAT
* * * * *
114097162 TAT CAC TAT TAT TAC T-T TAT TAT TGT AACT TAAT GTAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TA-T T-AT -TAT TAT TAT TAT
**
114097209 TA- TAT TAT TAT TAT TAT CGT TAT TAT TAT TA- TACCT T-T TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA--T TAT TAT TAT
*
114097253 TAT TAC TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT
114097271 ATTTTCTTTC
Statistics
Matches: 118, Mismatches: 19, Indels: 26
0.72 0.12 0.16
Matches are distributed among these distances:
2 13 0.11
3 94 0.80
4 8 0.07
5 3 0.03
ACGTcount: A:0.31, C:0.07, G:0.03, T:0.60
Consensus pattern (3 bp):
TAT
Found at i:114097181 original size:41 final size:41
Alignment explanation
Indices: 114097130--114097225 Score: 108
Period size: 44 Copynumber: 2.3 Consensus size: 41
114097120 TTATTACTTG
* *
114097130 TTATTTTTTATTAT-TATC-TAATATATTATTATTATCACTA
1 TTATTATTTATTATGTAACTTAATATATTATTATTATCA-TA
* *
114097170 TTATTACTTTATTATTGTAACTTAATGTATTATTATTATTATA
1 TTATTA-TTTATTA-TGTAACTTAATATATTATTATTATCATA
114097213 TTATTA-TTATTAT
1 TTATTATTTATTAT
114097226 CGTTATTATT
Statistics
Matches: 48, Mismatches: 4, Indels: 8
0.80 0.07 0.13
Matches are distributed among these distances:
40 6 0.12
41 13 0.27
42 1 0.02
43 11 0.23
44 17 0.35
ACGTcount: A:0.32, C:0.05, G:0.02, T:0.60
Consensus pattern (41 bp):
TTATTATTTATTATGTAACTTAATATATTATTATTATCATA
Found at i:114097563 original size:3 final size:3
Alignment explanation
Indices: 114097549--114097662 Score: 77
Period size: 3 Copynumber: 37.7 Consensus size: 3
114097539 TTCTATTCCC
* * * * * *
114097549 ATT ATC ATT ATT ATT ATT ACT AAT ATT AAT ATT ATT ATT ATG AAT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
* * * * * * *
114097597 ATT ATT ATC GTT AGT ATT ATT ATA ATTT ACT ACT GTT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT A-TT ATT ATT ATT ATT ATT ATT
*
114097643 -TAT ATT ATT ATT ATA ATT AT
1 AT-T ATT ATT ATT ATT ATT AT
114097663 CGTTTTCGTT
Statistics
Matches: 83, Mismatches: 25, Indels: 6
0.73 0.22 0.05
Matches are distributed among these distances:
2 1 0.01
3 79 0.95
4 3 0.04
ACGTcount: A:0.36, C:0.04, G:0.04, T:0.56
Consensus pattern (3 bp):
ATT
Found at i:114100633 original size:19 final size:19
Alignment explanation
Indices: 114100609--114100647 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
114100599 TCAATAGAAG
114100609 AATAATTGAAAGTAATCTC
1 AATAATTGAAAGTAATCTC
114100628 AATAATTGAAAGTAATCTC
1 AATAATTGAAAGTAATCTC
114100647 A
1 A
114100648 TCTGAGCTAG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.49, C:0.10, G:0.10, T:0.31
Consensus pattern (19 bp):
AATAATTGAAAGTAATCTC
Found at i:114101436 original size:72 final size:72
Alignment explanation
Indices: 114101327--114101473 Score: 285
Period size: 72 Copynumber: 2.0 Consensus size: 72
114101317 CAATGTGCTG
*
114101327 AGTTTAAAATACGAGTCAGAATCAGACCGAGGCCGAGAGCTAGCTTGGCTTCTTAGGCAGGTCAA
1 AGTTTAAAATACGAGTCAGAATCAGACCGAGGCCGAGAGCTAGCTTGACTTCTTAGGCAGGTCAA
114101392 GGCCTTA
66 GGCCTTA
114101399 AGTTTAAAATACGAGTCAGAATCAGACCGAGGCCGAGAGCTAGCTTGACTTCTTAGGCAGGTCAA
1 AGTTTAAAATACGAGTCAGAATCAGACCGAGGCCGAGAGCTAGCTTGACTTCTTAGGCAGGTCAA
114101464 GGCCTTA
66 GGCCTTA
114101471 AGT
1 AGT
114101474 ATCAGGGCCA
Statistics
Matches: 74, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
72 74 1.00
ACGTcount: A:0.30, C:0.20, G:0.27, T:0.22
Consensus pattern (72 bp):
AGTTTAAAATACGAGTCAGAATCAGACCGAGGCCGAGAGCTAGCTTGACTTCTTAGGCAGGTCAA
GGCCTTA
Found at i:114109721 original size:43 final size:43
Alignment explanation
Indices: 114109667--114109998 Score: 204
Period size: 43 Copynumber: 7.7 Consensus size: 43
114109657 GACGAAGGGC
* * *
114109667 CTTAAAGCCTTAAGCAGTAGGGTAACAGGCTGAATTTACAGAT
1 CTTAAACCCTTAAGCAGTAGGGAAACAGGCTAAATTTACAGAT
* * * * ** * ** **
114109710 CTTAATCCCTTAAGTAGTAGGGAAACAGATCGAAGGTGATGGGC
1 CTTAAACCCTTAAGCAGTAGGGAAACAG-GCTAAATTTACAGAT
* *
114109754 CTTAAACCCCTAAGCAGTAGGGTAACAGGCTAAATTTACAGAT
1 CTTAAACCCTTAAGCAGTAGGGAAACAGGCTAAATTTACAGAT
* * * *** ** **
114109797 CTTAACCCCCTAAGCAGTAGGGAAACA-GATCAAAGGCGATGGGC
1 CTTAAACCCTTAAGCAGTAGGGAAACAGGCT-AAA-TTTACAGAT
* *
114109841 CTTAAACACC-TAAGCAGTAGGGTAACGGGCTAAATTTACAGAT
1 CTTAAAC-CCTTAAGCAGTAGGGAAACAGGCTAAATTTACAGAT
* * * * ** **
114109884 CTT-AACCCTCTATGGAGTAGGGAAACA-GATCAAAGGTTATGGGC
1 CTTAAACCCT-TAAGCAGTAGGGAAACAGGCT-AAA-TTTACAGAT
* * * *
114109928 CTTAAACCCCTAAGCAGTAGGGTAACAGGCTGAATTTACAAAT
1 CTTAAACCCTTAAGCAGTAGGGAAACAGGCTAAATTTACAGAT
*
114109971 CTTAACCCCTTAAGCAGTAGGGAAACAG
1 CTTAAACCCTTAAGCAGTAGGGAAACAG
114109999 ATCAAAGGCG
Statistics
Matches: 205, Mismatches: 73, Indels: 22
0.68 0.24 0.07
Matches are distributed among these distances:
41 2 0.01
42 7 0.03
43 107 0.52
44 78 0.38
45 11 0.05
ACGTcount: A:0.35, C:0.20, G:0.23, T:0.22
Consensus pattern (43 bp):
CTTAAACCCTTAAGCAGTAGGGAAACAGGCTAAATTTACAGAT
Found at i:114109754 original size:87 final size:87
Alignment explanation
Indices: 114109578--114110046 Score: 620
Period size: 87 Copynumber: 5.4 Consensus size: 87
114109568 GAATTCACTA
* * * * * **
114109578 GCCTTAAATCCCTAGGCAGTAGGGTAACAGGATAAATTTATAGATCTTGTCTCCC-TAAGCAGTA
1 GCCTTAAACCCCTAAGCAGTAGGGTAACAGGCTGAATTTACAGATCTTAAC-CCCTTAAGCAGT-
* * * * *
114109642 ATGG-AGCAAATCAAAGACGAAGG
64 AGGGAAACAGATCAAAGGCGATGG
* * * *
114109665 GCCTTAAAGCCTTAAGCAGTAGGGTAACAGGCTGAATTTACAGATCTTAATCCCTTAAGTAGTAG
1 GCCTTAAACCCCTAAGCAGTAGGGTAACAGGCTGAATTTACAGATCTTAACCCCTTAAGCAGTAG
* *
114109730 GGAAACAGATCGAAGGTGATGG
66 GGAAACAGATCAAAGGCGATGG
* *
114109752 GCCTTAAACCCCTAAGCAGTAGGGTAACAGGCTAAATTTACAGATCTTAACCCCCTAAGCAGTAG
1 GCCTTAAACCCCTAAGCAGTAGGGTAACAGGCTGAATTTACAGATCTTAACCCCTTAAGCAGTAG
114109817 GGAAACAGATCAAAGGCGATGG
66 GGAAACAGATCAAAGGCGATGG
* * * * *
114109839 GCCTTAAACACCTAAGCAGTAGGGTAACGGGCTAAATTTACAGATCTTAA-CCCTCTATGGAGTA
1 GCCTTAAACCCCTAAGCAGTAGGGTAACAGGCTGAATTTACAGATCTTAACCCCT-TAAGCAGTA
**
114109903 GGGAAACAGATCAAAGGTTATGG
65 GGGAAACAGATCAAAGGCGATGG
*
114109926 GCCTTAAACCCCTAAGCAGTAGGGTAACAGGCTGAATTTACAAATCTTAACCCCTTAAGCAGTAG
1 GCCTTAAACCCCTAAGCAGTAGGGTAACAGGCTGAATTTACAGATCTTAACCCCTTAAGCAGTAG
114109991 GGAAACAGATCAAAGGCGATGG
66 GGAAACAGATCAAAGGCGATGG
* *
114110013 CCCTTAAACCCCTATGCAGTAGGGTAACAGGCTG
1 GCCTTAAACCCCTAAGCAGTAGGGTAACAGGCTG
114110047 GGAATTACAA
Statistics
Matches: 336, Mismatches: 42, Indels: 8
0.87 0.11 0.02
Matches are distributed among these distances:
86 9 0.03
87 323 0.96
88 4 0.01
ACGTcount: A:0.34, C:0.20, G:0.24, T:0.22
Consensus pattern (87 bp):
GCCTTAAACCCCTAAGCAGTAGGGTAACAGGCTGAATTTACAGATCTTAACCCCTTAAGCAGTAG
GGAAACAGATCAAAGGCGATGG
Found at i:114109774 original size:44 final size:44
Alignment explanation
Indices: 114109710--114110042 Score: 205
Period size: 44 Copynumber: 7.6 Consensus size: 44
114109700 ATTTACAGAT
* * * * * *
114109710 CTTAATCCCTTAAGTAGTAGGGAAACAGATCGAAGGTGATGGGC
1 CTTAAACCCCTAAGCAGTAGGGAAACAGATCAAAGGTTATGGAC
* * * ** *
114109754 CTTAAACCCCTAAGCAGTAGGGTAACAG-GCTAAA-TTTACAGAT
1 CTTAAACCCCTAAGCAGTAGGGAAACAGATC-AAAGGTTATGGAC
* ** *
114109797 CTTAACCCCCTAAGCAGTAGGGAAACAGATCAAAGGCGATGGGC
1 CTTAAACCCCTAAGCAGTAGGGAAACAGATCAAAGGTTATGGAC
* * ** * ** *
114109841 CTTAAACACCTAAGCAGTAGGGTAAC-GGGCTAAA-TTTACAGAT
1 CTTAAACCCCTAAGCAGTAGGGAAACAGATC-AAAGGTTATGGAC
* * *
114109884 CTT-AACCCTCTATGGAGTAGGGAAACAGATCAAAGGTTATGGGC
1 CTTAAACCC-CTAAGCAGTAGGGAAACAGATCAAAGGTTATGGAC
* * * * *** *
114109928 CTTAAACCCCTAAGCAGTAGGGTAACAG-GCTGAA-TTTACAAAT
1 CTTAAACCCCTAAGCAGTAGGGAAACAGATC-AAAGGTTATGGAC
** *
114109971 CTT-AACCCCTTAAGCAGTAGGGAAACAGATCAAAGGCGATGGCC
1 CTTAAACCCC-TAAGCAGTAGGGAAACAGATCAAAGGTTATGGAC
* *
114110015 CTTAAACCCCTATGCAGTAGGGTAACAG
1 CTTAAACCCCTAAGCAGTAGGGAAACAG
114110043 GCTGGGAATT
Statistics
Matches: 207, Mismatches: 69, Indels: 26
0.69 0.23 0.09
Matches are distributed among these distances:
42 10 0.05
43 83 0.40
44 103 0.50
45 11 0.05
ACGTcount: A:0.35, C:0.21, G:0.24, T:0.21
Consensus pattern (44 bp):
CTTAAACCCCTAAGCAGTAGGGAAACAGATCAAAGGTTATGGAC
Found at i:114110788 original size:17 final size:17
Alignment explanation
Indices: 114110751--114110788 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 17
114110741 CCCCCACTTG
*
114110751 CCCACTTGCGCCGAACT
1 CCCACTTGCGCCCAACT
114110768 CCCACTTGCGCACCAAC-
1 CCCACTTGCGC-CCAACT
114110785 CCCA
1 CCCA
114110789 TGCCTCTGTC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 15 0.79
18 4 0.21
ACGTcount: A:0.21, C:0.53, G:0.13, T:0.13
Consensus pattern (17 bp):
CCCACTTGCGCCCAACT
Found at i:114111950 original size:3 final size:3
Alignment explanation
Indices: 114111942--114112007 Score: 59
Period size: 3 Copynumber: 22.3 Consensus size: 3
114111932 TGTATTTTAA
*
114111942 TAT TAT TAT TA- TAT TA- TAT ATACT TCT T-T GTAT T-T TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT -TA-T TAT TAT -TAT TAT TAT TAT TAT
*
114111986 TAT TAG TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT T
114112008 CATATTAGCA
Statistics
Matches: 53, Mismatches: 3, Indels: 14
0.76 0.04 0.20
Matches are distributed among these distances:
2 7 0.13
3 41 0.77
4 4 0.08
5 1 0.02
ACGTcount: A:0.30, C:0.03, G:0.03, T:0.64
Consensus pattern (3 bp):
TAT
Found at i:114112074 original size:15 final size:15
Alignment explanation
Indices: 114112054--114112096 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
114112044 TTTCATATAG
* *
114112054 TATTATCTTTTTTAC
1 TATTATATTTATTAC
114112069 TATTATATTTATTAC
1 TATTATATTTATTAC
114112084 TA-TATTATTTATT
1 TATTA-TATTTATT
114112097 TTCACTATTA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
14 2 0.08
15 23 0.92
ACGTcount: A:0.28, C:0.07, G:0.00, T:0.65
Consensus pattern (15 bp):
TATTATATTTATTAC
Found at i:114112105 original size:33 final size:32
Alignment explanation
Indices: 114112054--114112115 Score: 83
Period size: 33 Copynumber: 1.9 Consensus size: 32
114112044 TTTCATATAG
114112054 TATTATCTTTTTTACTATTA-TATTTATTACTA
1 TATTATCTTTTTTACTATTATTA-TTATTACTA
114112086 TATTAT-TTATTTTCACTATTATTATTATTA
1 TATTATCTT-TTTT-ACTATTATTATTATTA
114112116 TTTTCATCAT
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
31 2 0.07
32 10 0.37
33 13 0.48
34 2 0.07
ACGTcount: A:0.29, C:0.08, G:0.00, T:0.63
Consensus pattern (32 bp):
TATTATCTTTTTTACTATTATTATTATTACTA
Found at i:114112118 original size:21 final size:22
Alignment explanation
Indices: 114112086--114112131 Score: 69
Period size: 21 Copynumber: 2.1 Consensus size: 22
114112076 TTTATTACTA
114112086 TATTATTTATTTTCA-CTATTAT
1 TATTATTTATTTTCATC-ATTAT
114112108 TATTA-TTATTTTCATCATTAT
1 TATTATTTATTTTCATCATTAT
114112129 TAT
1 TAT
114112132 ATATATATGT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
21 17 0.74
22 6 0.26
ACGTcount: A:0.28, C:0.09, G:0.00, T:0.63
Consensus pattern (22 bp):
TATTATTTATTTTCATCATTAT
Found at i:114114383 original size:3 final size:3
Alignment explanation
Indices: 114114361--114114506 Score: 88
Period size: 3 Copynumber: 48.0 Consensus size: 3
114114351 TTTAATCTAG
* *
114114361 TAT TAT TACT TGT TATT TAT TAT TAT TAT CTAA TA- TAT TAT TAT T-T
1 TAT TAT TA-T TAT TA-T TAT TAT TAT TAT -TAT TAT TAT TAT TAT TAT
* * * * *
114114407 CAC TAT TAT TAC T-T TAT TAT TGT AACT TAAT GTAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TA-T T-AT -TAT TAT TAT TAT TAT
* * *
114114454 TAT TA- TACCT T-T TAT TAT TAT TAC TAT T-G TAT TAT TAC TAT TAT
1 TAT TAT TA--T TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
114114498 TAT TAT TAT
1 TAT TAT TAT
114114507 ATTTTCTTTC
Statistics
Matches: 110, Mismatches: 19, Indels: 28
0.70 0.12 0.18
Matches are distributed among these distances:
2 9 0.08
3 87 0.79
4 11 0.10
5 3 0.03
ACGTcount: A:0.31, C:0.07, G:0.03, T:0.60
Consensus pattern (3 bp):
TAT
Found at i:114114568 original size:2 final size:2
Alignment explanation
Indices: 114114561--114114592 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
114114551 AACTAATTTA
114114561 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
114114593 TAGCACACTT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:114115713 original size:25 final size:23
Alignment explanation
Indices: 114115661--114115715 Score: 58
Period size: 25 Copynumber: 2.3 Consensus size: 23
114115651 TATAAATAGT
114115661 AATAGTGTTAGAAATATACTATA
1 AATAGTGTTAGAAATATACTATA
* *
114115684 TATAGTGTTTGAAGTATATAC-ATAA
1 AATAGTGTTAGAA--ATATACTAT-A
114115709 AATAGTG
1 AATAGTG
114115716 AAAATATAAC
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
23 11 0.42
24 2 0.08
25 13 0.50
ACGTcount: A:0.44, C:0.04, G:0.16, T:0.36
Consensus pattern (23 bp):
AATAGTGTTAGAAATATACTATA
Found at i:114115796 original size:22 final size:22
Alignment explanation
Indices: 114115771--114115845 Score: 69
Period size: 22 Copynumber: 3.3 Consensus size: 22
114115761 TATGAAATAG
*
114115771 ATATAAAAAAAATATGTACATA
1 ATATAAAAAAAATATATACATA
* *
114115793 ATATAGTGTAAAAAATACATACATA
1 ATATA---AAAAAAATATATACATA
**
114115818 ATATAATTAAAATATATACATA
1 ATATAAAAAAAATATATACATA
*
114115840 AGATAA
1 ATATAA
114115846 CATGTAGGAA
Statistics
Matches: 42, Mismatches: 8, Indels: 6
0.75 0.14 0.11
Matches are distributed among these distances:
22 23 0.55
25 19 0.45
ACGTcount: A:0.60, C:0.05, G:0.05, T:0.29
Consensus pattern (22 bp):
ATATAAAAAAAATATATACATA
Found at i:114115815 original size:25 final size:24
Alignment explanation
Indices: 114115777--114115839 Score: 72
Period size: 25 Copynumber: 2.5 Consensus size: 24
114115767 ATAGATATAA
** *
114115777 AAAAAATATGTACATAATATAGTGT
1 AAAAAATACATACATAATATAAT-T
114115802 AAAAAATACATACATAATATAATT
1 AAAAAATACATACATAATATAATT
114115826 AAAATATATACATA
1 AAAA-A-ATACATA
114115840 AGATAACATG
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
24 5 0.15
25 21 0.64
26 7 0.21
ACGTcount: A:0.59, C:0.06, G:0.05, T:0.30
Consensus pattern (24 bp):
AAAAAATACATACATAATATAATT
Found at i:114115908 original size:25 final size:25
Alignment explanation
Indices: 114115872--114115992 Score: 99
Period size: 25 Copynumber: 5.0 Consensus size: 25
114115862 ATATATATAT
*
114115872 ATATATAAATAATATAGTATTAAAG
1 ATATATACATAATATAGTATTAAAG
* *
114115897 ATATATACATAAAATAGTA-TAATAT
1 ATATATACATAATATAGTATTAA-AG
* * *
114115922 ATATATACGTAATATAGAATT-TAG
1 ATATATACATAATATAGTATTAAAG
* *
114115946 A-ATATACCTAATATA-T-TAAAAG
1 ATATATACATAATATAGTATTAAAG
* *
114115968 AATATATATATAATATAATATTAAA
1 -ATATATACATAATATAGTATTAAA
114115993 AAATAATAAT
Statistics
Matches: 74, Mismatches: 15, Indels: 13
0.73 0.15 0.13
Matches are distributed among these distances:
21 1 0.01
22 2 0.03
23 14 0.19
24 17 0.23
25 35 0.47
26 5 0.07
ACGTcount: A:0.55, C:0.03, G:0.06, T:0.36
Consensus pattern (25 bp):
ATATATACATAATATAGTATTAAAG
Found at i:114116323 original size:16 final size:16
Alignment explanation
Indices: 114116285--114116323 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
114116275 TCCAAAAAAA
*
114116285 AAAAACTAGCCTCTCC
1 AAAAACTAGCCTCTAC
*
114116301 AAAAACTAGCCTTTAC
1 AAAAACTAGCCTCTAC
*
114116317 AATAACT
1 AAAAACT
114116324 CTTCTCCTTG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.44, C:0.28, G:0.05, T:0.23
Consensus pattern (16 bp):
AAAAACTAGCCTCTAC
Found at i:114116610 original size:30 final size:30
Alignment explanation
Indices: 114116483--114116601 Score: 211
Period size: 30 Copynumber: 4.0 Consensus size: 30
114116473 AGGTACAAGT
* *
114116483 GGTGGTAGAGCAAGTGTGGCTAATGGAGTA
1 GGTGGTGGAGCAAGTGTGGCTAGTGGAGTA
114116513 GGTGGTGGAGCAAGTGTGGCTAGTGGAGTA
1 GGTGGTGGAGCAAGTGTGGCTAGTGGAGTA
*
114116543 GGTGGTGGAGCAAGTGTGGCTAGTGGAGTT
1 GGTGGTGGAGCAAGTGTGGCTAGTGGAGTA
114116573 GGTGGTGGAGCAAGTGTGGCTAGTGGAGT
1 GGTGGTGGAGCAAGTGTGGCTAGTGGAGT
114116602 TACTGGTGGC
Statistics
Matches: 86, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 86 1.00
ACGTcount: A:0.20, C:0.07, G:0.49, T:0.24
Consensus pattern (30 bp):
GGTGGTGGAGCAAGTGTGGCTAGTGGAGTA
Found at i:114117384 original size:87 final size:87
Alignment explanation
Indices: 114117189--114117416 Score: 248
Period size: 87 Copynumber: 2.6 Consensus size: 87
114117179 TTATTCTTTA
* * * * *
114117189 CTCGGCATGTGATCCTGA-GCTTAACTCATTTCTCGCAATATGAATTGACTCTTTAAAACTAAAC
1 CTCGGCATGTGA-CCCGAGGCTCAACTCACTTCTCGCAATATGAGTTGA-TTTTTAAAACTAAAC
*
114117253 ATTAAAAACAGAAATTGAAAATAG
64 ATTAAAAACAGAAATTGAAAATAC
* * * *
114117277 CTCAGCACGTGAGCCAAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTAAAAC-AAA-AT
1 CTCGGCATGTGACCCGAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTAAAACTAAACA-
* *
114117340 TTGTAAAACA-AATTTTGAAAATAC
65 TT-AAAAACAGAA-ATTGAAAATAC
* * *
114117364 CTCGGTATGTGACCCGAGGCTCAACTCACCTCTCGTAATATGAGTTGATTTTT
1 CTCGGCATGTGACCCGAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTT
114117417 GCAAAGCATA
Statistics
Matches: 117, Mismatches: 19, Indels: 9
0.81 0.13 0.06
Matches are distributed among these distances:
85 1 0.01
86 7 0.06
87 72 0.62
88 37 0.32
ACGTcount: A:0.34, C:0.20, G:0.15, T:0.30
Consensus pattern (87 bp):
CTCGGCATGTGACCCGAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTAAAACTAAACAT
TAAAAACAGAAATTGAAAATAC
Found at i:114117557 original size:13 final size:14
Alignment explanation
Indices: 114117525--114117557 Score: 57
Period size: 14 Copynumber: 2.4 Consensus size: 14
114117515 GATTTTTTTG
114117525 GAAAAACAAAATTT
1 GAAAAACAAAATTT
*
114117539 GAAAAACAGAATTT
1 GAAAAACAAAATTT
114117553 GAAAA
1 GAAAA
114117558 TACCTCAGCG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.64, C:0.06, G:0.12, T:0.18
Consensus pattern (14 bp):
GAAAAACAAAATTT
Found at i:114117588 original size:90 final size:88
Alignment explanation
Indices: 114117459--114117720 Score: 318
Period size: 90 Copynumber: 3.0 Consensus size: 88
114117449 AATAAAAATC
* *
114117459 AATTGAAAATACCTCGGCGTGTGATCTGAGGCTCAACTCACCTCTCGC-A-ATGAGTTGATTTTT
1 AATTGAAAATACCTCAGCGTGTGATC-GAGGCTCAACTCACCTCTCGCAATATGAGCTGATTTTT
114117522 TTGGAAAAACAAAATTTGAAAAACAG
65 TT-GAAAAACAAAA-TTGAAAAACAG
* * *
114117548 AATTTGAAAATACCTCAGCGTGTGAGTCAAGGCTCAACTCACCACTCGCAATATAAGCTGATTTT
1 AA-TTGAAAATACCTCAGCGTGTGA-TCGAGGCTCAACTCACCTCTCGCAATATGAGCTGATTTT
* *
114117613 TTTGAAACACAAAAATTGAAGAACAG
64 TTTGAAAAAC-AAAATTGAAAAACAG
* * * *
114117639 AAATGAAAACACCTCAGCGTCT--T-GAGGTTCAACTCACCTCTCGCAATATGAGCTGATTTTTT
1 AATTGAAAATACCTCAGCGTGTGATCGAGGCTCAACTCACCTCTCGCAATATGAGCTGATTTTTT
*
114117701 TGAAAGACAGAAATTGAAAA
66 TGAAAAACA-AAATTGAAAA
114117721 TACCTCAACG
Statistics
Matches: 151, Mismatches: 16, Indels: 15
0.83 0.09 0.08
Matches are distributed among these distances:
85 1 0.01
86 51 0.34
87 1 0.01
89 2 0.01
90 57 0.38
91 21 0.14
92 18 0.12
ACGTcount: A:0.37, C:0.19, G:0.18, T:0.27
Consensus pattern (88 bp):
AATTGAAAATACCTCAGCGTGTGATCGAGGCTCAACTCACCTCTCGCAATATGAGCTGATTTTTT
TGAAAAACAAAATTGAAAAACAG
Found at i:114117693 original size:86 final size:88
Alignment explanation
Indices: 114117485--114117720 Score: 291
Period size: 86 Copynumber: 2.7 Consensus size: 88
114117475 GCGTGTGATC
* *
114117485 TGAGGCTCAACTCACCTCTCGC-A-ATGAGTTGATTTTTTTGGAAAAACAAAATTTGAAAAACAG
1 TGAGGCTCAACTCACCTCTCGCAATATGAGCTGATTTTTTT-GAAAAACAAAAATTGAAAAACAG
* * *
114117548 AATTTGAAAATACCTCAGCGTGTGAG
65 AATATGAAAACACCTCAGCGTCT--G
* * * * *
114117574 TCAAGGCTCAACTCACCACTCGCAATATAAGCTGATTTTTTTGAAACACAAAAATTGAAGAACAG
1 T-GAGGCTCAACTCACCTCTCGCAATATGAGCTGATTTTTTTGAAAAACAAAAATTGAAAAACAG
114117639 AA-ATGAAAACACCTCAGCGTCT-
65 AATATGAAAACACCTCAGCGTCTG
* * *
114117661 TGAGGTTCAACTCACCTCTCGCAATATGAGCTGATTTTTTTGAAAGACAGAAATTGAAAA
1 TGAGGCTCAACTCACCTCTCGCAATATGAGCTGATTTTTTTGAAAAACAAAAATTGAAAA
114117721 TACCTCAACG
Statistics
Matches: 127, Mismatches: 17, Indels: 9
0.83 0.11 0.06
Matches are distributed among these distances:
86 52 0.41
87 1 0.01
89 1 0.01
90 36 0.28
91 23 0.18
92 14 0.11
ACGTcount: A:0.37, C:0.19, G:0.17, T:0.27
Consensus pattern (88 bp):
TGAGGCTCAACTCACCTCTCGCAATATGAGCTGATTTTTTTGAAAAACAAAAATTGAAAAACAGA
ATATGAAAACACCTCAGCGTCTG
Found at i:114117748 original size:75 final size:74
Alignment explanation
Indices: 114117628--114118580 Score: 1314
Period size: 75 Copynumber: 13.1 Consensus size: 74
114117618 AACACAAAAA
* * *
114117628 TTGAAGAACAGAAA-TGAAAACACCTC-A-GCGTCTTGAGGTTCAACTCACCTCTCGCAATATGA
1 TTGAA-AACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGA
*
114117690 GCTGATTTTT
65 GTTGATTTTT
114117700 TTGAAAGACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGA
1 TTGAAA-ACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGA
114117765 GTTGA-TTTT
65 GTTGATTTTT
* * * *
114117774 TTGACAAACAAAAATTGAAATTACCTC-AC--GTCTTGAGGTTCAACTCACCTATCGCAATATGA
1 TTGA-AAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGA
114117836 GTTGATTTTT
65 GTTGATTTTT
*
114117846 TTGAAAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGTTCAACTCACCTCTCGCAATATGA
1 TTG-AAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGA
*
114117911 GCTGATTTTT
65 GTTGATTTTT
114117921 TT-AAAGACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGA
1 TTGAAA-ACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGA
114117985 GTTGA--TTT
65 GTTGATTTTT
* * *
114117993 TTGACAAACAAAAATTGAAATTACCTCAGCGTGTC-TGAGGCTCAACTCACCTCTCGCAATATGA
1 TTGA-AAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGA
114118057 GTTGATTTTT
65 GTTGATTTTT
114118067 TTGAAAACAGAAATT-AAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCT-GCAATATGAG
1 TTGAAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAG
114118130 TTGA--TTT
66 TTGATTTTT
* * * * *
114118137 TTGACAAACAAAAATTGAAATTACCTC-A-GCGTCTTGAGGTTCAACTCACCTATCGCAATATGA
1 TTGA-AAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGA
114118200 GTTGATTTTT
65 GTTGATTTTT
*
114118210 TTGAAAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGTTCAACTCACCTCTCGCAATATGA
1 TTG-AAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGA
*
114118275 GCTGATTTTT
65 GTTGATTTTT
*
114118285 TTTAAAGACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGA
1 TTGAAA-ACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGA
114118350 GTTGA--TTT
65 GTTGATTTTT
* * * *
114118358 TTGACAAACAAAAATTGAAATTACCTC-A-GTGTCCTGAGGCTCAACTCACCTATCGCAATATGA
1 TTGA-AAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGA
114118421 GTTGATTTTT
65 GTTGATTTTT
*
114118431 TTGAAAAACAG-AA---AAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTTGCAATATGA
1 TTG-AAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGA
*
114118492 GTTGA--GTT
65 GTTGATTTTT
* * * *
114118500 TTGACAAACAAAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCA-CTCTCGCAATATGA
1 TTGA-AAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGA
114118564 GTTGATTTTT
65 GTTGATTTTT
*
114118574 TTAAAAA
1 TTGAAAA
114118581 AATTGAAAAA
Statistics
Matches: 792, Mismatches: 51, Indels: 75
0.86 0.06 0.08
Matches are distributed among these distances:
68 1 0.00
69 19 0.02
70 32 0.04
71 137 0.17
72 138 0.17
73 168 0.21
74 110 0.14
75 187 0.24
ACGTcount: A:0.33, C:0.20, G:0.16, T:0.30
Consensus pattern (74 bp):
TTGAAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAG
TTGATTTTT
Found at i:114117920 original size:146 final size:147
Alignment explanation
Indices: 114117634--114118655 Score: 1350
Period size: 146 Copynumber: 7.0 Consensus size: 147
114117624 AAAATTGAAG
* * * *
114117634 AACAGAAA-TGAAAACACCTCA-GCGTCTTGAGGTTCAACTCACCTCTCGCAATATGAGCTGATT
1 AACAAAAATTGAAAATACCTCACG-GTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATT
*
114117697 TTTTTGAAAGACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATA
65 TTTTTGAAAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATA
114117762 TGAGTTGATTTTTTGACA
130 TGAGTTGATTTTTTGACA
* * *
114117780 AACAAAAATTGAAATTACCTCAC-GTCTTGAGGTTCAACTCACCTATCGCAATATGAGTTGATTT
1 AACAAAAATTGAAAATACCTCACGGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTT
*
114117844 TTTTGAAAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGTTCAACTCACCTCTCGCAATAT
66 TTTTGAAAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATAT
* *
114117909 GAGCTGATTTTTTTA-A
131 GAGTTGATTTTTTGACA
*
114117925 AGACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA
1 A-ACAAAAATTGAAAATACCTC-ACG-GTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA
* * * *
114117990 --TTTTTGACAAACAAAAATTGAAATTACCTCAGCGTGTC-TGAGGCTCAACTCACCTCTCGCAA
63 TTTTTTTGAAAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAA
114118052 TATGAGTTGATTTTTTTGA-A
128 TATGAGTTGA-TTTTTTGACA
*
114118072 AACAGAAATT-AAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCT-GCAATATGAGTTGA-
1 AACAAAAATTGAAAATACCTC-ACG-GTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAT
* * * * * *
114118134 -TTTTTGACAAACAAAAATTGAAATTACCTC-A-GCGTCTTGAGGTTCAACTCACCTATCGCAAT
64 TTTTTTGAAAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAAT
*
114118196 ATGAGTTGATTTTTTTGAAA
129 ATGAGTTGA-TTTTTTGACA
* * *
114118216 AACAGAAATTGAAAATACCTCAACGTGTCTTGAGGTTCAACTCACCTCTCGCAATATGAGCTGAT
1 AACAAAAATTGAAAATACCTC-ACG-GTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAT
* *
114118281 TTTTTTTAAAGACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAAT
64 TTTTTTGAAAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAAT
114118346 ATGAGTTGA-TTTTTGACA
129 ATGAGTTGATTTTTTGACA
* * *
114118364 AACAAAAATTGAAATTACCTCA-GTGTCCTGAGGCTCAACTCACCTATCGCAATATGAGTTGATT
1 AACAAAAATTGAAAATACCTCACG-GTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATT
*
114118428 TTTTTGAAAAACAG-AA---AAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTTGCAATA
65 TTTTTGAAAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATA
*
114118489 TGAGTTGA-GTTTTGACA
130 TGAGTTGATTTTTTGACA
* *
114118506 AACAAAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCA-CTCTCGCAATATGAGTTGAT
1 AACAAAAATTGAAAATACCTCA-CG-GTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-
* *
114118570 TTTTTTAAAAAAATTGAAAAACAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACC
63 -TTTTT-------TTGAAAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACC
114118635 TCTCGCAATATGAGTTGATTT
120 TCTCGCAATATGAGTTGATTT
114118656 GAAAAGCAGA
Statistics
Matches: 795, Mismatches: 50, Indels: 51
0.89 0.06 0.06
Matches are distributed among these distances:
142 86 0.11
143 59 0.07
144 75 0.09
145 84 0.11
146 244 0.31
147 57 0.07
148 52 0.07
149 37 0.05
150 37 0.05
152 11 0.01
153 2 0.00
156 50 0.06
157 1 0.00
ACGTcount: A:0.33, C:0.21, G:0.16, T:0.30
Consensus pattern (147 bp):
AACAAAAATTGAAAATACCTCACGGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTT
TTTTGAAAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATAT
GAGTTGATTTTTTGACA
Found at i:114118397 original size:364 final size:364
Alignment explanation
Indices: 114117649--114118655 Score: 1677
Period size: 364 Copynumber: 2.7 Consensus size: 364
114117639 AAATGAAAAC
* * * *
114117649 ACCTCAGCGTCTTGAGGTTCAACTCACCTCTCGCAATATGAGCTGATTTTTTTGAAAGACAGAAA
1 ACCTCAGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAA-ACAGAAA
114117714 TTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAC
65 TT-AAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCT-GCAATATGAGTTGA-TTTTTGAC
114117779 AAACAAAAATTGAAATTACCTCA-CGTCTTGAGGTTCAACTCACCTATCGCAATATGAGTTGATT
127 AAACAAAAATTGAAATTACCTCAGCGTCTTGAGGTTCAACTCACCTATCGCAATATGAGTTGATT
114117843 TTTTTGAAAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGTTCAACTCACCTCTCGCAATA
192 TTTTTGAAAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGTTCAACTCACCTCTCGCAATA
114117908 TGAGCTGA-TTTTTTTAAAGACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACC
257 TGAGCTGATTTTTTTTAAAGACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACC
114117972 TCTCGCAATATGAGTTGATTTTTGACAAACAAAAATTGAAATT
322 TCTCGCAATATGAGTTGATTTTTGACAAACAAAAATTGAAATT
114118015 ACCTCAGCGTGT-CTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAACAGAA
1 ACCTCA--GTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAACAGAA
114118079 ATTAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTGCAATATGAGTTGATTTTTGACAA
64 ATTAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTGCAATATGAGTTGATTTTTGACAA
114118144 ACAAAAATTGAAATTACCTCAGCGTCTTGAGGTTCAACTCACCTATCGCAATATGAGTTGATTTT
129 ACAAAAATTGAAATTACCTCAGCGTCTTGAGGTTCAACTCACCTATCGCAATATGAGTTGATTTT
114118209 TTTGAAAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGTTCAACTCACCTCTCGCAATATG
194 TTTGAAAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGTTCAACTCACCTCTCGCAATATG
114118274 AGCTGATTTTTTTTAAAGACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTC
259 AGCTGATTTTTTTTAAAGACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTC
114118339 TCGCAATATGAGTTGATTTTTGACAAACAAAAATTGAAATT
324 TCGCAATATGAGTTGATTTTTGACAAACAAAAATTGAAATT
*
114118380 ACCTCAGTGTCCTGAGGCTCAACTCACCTATCGCAATATGAGTTGATTTTTTTGAAAAACAG-AA
1 ACCTCAGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTG-AAAACAGAAA
*
114118444 --AAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTTGCAATATGAGTTGAGTTTTGACAA
65 TTAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTC-TGCAATATGAGTTGATTTTTGACAA
* * *
114118507 ACAAAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCA-CTCTCGCAATATGAGTTGATT
129 ACAAAAATTGAAATTACCTCAGC--GTCTTGAGGTTCAACTCACCTATCGCAATATGAGTTGA--
* * *
114118571 TTTTTAAAAAAATTGAAAAACAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCT
190 TTTTT-------TTGAAAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGTTCAACTCACCT
*
114118636 CTCGCAATATGAGTTGATTT
248 CTCGCAATATGAGCTGATTT
114118656 GAAAAGCAGA
Statistics
Matches: 610, Mismatches: 13, Indels: 29
0.94 0.02 0.04
Matches are distributed among these distances:
362 37 0.06
363 82 0.13
364 190 0.31
365 166 0.27
366 20 0.03
367 43 0.07
368 3 0.00
373 69 0.11
ACGTcount: A:0.33, C:0.21, G:0.16, T:0.30
Consensus pattern (364 bp):
ACCTCAGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAACAGAAAT
TAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTGCAATATGAGTTGATTTTTGACAAAC
AAAAATTGAAATTACCTCAGCGTCTTGAGGTTCAACTCACCTATCGCAATATGAGTTGATTTTTT
TGAAAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGTTCAACTCACCTCTCGCAATATGAG
CTGATTTTTTTTAAAGACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTC
GCAATATGAGTTGATTTTTGACAAACAAAAATTGAAATT
Found at i:114118601 original size:83 final size:84
Alignment explanation
Indices: 114118500--114118655 Score: 278
Period size: 83 Copynumber: 1.9 Consensus size: 84
114118490 GAGTTGAGTT
* *
114118500 TTGACAAACAAAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCA-CTCTCGCAATATGA
1 TTGAAAAACAAAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGA
114118564 GTTGATTTTTTTAAAAAAA
66 GTTGATTTTTTTAAAAAAA
*
114118583 TTGAAAAACAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGA
1 TTGAAAAACAAAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGA
114118648 GTTGATTT
66 GTTGATTT
114118656 GAAAAGCAGA
Statistics
Matches: 69, Mismatches: 3, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
83 47 0.68
84 22 0.32
ACGTcount: A:0.35, C:0.21, G:0.16, T:0.29
Consensus pattern (84 bp):
TTGAAAAACAAAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGA
GTTGATTTTTTTAAAAAAA
Found at i:114118749 original size:99 final size:98
Alignment explanation
Indices: 114118578--114118888 Score: 446
Period size: 99 Copynumber: 3.1 Consensus size: 98
114118568 ATTTTTTTAA
*
114118578 AAAAATTGAAAAACAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAA
1 AAAAATTGAAAAACAGAAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAA
* * *
114118643 TATGAGTTGA-TTTGAAAAGCAGAATTTGTAAGGC
66 TATGAGTTGATTTTGAAAAGCA-AAATT-AAAAGC
114118677 AAAAATTGAAAAACAGAAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAA
1 AAAAATTGAAAAACAGAAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAA
*
114118742 TATGAGTTGATTTTTGAAAAACAAAATTAAAAGC
66 TATGAGTTGA-TTTTGAAAAGCAAAATTAAAAGC
* * * * *
114118776 AGAAATTGAAAAACAGAAATTAAAAATACCTCGGCGTGCCCCGAGGCTCAGCTCACCTCTCGCAA
1 AAAAATTGAAAAACAGAAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAA
*
114118841 TATGAGTTGATTTTTGAAAAGCATAAATTGAAAA-A
66 TATGAGTTGA-TTTTGAAAAGCA-AAATT-AAAAGC
114118876 ACAAAATTGAAAA
1 A-AAAATTGAAAA
114118889 TACCTCAGCG
Statistics
Matches: 194, Mismatches: 13, Indels: 8
0.90 0.06 0.04
Matches are distributed among these distances:
99 160 0.82
100 10 0.05
101 24 0.12
ACGTcount: A:0.41, C:0.18, G:0.17, T:0.23
Consensus pattern (98 bp):
AAAAATTGAAAAACAGAAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAA
TATGAGTTGATTTTGAAAAGCAAAATTAAAAGC
Found at i:114118800 original size:13 final size:13
Alignment explanation
Indices: 114118758--114118801 Score: 63
Period size: 14 Copynumber: 3.4 Consensus size: 13
114118748 TTGATTTTTG
114118758 AAAAACA-AAATT
1 AAAAACAGAAATT
*
114118770 AAAAGCAGAAATT
1 AAAAACAGAAATT
114118783 GAAAAACAGAAATT
1 -AAAAACAGAAATT
114118797 AAAAA
1 AAAAA
114118802 TACCTCGGCG
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
12 6 0.21
13 10 0.36
14 12 0.43
ACGTcount: A:0.70, C:0.07, G:0.09, T:0.14
Consensus pattern (13 bp):
AAAAACAGAAATT
Found at i:114118964 original size:89 final size:87
Alignment explanation
Indices: 114118770--114118944 Score: 235
Period size: 89 Copynumber: 2.0 Consensus size: 87
114118760 AAACAAAATT
* * * * *
114118770 AAAAGCAGAAATTG-AAAAACAGAAATTAAAAATACCTCGGCGTGCCCCGAGGCTCAGCTCACCT
1 AAAAGCATAAAATGAAAAAACA-AAATTAAAAATACCTCGGCGTGACCCGAGGCCCAACTCACCT
114118834 CTCGCAATATGAGTTGATTTTTG
65 CTCGCAATATGAGTTGATTTTTG
* * * *
114118857 AAAAGCATAAATTGAAAAAACAAAATTGAAAATACCTCAGCGTGTGACCTGAGGCCCAACTCACC
1 AAAAGCATAAAATGAAAAAACAAAATTAAAAATACCTC-G-GCGTGACCCGAGGCCCAACTCACC
114118922 TCTCGCAATATGAGTTGATTTTT
64 TCTCGCAATATGAGTTGATTTTT
114118945 TTGAAAGATA
Statistics
Matches: 78, Mismatches: 7, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
87 28 0.36
88 8 0.10
89 42 0.54
ACGTcount: A:0.37, C:0.21, G:0.18, T:0.24
Consensus pattern (87 bp):
AAAAGCATAAAATGAAAAAACAAAATTAAAAATACCTCGGCGTGACCCGAGGCCCAACTCACCTC
TCGCAATATGAGTTGATTTTTG
Found at i:114119824 original size:12 final size:12
Alignment explanation
Indices: 114119807--114119839 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
114119797 CCCTCTCTCT
114119807 TTTTCTTTTTTC
1 TTTTCTTTTTTC
*
114119819 TTTTCTTTTCTC
1 TTTTCTTTTTTC
114119831 TTTT-TTTTT
1 TTTTCTTTTT
114119840 AAGATGCCCT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
11 4 0.21
12 15 0.79
ACGTcount: A:0.00, C:0.15, G:0.00, T:0.85
Consensus pattern (12 bp):
TTTTCTTTTTTC
Found at i:114119829 original size:17 final size:17
Alignment explanation
Indices: 114119807--114119839 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
114119797 CCCTCTCTCT
114119807 TTTTCT-TTTTTCTTTTC
1 TTTTCTCTTTTT-TTTTC
114119824 TTTTCTCTTTTTTTTT
1 TTTTCTCTTTTTTTTT
114119840 AAGATGCCCT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
17 10 0.67
18 5 0.33
ACGTcount: A:0.00, C:0.15, G:0.00, T:0.85
Consensus pattern (17 bp):
TTTTCTCTTTTTTTTTC
Found at i:114130909 original size:25 final size:23
Alignment explanation
Indices: 114130857--114130911 Score: 58
Period size: 25 Copynumber: 2.3 Consensus size: 23
114130847 ATTTATAAAT
114130857 AATAGTGTTAGAAATATACTATA
1 AATAGTGTTAGAAATATACTATA
* *
114130880 TATAGTGTTTGAAGTATATAC-ATAA
1 AATAGTGTTAGAA--ATATACTAT-A
114130905 AATAGTG
1 AATAGTG
114130912 AAAATATAAC
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
23 11 0.42
24 2 0.08
25 13 0.50
ACGTcount: A:0.44, C:0.04, G:0.16, T:0.36
Consensus pattern (23 bp):
AATAGTGTTAGAAATATACTATA
Found at i:114131033 original size:20 final size:19
Alignment explanation
Indices: 114130983--114131038 Score: 58
Period size: 19 Copynumber: 2.8 Consensus size: 19
114130973 AAAAAATATG
*
114130983 TACATAATATAGTGTAAAAAA
1 TACATAATA-AG-ATAAAAAA
*
114131004 TACATAATAATATAAAAAA
1 TACATAATAAGATAAAAAA
*
114131023 TATATACATAAGATAA
1 TACATA-ATAAGATAA
114131039 CATGTAGAAA
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
19 12 0.40
20 9 0.30
21 9 0.30
ACGTcount: A:0.61, C:0.05, G:0.05, T:0.29
Consensus pattern (19 bp):
TACATAATAAGATAAAAAA
Found at i:114131056 original size:29 final size:29
Alignment explanation
Indices: 114131017--114131092 Score: 82
Period size: 29 Copynumber: 2.6 Consensus size: 29
114131007 ATAATAATAT
114131017 AAAAAATATATACATAAGATAACAT-GTAG
1 AAAAAATATATACATAA-ATAACATAGTAG
* * * *
114131046 AAAATATATATATATAAATAATATAGTAT
1 AAAAAATATATACATAAATAACATAGTAG
* *
114131075 TAAAGATATATACATAAA
1 AAAAAATATATACATAAA
114131093 ATAGTATAAT
Statistics
Matches: 39, Mismatches: 7, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
28 6 0.15
29 33 0.85
ACGTcount: A:0.59, C:0.04, G:0.07, T:0.30
Consensus pattern (29 bp):
AAAAAATATATACATAAATAACATAGTAG
Found at i:114131061 original size:44 final size:43
Alignment explanation
Indices: 114130967--114131070 Score: 111
Period size: 44 Copynumber: 2.4 Consensus size: 43
114130957 TATGAAATAG
* * * *
114130967 ATATAAAAAAAATATGTACATAATATAGTGTAAAAAATACATA
1 ATATATAAAAAATATATACATAAGATAATGTAAAAAATACATA
* *
114131010 ATAATATAAAAAATATATACATAAGATAACATGTAGAAAATATAT-
1 AT-ATATAAAAAATATATACATAAGAT-A-ATGTAAAAAATACATA
*
114131055 ATATATAAATAATATA
1 ATATATAAAAAATATA
114131071 GTATTAAAGA
Statistics
Matches: 51, Mismatches: 7, Indels: 5
0.81 0.11 0.08
Matches are distributed among these distances:
43 2 0.04
44 34 0.67
45 3 0.06
46 12 0.24
ACGTcount: A:0.61, C:0.04, G:0.06, T:0.30
Consensus pattern (43 bp):
ATATATAAAAAATATATACATAAGATAATGTAAAAAATACATA
Found at i:114131078 original size:15 final size:14
Alignment explanation
Indices: 114131047--114131111 Score: 55
Period size: 14 Copynumber: 4.6 Consensus size: 14
114131037 AACATGTAGA
114131047 AAATATATATATAT
1 AAATATATATATAT
114131061 AAATA-ATATAGTATT
1 AAATATATATA-TA-T
* *
114131076 AAAGATATATACAT
1 AAATATATATATAT
114131090 AAA-ATAGTATA-AT
1 AAATATA-TATATAT
*
114131103 ATATATATA
1 AAATATATA
114131112 CGTAATATAG
Statistics
Matches: 43, Mismatches: 3, Indels: 11
0.75 0.05 0.19
Matches are distributed among these distances:
13 14 0.33
14 18 0.42
15 6 0.14
16 5 0.12
ACGTcount: A:0.57, C:0.02, G:0.05, T:0.37
Consensus pattern (14 bp):
AAATATATATATAT
Found at i:114131083 original size:25 final size:25
Alignment explanation
Indices: 114131055--114131186 Score: 100
Period size: 25 Copynumber: 5.6 Consensus size: 25
114131045 GAAAATATAT
*
114131055 ATATATAAATAATATAGTATTAAAG
1 ATATATACATAATATAGTATTAAAG
* *
114131080 ATATATACATAAAATAGTA-TAATAT
1 ATATATACATAATATAGTATTAA-AG
* * *
114131105 ATATATACGTAATATAGAATT-TAG
1 ATATATACATAATATAGTATTAAAG
* *
114131129 A-ATATACCTAATATA-T-TAAAAG
1 ATATATACATAATATAGTATTAAAG
* *
114131151 A-ATATATATAATATAATATTAAA-
1 ATATATACATAATATAGTATTAAAG
*
114131174 AAATATA-ATAATA
1 ATATATACATAATA
114131187 ACAAAAAAAA
Statistics
Matches: 86, Mismatches: 15, Indels: 14
0.75 0.13 0.12
Matches are distributed among these distances:
21 1 0.01
22 15 0.17
23 21 0.24
24 14 0.16
25 34 0.40
26 1 0.01
ACGTcount: A:0.56, C:0.03, G:0.05, T:0.36
Consensus pattern (25 bp):
ATATATACATAATATAGTATTAAAG
Found at i:114131109 original size:50 final size:48
Alignment explanation
Indices: 114131051--114131169 Score: 121
Period size: 50 Copynumber: 2.4 Consensus size: 48
114131041 TGTAGAAAAT
* *
114131051 ATATATATATAAATAATATAGTATTAAAGATATATACATAAAATAGTATA
1 ATATATATATAAATAATATAGAATT-AAGA-ATATACATAAAATAGTAAA
** * * * *
114131101 ATATATATATACGTAATATAGAATTTAGAATATACCTAATATATTAAA
1 ATATATATATAAATAATATAGAATTAAGAATATACATAAAATAGTAAA
*
114131149 AGAATATATATAATATAATAT
1 A-TATATATATAA-ATAATAT
114131170 TAAAAAATAT
Statistics
Matches: 56, Mismatches: 11, Indels: 4
0.79 0.15 0.06
Matches are distributed among these distances:
48 16 0.29
49 12 0.21
50 28 0.50
ACGTcount: A:0.54, C:0.03, G:0.06, T:0.37
Consensus pattern (48 bp):
ATATATATATAAATAATATAGAATTAAGAATATACATAAAATAGTAAA
Found at i:114131714 original size:30 final size:30
Alignment explanation
Indices: 114131679--114131817 Score: 159
Period size: 30 Copynumber: 4.9 Consensus size: 30
114131669 GTGGTAGAAT
*
114131679 AAGTGTGGCTAATGGAGTAGATGGTGGAGC
1 AAGTGTGGCTAATGGAGTAGGTGGTGGAGC
*
114131709 AAGTGTGG---A-GCA--A-GT-GTGGAGC
1 AAGTGTGGCTAATGGAGTAGGTGGTGGAGC
114131731 AAGTGTGGCTAATGGAGTAGGTGGTGGAGC
1 AAGTGTGGCTAATGGAGTAGGTGGTGGAGC
* * *
114131761 AAGTGTAGCTAGTGGAGTTGGTGGTGGAGC
1 AAGTGTGGCTAATGGAGTAGGTGGTGGAGC
* *
114131791 AAGTGTGGCTAGTGGAGTTGGTGGTGG
1 AAGTGTGGCTAATGGAGTAGGTGGTGG
114131818 CAAAGGCTAG
Statistics
Matches: 94, Mismatches: 7, Indels: 16
0.80 0.06 0.14
Matches are distributed among these distances:
22 15 0.16
23 1 0.01
24 1 0.01
25 1 0.01
26 4 0.04
27 1 0.01
28 1 0.01
29 2 0.02
30 68 0.72
ACGTcount: A:0.22, C:0.06, G:0.47, T:0.24
Consensus pattern (30 bp):
AAGTGTGGCTAATGGAGTAGGTGGTGGAGC
Found at i:114131718 original size:11 final size:11
Alignment explanation
Indices: 114131702--114131738 Score: 74
Period size: 11 Copynumber: 3.4 Consensus size: 11
114131692 GGAGTAGATG
114131702 GTGGAGCAAGT
1 GTGGAGCAAGT
114131713 GTGGAGCAAGT
1 GTGGAGCAAGT
114131724 GTGGAGCAAGT
1 GTGGAGCAAGT
114131735 GTGG
1 GTGG
114131739 CTAATGGAGT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 26 1.00
ACGTcount: A:0.24, C:0.08, G:0.49, T:0.19
Consensus pattern (11 bp):
GTGGAGCAAGT
Found at i:114132016 original size:3 final size:3
Alignment explanation
Indices: 114131990--114132079 Score: 69
Period size: 3 Copynumber: 30.7 Consensus size: 3
114131980 GCCTAGAACA
* * * * * * *
114131990 ATT AAT ATT CTT ATT ATG ACT ATT ATT ATT ATC GTT AGT ATT ATT A-T
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
* *
114132037 ATT -TT ACT ACT ATT ATT ATT ATT -TAT ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT AT-T ATT ATT ATT ATT ATT AT
114132080 CGTTTTCGTT
Statistics
Matches: 67, Mismatches: 16, Indels: 8
0.74 0.18 0.09
Matches are distributed among these distances:
2 5 0.07
3 61 0.91
4 1 0.01
ACGTcount: A:0.32, C:0.06, G:0.03, T:0.59
Consensus pattern (3 bp):
ATT
Found at i:114133207 original size:2 final size:2
Alignment explanation
Indices: 114133200--114133228 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
114133190 AATTTGCAAA
114133200 AT AT 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 AT AT A
114133229 GAGAGAGAGA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:114138730 original size:5 final size:5
Alignment explanation
Indices: 114138720--114138744 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
114138710 CAAAACTGTG
114138720 ATTTT ATTTT ATTTT ATTTT ATTTT
1 ATTTT ATTTT ATTTT ATTTT ATTTT
114138745 TAAAAAATAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (5 bp):
ATTTT
Found at i:114145392 original size:21 final size:21
Alignment explanation
Indices: 114145368--114145410 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
114145358 TACCTTTCTA
* *
114145368 AAGTTAAAAGTCAAAATCATT
1 AAGTTAAAAGGCAAAACCATT
*
114145389 AAGTTAAATGGCAAAACCATT
1 AAGTTAAAAGGCAAAACCATT
114145410 A
1 A
114145411 TATTGTTTAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.51, C:0.12, G:0.12, T:0.26
Consensus pattern (21 bp):
AAGTTAAAAGGCAAAACCATT
Found at i:114147725 original size:22 final size:22
Alignment explanation
Indices: 114147696--114147758 Score: 90
Period size: 22 Copynumber: 2.9 Consensus size: 22
114147686 GCAACCATGA
*
114147696 AGCAGCCCCATACATCCACTAC
1 AGCAGCCCCATACCTCCACTAC
* *
114147718 AGCGGCCCCATACCCCCACTAC
1 AGCAGCCCCATACCTCCACTAC
*
114147740 AGCAGTCCCATACCTCCAC
1 AGCAGCCCCATACCTCCAC
114147759 AGCCCTCGTA
Statistics
Matches: 35, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 35 1.00
ACGTcount: A:0.27, C:0.49, G:0.11, T:0.13
Consensus pattern (22 bp):
AGCAGCCCCATACCTCCACTAC
Found at i:114159649 original size:73 final size:73
Alignment explanation
Indices: 114159564--114159917 Score: 532
Period size: 73 Copynumber: 4.8 Consensus size: 73
114159554 TATTTCTGTT
* *
114159564 TCAAAATTCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGGCACGCTGAGGTATTTTCAATT
1 TCAAAAATCAACTCATACTGCGAGAGGTGAGTTGAGCCTCGGGGCACGCTGAGGTATTTTCAATT
114159629 ACTATTTG
66 ACTATTTG
* *
114159637 TCAAAAATCAACTCATACTGCGGGAAGTGAGTTGAGCCTCGGGGCACGCTGAGGTATTTTCAATT
1 TCAAAAATCAACTCATACTGCGAGAGGTGAGTTGAGCCTCGGGGCACGCTGAGGTATTTTCAATT
*
114159702 ACTGTTTG
66 ACTATTTG
* * *
114159710 TCAAAAATCAACTTATACTGCGGGAGGTGAGTTGAGCCTTGGGGCACGCTGAGGTATTTTCAATT
1 TCAAAAATCAACTCATACTGCGAGAGGTGAGTTGAGCCTCGGGGCACGCTGAGGTATTTTCAATT
114159775 AC-AGTTTG
66 ACTA-TTTG
*
114159783 TCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGGCACGCTGAGGTATTTTCAA
1 TC--AAAAATCAACTCATACTGCGAGAGGTGAGTTGAGCCTCGGGGCACGCTGAGGTATTTTCAA
*
114159848 TTACTGTTTG
64 TTACTATTTG
* * * * *
114159858 TC-AAAATCAACTCATACTGCAAGAGGTGAGTTGAGCCTCAGGACATGTTGAGGTATTTTC
1 TCAAAAATCAACTCATACTGCGAGAGGTGAGTTGAGCCTCGGGGCACGCTGAGGTATTTTC
114159918 GATTTCTGTT
Statistics
Matches: 257, Mismatches: 20, Indels: 9
0.90 0.07 0.03
Matches are distributed among these distances:
72 52 0.20
73 138 0.54
75 67 0.26
ACGTcount: A:0.27, C:0.18, G:0.25, T:0.30
Consensus pattern (73 bp):
TCAAAAATCAACTCATACTGCGAGAGGTGAGTTGAGCCTCGGGGCACGCTGAGGTATTTTCAATT
ACTATTTG
Found at i:114159861 original size:148 final size:146
Alignment explanation
Indices: 114159564--114159917 Score: 550
Period size: 148 Copynumber: 2.4 Consensus size: 146
114159554 TATTTCTGTT
* *
114159564 TCAAAATTCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGGCACGCTGAGGTATTTTCAATT
1 TCAAAAATCAACTCATACTGCGAGAGGTGAGTTGAGCCTCGGGGCACGCTGAGGTATTTTCAATT
*
114159629 ACTATTTGTCAAAAATCAACTCATACTGCGGGAAGTGAGTTGAGCCTCGGGGCACGCTGAGGTAT
66 ACTATTTGTCAAAAATCAACTCATACTGCGAGAAGTGAGTTGAGCCTCGGGGCACGCTGAGGTAT
114159694 TTTCAATTACTGTTTG
131 TTTCAATTACTGTTTG
* * *
114159710 TCAAAAATCAACTTATACTGCGGGAGGTGAGTTGAGCCTTGGGGCACGCTGAGGTATTTTCAATT
1 TCAAAAATCAACTCATACTGCGAGAGGTGAGTTGAGCCTCGGGGCACGCTGAGGTATTTTCAATT
* *
114159775 AC-AGTTTGTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGGCACGCTGAGG
66 ACTA-TTTGTC--AAAAATCAACTCATACTGCGAGAAGTGAGTTGAGCCTCGGGGCACGCTGAGG
114159839 TATTTTCAATTACTGTTTG
128 TATTTTCAATTACTGTTTG
* * * * *
114159858 TC-AAAATCAACTCATACTGCAAGAGGTGAGTTGAGCCTCAGGACATGTTGAGGTATTTTC
1 TCAAAAATCAACTCATACTGCGAGAGGTGAGTTGAGCCTCGGGGCACGCTGAGGTATTTTC
114159918 GATTTCTGTT
Statistics
Matches: 189, Mismatches: 16, Indels: 5
0.90 0.08 0.02
Matches are distributed among these distances:
145 1 0.01
146 68 0.36
147 50 0.26
148 70 0.37
ACGTcount: A:0.27, C:0.18, G:0.25, T:0.30
Consensus pattern (146 bp):
TCAAAAATCAACTCATACTGCGAGAGGTGAGTTGAGCCTCGGGGCACGCTGAGGTATTTTCAATT
ACTATTTGTCAAAAATCAACTCATACTGCGAGAAGTGAGTTGAGCCTCGGGGCACGCTGAGGTAT
TTTCAATTACTGTTTG
Found at i:114160035 original size:64 final size:64
Alignment explanation
Indices: 114159931--114160058 Score: 211
Period size: 64 Copynumber: 2.0 Consensus size: 64
114159921 TTCTGTTTTT
* *
114159931 CAATTTATGTTTTCAAAAATCAATTCATAGTGCTAAAGGTGAATTAAGCCTCGGGTCGCATAGC
1 CAATTTACGTTTTCAAAAATCAATTCATAGTGCTAAAGGTGAATTAAGCCTCGGGTCACATAGC
* * *
114159995 CAATTTACGTTTTCAAAAATCAATTCATATTGCTAGAGGTGAATTGAGCCTCGGGTCACATAGC
1 CAATTTACGTTTTCAAAAATCAATTCATAGTGCTAAAGGTGAATTAAGCCTCGGGTCACATAGC
114160059 GAGGTATTTT
Statistics
Matches: 59, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
64 59 1.00
ACGTcount: A:0.32, C:0.18, G:0.19, T:0.31
Consensus pattern (64 bp):
CAATTTACGTTTTCAAAAATCAATTCATAGTGCTAAAGGTGAATTAAGCCTCGGGTCACATAGC
Found at i:114160084 original size:73 final size:74
Alignment explanation
Indices: 114159995--114160145 Score: 207
Period size: 73 Copynumber: 2.1 Consensus size: 74
114159985 GTCGCATAGC
* * * *
114159995 CAATTTACGTTTTCAAAAATCAATTCATATTGCTAGAGGTGAATTGAGCCTCGGGTCACATAG-C
1 CAATTTACGTTTTCAAAAATCAACTCATATTGCGAGAGGTGAATTAAGCCTCAGGTCACAT-GCC
*
114160059 GAGGTATTTT
65 GAGGTATCTT
* * *
114160069 CAATTTATG-TTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTAAGCCTCAGGTCATATGCCG
1 CAATTTACGTTTTCAAAAATCAACTCATATTGCGAGAGGTGAATTAAGCCTCAGGTCACATGCCG
114160133 AGGTATCTT
66 AGGTATCTT
114160142 CAAT
1 CAAT
114160146 AAATGTTTTT
Statistics
Matches: 68, Mismatches: 8, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
72 1 0.01
73 59 0.87
74 8 0.12
ACGTcount: A:0.30, C:0.17, G:0.20, T:0.32
Consensus pattern (74 bp):
CAATTTACGTTTTCAAAAATCAACTCATATTGCGAGAGGTGAATTAAGCCTCAGGTCACATGCCG
AGGTATCTT
Found at i:114161138 original size:22 final size:22
Alignment explanation
Indices: 114161108--114161168 Score: 77
Period size: 22 Copynumber: 2.8 Consensus size: 22
114161098 AACCATGAAG
* *
114161108 CAGCCCCATACCTCCACTATAG
1 CAGCCCCATACCTCCACTACAA
* *
114161130 CGGCCCCATACCCCCACTACAA
1 CAGCCCCATACCTCCACTACAA
*
114161152 CAGTCCCATACCTCCAC
1 CAGCCCCATACCTCCAC
114161169 AGCCCTCGTA
Statistics
Matches: 32, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
22 32 1.00
ACGTcount: A:0.26, C:0.51, G:0.08, T:0.15
Consensus pattern (22 bp):
CAGCCCCATACCTCCACTACAA
Found at i:114163560 original size:2 final size:2
Alignment explanation
Indices: 114163553--114163583 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
114163543 TTATCAAGGT
114163553 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
114163584 TTGAAAGAAT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:114164861 original size:12 final size:12
Alignment explanation
Indices: 114164844--114164882 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
114164834 ATGACACAAA
114164844 AATAATAATAAC
1 AATAATAATAAC
*
114164856 AATAATAAGAAC
1 AATAATAATAAC
* *
114164868 AACAATGATAAC
1 AATAATAATAAC
114164880 AAT
1 AAT
114164883 GTGTAGAGGC
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
12 22 1.00
ACGTcount: A:0.64, C:0.10, G:0.05, T:0.21
Consensus pattern (12 bp):
AATAATAATAAC
Found at i:114168328 original size:27 final size:27
Alignment explanation
Indices: 114168272--114168333 Score: 81
Period size: 27 Copynumber: 2.3 Consensus size: 27
114168262 ATTTAACATG
* *
114168272 AATAACATATAAAACAATTTGAAATAA
1 AATAATATATAAAACAATTTCAAATAA
*
114168299 AATAATATATAAAGCAAATTTCAAAT-A
1 AATAATATATAAAAC-AATTTCAAATAA
114168326 AATAATAT
1 AATAATAT
114168334 GTTAAATAAA
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
27 22 0.71
28 9 0.29
ACGTcount: A:0.61, C:0.06, G:0.03, T:0.29
Consensus pattern (27 bp):
AATAATATATAAAACAATTTCAAATAA
Found at i:114168345 original size:27 final size:26
Alignment explanation
Indices: 114168262--114168333 Score: 74
Period size: 27 Copynumber: 2.7 Consensus size: 26
114168252 TATGAAAAAG
* * *
114168262 ATTTAACATGAATAACATATAAAAC-A
1 ATTTAA-ATAAATAATATATAAAGCAA
114168288 ATTTGAAATAAAATAATATATAAAGCAA
1 ATTT-AAAT-AAATAATATATAAAGCAA
114168316 ATTTCAAATAAATAATAT
1 ATTT-AAATAAATAATAT
114168334 GTTAAATAAA
Statistics
Matches: 39, Mismatches: 4, Indels: 5
0.81 0.08 0.10
Matches are distributed among these distances:
26 6 0.15
27 24 0.62
28 9 0.23
ACGTcount: A:0.58, C:0.07, G:0.04, T:0.31
Consensus pattern (26 bp):
ATTTAAATAAATAATATATAAAGCAA
Found at i:114168490 original size:15 final size:15
Alignment explanation
Indices: 114168470--114168499 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
114168460 AATCCAAAGT
*
114168470 AAAATTTTAAGATAA
1 AAAATTTTAAAATAA
114168485 AAAATTTTAAAATAA
1 AAAATTTTAAAATAA
114168500 GATAGGAAGT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.63, C:0.00, G:0.03, T:0.33
Consensus pattern (15 bp):
AAAATTTTAAAATAA
Found at i:114168967 original size:3 final size:3
Alignment explanation
Indices: 114168956--114169157 Score: 198
Period size: 3 Copynumber: 67.3 Consensus size: 3
114168946 TGATGATAGC
* * *
114168956 AAT AGT AAT AAT -AT AAT AAT AAT AA- AGT AGAG AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A-AT AAT AAT AAT AAT
* * * * * * *
114169000 ACATT AAT AAG AAT AAT AAT AGT -GT ATT GAT AAT AAC AAT AAT AGAA
1 A-A-T AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A-AT
* * * *
114169047 AAT AAT GAT AA- AGT AAT AAT AAT AAT AA- ACT AAGG AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA-T AAT AAT AAT
114169091 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
114169139 AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT A
114169158 CAATAAAAAT
Statistics
Matches: 164, Mismatches: 25, Indels: 20
0.78 0.12 0.10
Matches are distributed among these distances:
2 7 0.04
3 148 0.90
4 7 0.04
5 2 0.01
ACGTcount: A:0.62, C:0.01, G:0.06, T:0.30
Consensus pattern (3 bp):
AAT
Found at i:114169299 original size:22 final size:22
Alignment explanation
Indices: 114169232--114169299 Score: 68
Period size: 22 Copynumber: 3.0 Consensus size: 22
114169222 TAAAAAGGAT
* *
114169232 ATAGATAAATAAATGGTAAAATA
1 ATAGATAAATAAAT-ATAAAAGA
*
114169255 A-A-ATAAAATAAACATAAAAAGA
1 ATAGAT-AAATAAATAT-AAAAGA
114169277 ATAGATAAATAAATATAAAAGA
1 ATAGATAAATAAATATAAAAGA
114169299 A
1 A
114169300 ATACACTAGT
Statistics
Matches: 37, Mismatches: 4, Indels: 9
0.74 0.08 0.18
Matches are distributed among these distances:
21 3 0.08
22 21 0.57
23 11 0.30
24 2 0.05
ACGTcount: A:0.69, C:0.01, G:0.09, T:0.21
Consensus pattern (22 bp):
ATAGATAAATAAATATAAAAGA
Found at i:114171847 original size:15 final size:15
Alignment explanation
Indices: 114171829--114171858 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
114171819 ACGCAAGCAG
*
114171829 CAAACAAACAAACAA
1 CAAACAAAAAAACAA
114171844 CAAACAAAAAAACAA
1 CAAACAAAAAAACAA
114171859 ATGGTAACAG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.77, C:0.23, G:0.00, T:0.00
Consensus pattern (15 bp):
CAAACAAAAAAACAA
Found at i:114177172 original size:19 final size:20
Alignment explanation
Indices: 114177145--114177187 Score: 61
Period size: 19 Copynumber: 2.2 Consensus size: 20
114177135 TCTTTTTGCA
* *
114177145 TTCATTCATTTGCATTACAT
1 TTCATTCATATGCATTAAAT
114177165 TTCA-TCATATGCATTAAAT
1 TTCATTCATATGCATTAAAT
114177184 TTCA
1 TTCA
114177188 CGAAAAAACC
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 17 0.81
20 4 0.19
ACGTcount: A:0.30, C:0.19, G:0.05, T:0.47
Consensus pattern (20 bp):
TTCATTCATATGCATTAAAT
Found at i:114181943 original size:93 final size:93
Alignment explanation
Indices: 114181815--114181985 Score: 270
Period size: 93 Copynumber: 1.8 Consensus size: 93
114181805 GCCGATAAGT
* ** * *
114181815 GAACTCGGACTCAACTCAATGAGCTCGGGCGTTCGCATCCATAAGTGAACTTGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGAACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
114181880 CGAGCTCGGATGCCTAGTTACATCTCAC
66 CGAGCTCGGATGCCTAGTTACATCTCAC
* *
114181908 GAACTCGGACTCAACTCAACGAGTTTGAACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGAACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
*
114181973 CGAGTTCGGATGC
66 CGAGCTCGGATGC
114181986 TCAACATCCT
Statistics
Matches: 70, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
93 70 1.00
ACGTcount: A:0.29, C:0.28, G:0.21, T:0.22
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGAACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGCTCGGATGCCTAGTTACATCTCAC
Found at i:114181970 original size:46 final size:46
Alignment explanation
Indices: 114181809--114181980 Score: 163
Period size: 46 Copynumber: 3.7 Consensus size: 46
114181799 TAACCCGCCG
* * ** *
114181809 ATAAGTGAACTCGGACTCAACTCAATGAGCTCGGGCGTTCGCATCC
1 ATAAGTGAACTCGGACTCAACTCAACGAGTTCGAACATTCGCATCC
* * * *
114181855 ATAAGTGAACTTGGACTCAACTCAACGAGCTCGGATGCCTAGTT-ACAT-C
1 ATAAGTGAACTCGGACTCAACTCAACGAGTTC-GA--AC-A-TTCGCATCC
* * *
114181904 -TCA-CGAACTCGGACTCAACTCAACGAGTTTGAACATTCGCATCC
1 ATAAGTGAACTCGGACTCAACTCAACGAGTTCGAACATTCGCATCC
114181948 ATAAGTGAACTCGGACTCAACTCAACGAGTTCG
1 ATAAGTGAACTCGGACTCAACTCAACGAGTTCG
114181981 GATGCTCAAC
Statistics
Matches: 101, Mismatches: 16, Indels: 18
0.75 0.12 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 2 0.02
46 58 0.57
47 24 0.24
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.30, C:0.27, G:0.20, T:0.23
Consensus pattern (46 bp):
ATAAGTGAACTCGGACTCAACTCAACGAGTTCGAACATTCGCATCC
Found at i:114188155 original size:44 final size:44
Alignment explanation
Indices: 114188050--114188176 Score: 130
Period size: 44 Copynumber: 2.9 Consensus size: 44
114188040 GAATTTGCAG
* * * * *
114188050 ATCTTGTCTCCCTGAAGTTGTAGTGGAACAAATCGAAGACGGTAA
1 ATCTTGTCTCCTTGAAGTTGCAGTGGAACAGATTGAAGA-GGCAA
*
114188095 ATCTTGTCTCCTTGAAGTTGCAGTGGAACAGATTGAAG-GTGCGA
1 ATCTTGTCTCCTTGAAGTTGCAGTGGAACAGATTGAAGAG-GCAA
* * * **
114188139 ATCTTATCTCCTTGAAGTTACAGAGGAGTAGATTGAAG
1 ATCTTGTCTCCTTGAAGTTGCAGTGGAACAGATTGAAG
114188177 TTACAGAGGA
Statistics
Matches: 70, Mismatches: 11, Indels: 3
0.83 0.13 0.04
Matches are distributed among these distances:
43 1 0.01
44 35 0.50
45 34 0.49
ACGTcount: A:0.29, C:0.16, G:0.26, T:0.29
Consensus pattern (44 bp):
ATCTTGTCTCCTTGAAGTTGCAGTGGAACAGATTGAAGAGGCAA
Found at i:114188176 original size:21 final size:21
Alignment explanation
Indices: 114188150--114188200 Score: 102
Period size: 21 Copynumber: 2.4 Consensus size: 21
114188140 TCTTATCTCC
114188150 TTGAAGTTACAGAGGAGTAGA
1 TTGAAGTTACAGAGGAGTAGA
114188171 TTGAAGTTACAGAGGAGTAGA
1 TTGAAGTTACAGAGGAGTAGA
114188192 TTGAAGTTA
1 TTGAAGTTA
114188201 TAGATCTCAT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.37, C:0.04, G:0.31, T:0.27
Consensus pattern (21 bp):
TTGAAGTTACAGAGGAGTAGA
Found at i:114188197 original size:65 final size:65
Alignment explanation
Indices: 114188106--114188241 Score: 148
Period size: 65 Copynumber: 2.1 Consensus size: 65
114188096 TCTTGTCTCC
* * * * *
114188106 TTGAAGTTGCAGTGGAACAGATTGAAGGTGCGA-ATCTTATCTCCTTGAAGTTACAGAGGAGTAG
1 TTGAAGTTACAGAGGAACAGATTGAA-GTGAGAGATCTCATCTCCTTGAAGTTACAGAGGAATAG
114188170 A
65 A
** * * * *
114188171 TTGAAGTTACAGAGGAGTAGATTGAAGTTATAGATCTCATCTCCTTGAAGTTGCAGCGGAATAGA
1 TTGAAGTTACAGAGGAACAGATTGAAGTGAGAGATCTCATCTCCTTGAAGTTACAGAGGAATAGA
*
114188236 TCGAAG
1 TTGAAG
114188242 AATAGCAAAC
Statistics
Matches: 58, Mismatches: 12, Indels: 2
0.81 0.17 0.03
Matches are distributed among these distances:
64 3 0.05
65 55 0.95
ACGTcount: A:0.32, C:0.12, G:0.28, T:0.28
Consensus pattern (65 bp):
TTGAAGTTACAGAGGAACAGATTGAAGTGAGAGATCTCATCTCCTTGAAGTTACAGAGGAATAGA
Found at i:114188266 original size:46 final size:45
Alignment explanation
Indices: 114188209--114188317 Score: 157
Period size: 46 Copynumber: 2.4 Consensus size: 45
114188199 TATAGATCTC
*
114188209 ATCTCCTTGAAGTTGCAGCGGAATAGA-TCGAAGAATAGCAAACCTT
1 ATCTCCCTGAAGTTGCAGCGGAATAGACT-GAAG-ATAGCAAACCTT
* *
114188255 ATCTCCCTGAAGTTGCAGTGGAATAGACTGAAGATAGCAAATCTT
1 ATCTCCCTGAAGTTGCAGCGGAATAGACTGAAGATAGCAAACCTT
*
114188300 ATCTCTCTGAAGTTGCAG
1 ATCTCCCTGAAGTTGCAG
114188318 TAGAGTAGAT
Statistics
Matches: 58, Mismatches: 4, Indels: 3
0.89 0.06 0.05
Matches are distributed among these distances:
45 28 0.48
46 29 0.50
47 1 0.02
ACGTcount: A:0.32, C:0.19, G:0.22, T:0.27
Consensus pattern (45 bp):
ATCTCCCTGAAGTTGCAGCGGAATAGACTGAAGATAGCAAACCTT
Found at i:114188310 original size:45 final size:46
Alignment explanation
Indices: 114188209--114188327 Score: 161
Period size: 45 Copynumber: 2.6 Consensus size: 46
114188199 TATAGATCTC
* *
114188209 ATCTCCTTGAAGTTGCAGCGGAATAGATCGAAGAATAGCAAACCTT
1 ATCTCCCTGAAGTTGCAGTGGAATAGATCGAAGAATAGCAAACCTT
*
114188255 ATCTCCCTGAAGTTGCAGTGGAATAGA-CTGAAG-ATAGCAAATCTT
1 ATCTCCCTGAAGTTGCAGTGGAATAGATC-GAAGAATAGCAAACCTT
* * *
114188300 ATCTCTCTGAAGTTGCAGTAGAGTAGAT
1 ATCTCCCTGAAGTTGCAGTGGAATAGAT
114188328 TAAGGCTATA
Statistics
Matches: 65, Mismatches: 6, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
45 36 0.55
46 29 0.45
ACGTcount: A:0.33, C:0.18, G:0.23, T:0.27
Consensus pattern (46 bp):
ATCTCCCTGAAGTTGCAGTGGAATAGATCGAAGAATAGCAAACCTT
Found at i:114188537 original size:44 final size:44
Alignment explanation
Indices: 114188304--114188540 Score: 135
Period size: 44 Copynumber: 5.2 Consensus size: 44
114188294 AATCTTATCT
* *
114188304 CTCTGAAGTTGCAGTAGAGTAGATTAAGGCTATAAATCCTATAC
1 CTCTGAAGTTGCAGTAGAGCAGATTAAAGCTATAAATCCTATAC
* * * * **
114188348 CTCTGAAGTTGCAGTAG-GTCGGATCAAATCTACCATGGCAAATCTTATTT
1 CTCTGAAGTTGCAGTAGAG-CAGATTAAAGCT---AT---AAATCCTATAC
* * * *
114188398 CTCTGAAGTTGCAGTAGAGAAAATTAAAGCCATTAACAT--TATCTC
1 CTCTGAAGTTGCAGTAGAGCAGATTAAAGCTA-TAA-ATCCTAT-AC
* * ** * * *
114188443 CT-TGAAGTTACAGT-GCAACAGATCGAAGATAGCAAATCTTAT-C
1 CTCTGAAGTTGCAGTAG-AGCAGATTAAAGCTA-TAAATCCTATAC
*
114188486 TCTCTGAAGTTGCAGTAGAGCAGATTAAGGCTATAAATCCTATAC
1 -CTCTGAAGTTGCAGTAGAGCAGATTAAAGCTATAAATCCTATAC
114188531 CTCTGAAGTT
1 CTCTGAAGTT
114188541 ACAATAGGTC
Statistics
Matches: 142, Mismatches: 33, Indels: 36
0.67 0.16 0.17
Matches are distributed among these distances:
43 5 0.04
44 68 0.48
45 30 0.21
46 3 0.02
47 3 0.02
48 1 0.01
50 31 0.22
51 1 0.01
ACGTcount: A:0.33, C:0.18, G:0.19, T:0.30
Consensus pattern (44 bp):
CTCTGAAGTTGCAGTAGAGCAGATTAAAGCTATAAATCCTATAC
Found at i:114188554 original size:89 final size:90
Alignment explanation
Indices: 114188284--114188556 Score: 304
Period size: 89 Copynumber: 3.0 Consensus size: 90
114188274 GGAATAGACT
*
114188284 GAAGATAGCAAATCTTATCTCTCTGAAGTTGCAGTAGAGTAGATTAAGGCTATAAATCCTATACC
1 GAAGATAGCAAATCTTATCTCTCTGAAGTTGCAGTAGAGAAGATTAAGGCTATAAATCCTATACC
* *
114188349 TCTGAAGTTGCAGTAGGTCGGATCA
66 TCTGAAGTTACAGTAGGTCAGATCA
* * * * * * *
114188374 AATCTACCATGGCAAATCTTATTTCTCTGAAGTTGCAGTAGAGAAAATTAAAGCCATTAACAT--
1 GA---A-GATAGCAAATCTTATCTCTCTGAAGTTGCAGTAGAGAAGATTAAGGCTA-TAA-ATCC
* **
114188437 TATCTCCT-TGAAGTTACAGT-GCAACAGATC-
60 TAT-ACCTCTGAAGTTACAGTAG-GTCAGATCA
*
114188467 GAAGATAGCAAATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATTAAGGCTATAAATCCTATACC
1 GAAGATAGCAAATCTTATCTCTCTGAAGTTGCAGTAGAGAAGATTAAGGCTATAAATCCTATACC
*
114188532 TCTGAAGTTACAATAGGTCAGATCA
66 TCTGAAGTTACAGTAGGTCAGATCA
114188557 AGTTACCATG
Statistics
Matches: 145, Mismatches: 25, Indels: 26
0.74 0.13 0.13
Matches are distributed among these distances:
87 2 0.01
88 6 0.04
89 62 0.43
90 3 0.02
93 3 0.02
94 61 0.42
95 6 0.04
96 2 0.01
ACGTcount: A:0.34, C:0.18, G:0.19, T:0.29
Consensus pattern (90 bp):
GAAGATAGCAAATCTTATCTCTCTGAAGTTGCAGTAGAGAAGATTAAGGCTATAAATCCTATACC
TCTGAAGTTACAGTAGGTCAGATCA
Found at i:114189141 original size:15 final size:15
Alignment explanation
Indices: 114189123--114189152 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
114189113 ACGCAAGCAG
*
114189123 CAAACAAACAAACAA
1 CAAACAAAAAAACAA
114189138 CAAACAAAAAAACAA
1 CAAACAAAAAAACAA
114189153 ATGGTAACAG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.77, C:0.23, G:0.00, T:0.00
Consensus pattern (15 bp):
CAAACAAAAAAACAA
Found at i:114190224 original size:15 final size:15
Alignment explanation
Indices: 114190186--114190230 Score: 56
Period size: 15 Copynumber: 2.9 Consensus size: 15
114190176 TATATACTTC
114190186 AAATTATTATATATAT
1 AAATTATT-TATATAT
*
114190202 ATATTATTTAT-TAT
1 AAATTATTTATATAT
114190216 GAAATTATTTATATA
1 -AAATTATTTATATA
114190231 CTTTAAACTC
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
14 3 0.12
15 13 0.52
16 9 0.36
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.53
Consensus pattern (15 bp):
AAATTATTTATATAT
Found at i:114190388 original size:26 final size:26
Alignment explanation
Indices: 114190350--114190434 Score: 79
Period size: 25 Copynumber: 3.4 Consensus size: 26
114190340 TTCTAAATAT
*
114190350 TTTTATACGTTATTCTTGTTAAACTA
1 TTTTATATGTTATTCTTGTTAAACTA
* * *
114190376 TTTTATATATTA-TC-TGTTTTAAGT-
1 TTTTATATGTTATTCTTG-TTAAACTA
* *
114190400 TTTTATATGTTATT-TTGTTATACCA
1 TTTTATATGTTATTCTTGTTAAACTA
114190425 TTTTATATGT
1 TTTTATATGT
114190435 GAACGATTTT
Statistics
Matches: 46, Mismatches: 9, Indels: 9
0.72 0.14 0.14
Matches are distributed among these distances:
24 16 0.35
25 20 0.43
26 10 0.22
ACGTcount: A:0.25, C:0.07, G:0.08, T:0.60
Consensus pattern (26 bp):
TTTTATATGTTATTCTTGTTAAACTA
Found at i:114190445 original size:49 final size:50
Alignment explanation
Indices: 114190349--114190446 Score: 119
Period size: 49 Copynumber: 2.0 Consensus size: 50
114190339 ATTCTAAATA
* * *
114190349 TTTTTATACGTTATTCTTGTTAAACTATTTTATATATTATCTGTTTTAAG
1 TTTTTATACGTTATTCTTGTTAAACCATTTTATATATGAACTGTTTTAAG
* * *
114190399 TTTTTATATGTTATT-TTGTTATACCATTTTATATGTGAAC-GATTTTAA
1 TTTTTATACGTTATTCTTGTTAAACCATTTTATATATGAACTG-TTTTAA
114190447 ATTCTTTTAT
Statistics
Matches: 41, Mismatches: 6, Indels: 3
0.82 0.12 0.06
Matches are distributed among these distances:
48 1 0.02
49 26 0.63
50 14 0.34
ACGTcount: A:0.27, C:0.07, G:0.09, T:0.57
Consensus pattern (50 bp):
TTTTTATACGTTATTCTTGTTAAACCATTTTATATATGAACTGTTTTAAG
Found at i:114192460 original size:27 final size:29
Alignment explanation
Indices: 114192416--114192472 Score: 73
Period size: 27 Copynumber: 2.0 Consensus size: 29
114192406 TAAAACAGTT
* *
114192416 TAAAAGATGACAAAAATAGTAGT-AATAA
1 TAAAAGATAACAAAAATAATAGTAAATAA
*
114192444 TAAAA-ATAACAATAATAATAGTAAATAA
1 TAAAAGATAACAAAAATAATAGTAAATAA
114192472 T
1 T
114192473 GCTAAATTAA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
27 14 0.56
28 11 0.44
ACGTcount: A:0.63, C:0.04, G:0.09, T:0.25
Consensus pattern (29 bp):
TAAAAGATAACAAAAATAATAGTAAATAA
Found at i:114193684 original size:21 final size:22
Alignment explanation
Indices: 114193658--114193698 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
114193648 ATAAATTCGT
*
114193658 AAAAAACTGAAAAGA-AAAACA
1 AAAAAAATGAAAAGACAAAACA
*
114193679 AAAAAAATGAAGAGACAAAA
1 AAAAAAATGAAAAGACAAAA
114193699 GATTTAAACC
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 13 0.76
22 4 0.24
ACGTcount: A:0.76, C:0.07, G:0.12, T:0.05
Consensus pattern (22 bp):
AAAAAAATGAAAAGACAAAACA
Found at i:114194603 original size:69 final size:69
Alignment explanation
Indices: 114194492--114194629 Score: 213
Period size: 69 Copynumber: 2.0 Consensus size: 69
114194482 AACATCTGTT
* * * * * **
114194492 TTTCTAATAGACACGATAAATTATTAATAAGGCGACTCATAAAGTGACTGGGTAGTCTTGTCTTA
1 TTTCTAATAAACACGACAAATTATTAATAAGACGACTCATAAAGTGACTAGGTAGCCTCATCTTA
114194557 TGCA
66 TGCA
114194561 TTTCTAATAAACACGACAAATTATTAATAAGACGACTCATAAAGTGACTAGGTAGCCTCATCTTA
1 TTTCTAATAAACACGACAAATTATTAATAAGACGACTCATAAAGTGACTAGGTAGCCTCATCTTA
114194626 TGCA
66 TGCA
114194630 GATCGCCAAA
Statistics
Matches: 62, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
69 62 1.00
ACGTcount: A:0.36, C:0.17, G:0.16, T:0.31
Consensus pattern (69 bp):
TTTCTAATAAACACGACAAATTATTAATAAGACGACTCATAAAGTGACTAGGTAGCCTCATCTTA
TGCA
Found at i:114194968 original size:19 final size:20
Alignment explanation
Indices: 114194937--114194975 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 20
114194927 TAGGACATAC
114194937 AATACAGAGAAAT-AATAAA
1 AATACAGAGAAATAAATAAA
114194956 AATACA-AGAAAATAAATAAA
1 AATACAGAG-AAATAAATAAA
114194976 TATAACACGA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
18 2 0.11
19 10 0.56
20 6 0.33
ACGTcount: A:0.72, C:0.05, G:0.08, T:0.15
Consensus pattern (20 bp):
AATACAGAGAAATAAATAAA
Found at i:114195962 original size:23 final size:20
Alignment explanation
Indices: 114195904--114195962 Score: 55
Period size: 23 Copynumber: 2.7 Consensus size: 20
114195894 AACTTTTTCT
*
114195904 ATTTTTAAAATTTAGATATA
1 ATTTTTGAAATTTAGATATA
*
114195924 ATGTTTTGAATTTTTAGAATATAAA
1 AT-TTTTGAA-ATTTAG-ATAT--A
114195949 ATTTTTGAAATTTA
1 ATTTTTGAAATTTA
114195963 AATTTATAAA
Statistics
Matches: 31, Mismatches: 3, Indels: 7
0.76 0.07 0.17
Matches are distributed among these distances:
20 2 0.06
21 6 0.19
22 5 0.16
23 8 0.26
24 7 0.23
25 3 0.10
ACGTcount: A:0.41, C:0.00, G:0.08, T:0.51
Consensus pattern (20 bp):
ATTTTTGAAATTTAGATATA
Found at i:114196169 original size:6 final size:7
Alignment explanation
Indices: 114196154--114196179 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
114196144 TTGTATTACA
114196154 TTTTATT
1 TTTTATT
114196161 TTTTATT
1 TTTTATT
114196168 TTTTATT
1 TTTTATT
114196175 TTTTA
1 TTTTA
114196180 ATTAATATAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.15, C:0.00, G:0.00, T:0.85
Consensus pattern (7 bp):
TTTTATT
Found at i:114196496 original size:10 final size:10
Alignment explanation
Indices: 114196481--114196513 Score: 50
Period size: 10 Copynumber: 3.3 Consensus size: 10
114196471 TGCTGCAACT
114196481 TTTTTCTTTC
1 TTTTTCTTTC
114196491 TTTTTCTTTC
1 TTTTTCTTTC
114196501 ATTTTT-TTTC
1 -TTTTTCTTTC
114196511 TTT
1 TTT
114196514 CAGCATCTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
9 3 0.14
10 14 0.64
11 5 0.23
ACGTcount: A:0.03, C:0.15, G:0.00, T:0.82
Consensus pattern (10 bp):
TTTTTCTTTC
Found at i:114197044 original size:42 final size:42
Alignment explanation
Indices: 114196998--114197083 Score: 109
Period size: 42 Copynumber: 2.0 Consensus size: 42
114196988 ACGTGACAAA
* * * *
114196998 CCGTATATCCTTCAAAATAATTTCACACGGCTGTGTCATAGG
1 CCGTATAGCATTCAAAATAACTTCACACGGCTGTGTCACAGG
* * *
114197040 CCGTATAGCATTCGAGATACCTTCACACGGCTGTGTCACAGG
1 CCGTATAGCATTCAAAATAACTTCACACGGCTGTGTCACAGG
114197082 CC
1 CC
114197084 ATGTGTTAGA
Statistics
Matches: 37, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
42 37 1.00
ACGTcount: A:0.26, C:0.28, G:0.20, T:0.27
Consensus pattern (42 bp):
CCGTATAGCATTCAAAATAACTTCACACGGCTGTGTCACAGG
Found at i:114198340 original size:33 final size:33
Alignment explanation
Indices: 114198303--114198378 Score: 102
Period size: 33 Copynumber: 2.3 Consensus size: 33
114198293 ATAACCTAAT
*
114198303 TATGGTCTTATCATTAGA-ATG-CTATAGCCCAGC
1 TATGGTCTTATCATTA-ATATGTC-ATAACCCAGC
*
114198336 TATGGTCTTATCATTAATATGTCATAACCTAGC
1 TATGGTCTTATCATTAATATGTCATAACCCAGC
114198369 TATGGTCTTA
1 TATGGTCTTA
114198379 CATATATACA
Statistics
Matches: 39, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
32 1 0.03
33 37 0.95
34 1 0.03
ACGTcount: A:0.28, C:0.18, G:0.16, T:0.38
Consensus pattern (33 bp):
TATGGTCTTATCATTAATATGTCATAACCCAGC
Found at i:114207312 original size:27 final size:26
Alignment explanation
Indices: 114207252--114207313 Score: 70
Period size: 27 Copynumber: 2.3 Consensus size: 26
114207242 GGAAGACTCT
114207252 ATTTTATTAGGATAATTAATATTAAG
1 ATTTTATTAGGATAATTAATATTAAG
* * * *
114207278 ATAATTATTAGGATTATTTAATTTTAGG
1 AT-TTTATTAGGA-TAATTAATATTAAG
114207306 ATTTTATT
1 ATTTTATT
114207314 TTAATTATCT
Statistics
Matches: 29, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
26 2 0.07
27 14 0.48
28 13 0.45
ACGTcount: A:0.37, C:0.00, G:0.11, T:0.52
Consensus pattern (26 bp):
ATTTTATTAGGATAATTAATATTAAG
Found at i:114207328 original size:10 final size:10
Alignment explanation
Indices: 114207309--114207340 Score: 57
Period size: 10 Copynumber: 3.3 Consensus size: 10
114207299 TTTTAGGATT
114207309 TTAT-TTTAA
1 TTATCTTTAA
114207318 TTATCTTTAA
1 TTATCTTTAA
114207328 TTATCTTTAA
1 TTATCTTTAA
114207338 TTA
1 TTA
114207341 AATGTACTTA
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
9 4 0.18
10 18 0.82
ACGTcount: A:0.31, C:0.06, G:0.00, T:0.62
Consensus pattern (10 bp):
TTATCTTTAA
Found at i:114213714 original size:5 final size:6
Alignment explanation
Indices: 114213699--114213767 Score: 56
Period size: 6 Copynumber: 11.7 Consensus size: 6
114213689 CCAATCTTTC
* **
114213699 TTTTTA TTTTTA TTTTTA TTTATTA -TTTT- CTTTCC TTTTTA TTTATTA
1 TTTTTA TTTTTA TTTTTA TTT-TTA TTTTTA TTTTTA TTTTTA TTT-TTA
114213747 TTTATTA -TTTTA -TTTTA TTTT
1 TTT-TTA TTTTTA TTTTTA TTTT
114213768 AGTTAAATAT
Statistics
Matches: 54, Mismatches: 4, Indels: 10
0.79 0.06 0.15
Matches are distributed among these distances:
5 13 0.24
6 28 0.52
7 13 0.24
ACGTcount: A:0.17, C:0.04, G:0.00, T:0.78
Consensus pattern (6 bp):
TTTTTA
Found at i:114213726 original size:19 final size:19
Alignment explanation
Indices: 114213702--114213761 Score: 59
Period size: 23 Copynumber: 2.9 Consensus size: 19
114213692 ATCTTTCTTT
114213702 TTATTTTTATTTTTATTTA
1 TTATTTTTATTTTTATTTA
*
114213721 TTATTTTCTTTCCTTTTTATTTA
1 TTA--TT-TTT-ATTTTTATTTA
114213744 TTATTTATTA-TTTTATTT
1 TTATTT-TTATTTTTATTT
114213762 TATTTTAGTT
Statistics
Matches: 34, Mismatches: 2, Indels: 10
0.74 0.04 0.22
Matches are distributed among these distances:
19 11 0.32
20 1 0.03
21 6 0.18
22 3 0.09
23 13 0.38
ACGTcount: A:0.18, C:0.05, G:0.00, T:0.77
Consensus pattern (19 bp):
TTATTTTTATTTTTATTTA
Found at i:114213731 original size:30 final size:30
Alignment explanation
Indices: 114213695--114213767 Score: 103
Period size: 30 Copynumber: 2.4 Consensus size: 30
114213685 CAACCCAATC
114213695 TTTCTTTTTATTTTTATTT-TTATTTATTAT
1 TTTC-TTTTATTTTTATTTATTATTTATTAT
**
114213725 TTTCTTTCCTTTTTATTTATTATTTATTAT
1 TTTCTTTTATTTTTATTTATTATTTATTAT
*
114213755 TTTATTTTATTTT
1 TTTCTTTTATTTT
114213768 AGTTAAATAT
Statistics
Matches: 37, Mismatches: 5, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
29 12 0.32
30 25 0.68
ACGTcount: A:0.16, C:0.05, G:0.00, T:0.78
Consensus pattern (30 bp):
TTTCTTTTATTTTTATTTATTATTTATTAT
Found at i:114214937 original size:118 final size:118
Alignment explanation
Indices: 114214746--114214959 Score: 392
Period size: 118 Copynumber: 1.8 Consensus size: 118
114214736 AGTACAGCTT
114214746 AAATCGTGACTGACTGAGTAACCGGGGTAGGGTGCTTGGGTTGTCATTCTACTTCGCGTCAAAAG
1 AAATCGTGACTGACTGAGTAACCGGGGTAGGGTGCTTGGGTTGTCATTCTACTTCGCGTCAAAAG
114214811 GTTGTGTGACGTGACAAGTAAAACTCCGCTAGCCGAGGTTATGAGTATGGCTC
66 GTTGTGTGACGTGACAAGTAAAACTCCGCTAGCCGAGGTTATGAGTATGGCTC
114214864 AAATCGTGACTGACTGAGTAACCGGGGTAGGGTGCTTGGGTTGTCATTCTACTTCGCGTCAAAAG
1 AAATCGTGACTGACTGAGTAACCGGGGTAGGGTGCTTGGGTTGTCATTCTACTTCGCGTCAAAAG
****
114214929 GTTGTGTGACGTGTTGGGTAAAACTCCGCTA
66 GTTGTGTGACGTGACAAGTAAAACTCCGCTA
114214960 ACCGGAAATA
Statistics
Matches: 92, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
118 92 1.00
ACGTcount: A:0.23, C:0.18, G:0.31, T:0.28
Consensus pattern (118 bp):
AAATCGTGACTGACTGAGTAACCGGGGTAGGGTGCTTGGGTTGTCATTCTACTTCGCGTCAAAAG
GTTGTGTGACGTGACAAGTAAAACTCCGCTAGCCGAGGTTATGAGTATGGCTC
Found at i:114215742 original size:27 final size:26
Alignment explanation
Indices: 114215682--114215743 Score: 70
Period size: 27 Copynumber: 2.3 Consensus size: 26
114215672 GGAAGACTCT
114215682 ATTTTATTAGGATAATTAATATTAAG
1 ATTTTATTAGGATAATTAATATTAAG
* * * *
114215708 ATAATTATTAGGATTATTTAATTTTAGG
1 AT-TTTATTAGGA-TAATTAATATTAAG
114215736 ATTTTATT
1 ATTTTATT
114215744 TTAATTATCT
Statistics
Matches: 29, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
26 2 0.07
27 14 0.48
28 13 0.45
ACGTcount: A:0.37, C:0.00, G:0.11, T:0.52
Consensus pattern (26 bp):
ATTTTATTAGGATAATTAATATTAAG
Found at i:114215758 original size:10 final size:10
Alignment explanation
Indices: 114215739--114215770 Score: 57
Period size: 10 Copynumber: 3.3 Consensus size: 10
114215729 TTTTAGGATT
114215739 TTAT-TTTAA
1 TTATCTTTAA
114215748 TTATCTTTAA
1 TTATCTTTAA
114215758 TTATCTTTAA
1 TTATCTTTAA
114215768 TTA
1 TTA
114215771 AATGTACTTA
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
9 4 0.18
10 18 0.82
ACGTcount: A:0.31, C:0.06, G:0.00, T:0.62
Consensus pattern (10 bp):
TTATCTTTAA
Found at i:114220758 original size:132 final size:132
Alignment explanation
Indices: 114220516--114220912 Score: 573
Period size: 132 Copynumber: 3.0 Consensus size: 132
114220506 TTATTCATTC
* ** * ** *
114220516 AAAAATTCTTTAAAACGAAGGCGATGTTCGATATTTGGCAATTCACGGAATCGTGCCCTAACGTG
1 AAAAATTCTTTAAAACGAAAGAAATGTTCGATGTTTGGCAATTCGGGGAATCGTGCCCTATCGTG
* * * * *
114220581 CTGGGTTGCAATTTCTCGTTTGCTCAAAATAATCGAATGTCCCTTTAGAATTTCATTCATGTTTT
66 CTGGGTTGCAATTTCCCGTTTGTTCAAAATAATCGAATATTCCTTTAGAATTTCACTCATGTTTT
114220646 CT
131 CT
* *
114220648 AAAAACTCTTTAAAACGAAAGAAATGTTCGATGTTTGGCAATTCGGGGAGTCGTGCCCTATCGTG
1 AAAAATTCTTTAAAACGAAAGAAATGTTCGATGTTTGGCAATTCGGGGAATCGTGCCCTATCGTG
* * * *
114220713 CTGGGTTGCAATTTCCCGTTTGTTCAAAACAATCGAATATTCCTTTGGAATTTCACCCATGTCTT
66 CTGGGTTGCAATTTCCCGTTTGTTCAAAATAATCGAATATTCCTTTAGAATTTCACTCATGTTTT
114220778 -T
131 CT
* *
114220779 AAAAATTCTCTAAAACGAAAGTAATGTTCGATG-TTGGCAATTCGGGGAATCGTGCCCTATCGTG
1 AAAAATTCTTTAAAACGAAAGAAATGTTCGATGTTTGGCAATTCGGGGAATCGTGCCCTATCGTG
* * *
114220843 CTGGGTTGCGATTTCCTGTTGGTTCAAAATAATCGAATATTCCTTTAGAATTTCACTCATGTTTT
66 CTGGGTTGCAATTTCCCGTTTGTTCAAAATAATCGAATATTCCTTTAGAATTTCACTCATGTTTT
114220908 CT
131 CT
114220910 AAA
1 AAA
114220913 TTCTAAAATA
Statistics
Matches: 235, Mismatches: 29, Indels: 3
0.88 0.11 0.01
Matches are distributed among these distances:
130 88 0.37
131 35 0.15
132 112 0.48
ACGTcount: A:0.27, C:0.19, G:0.19, T:0.35
Consensus pattern (132 bp):
AAAAATTCTTTAAAACGAAAGAAATGTTCGATGTTTGGCAATTCGGGGAATCGTGCCCTATCGTG
CTGGGTTGCAATTTCCCGTTTGTTCAAAATAATCGAATATTCCTTTAGAATTTCACTCATGTTTT
CT
Found at i:114220868 original size:130 final size:129
Alignment explanation
Indices: 114220516--114220976 Score: 536
Period size: 132 Copynumber: 3.6 Consensus size: 129
114220506 TTATTCATTC
* * * * ** *
114220516 AAAAATTCTTTAAAACGAAGGCGATGTTCGATATTTGGCAATTCACGGAATCGTGCCCTAACGTG
1 AAAAATTCTCTAAAACGAAAGCAATGTTCGAT-GTTGGCAATTCGGGGAATCGTGCCCTATCGTG
* * * *
114220581 CTGGGTTGCAATTT-CTCGTTTGCTCAAAATAATCGAATGTCCCTTTAGAATTTCATTCATGTTT
65 CTGGGTTGCAATTTCCT-GTTTGTTCAAAATAATCGAATATTCCTTTAGAATTTCACTCATG-TT
114220645 TCT
128 T-T
* * * *
114220648 AAAAACTCTTTAAAACGAAAGAAATGTTCGATGTTTGGCAATTCGGGGAGTCGTGCCCTATCGTG
1 AAAAATTCTCTAAAACGAAAGCAATGTTCGATG-TTGGCAATTCGGGGAATCGTGCCCTATCGTG
* * * *
114220713 CTGGGTTGCAATTTCCCGTTTGTTCAAAACAATCGAATATTCCTTTGGAATTTCACCCATGTCTT
65 CTGGGTTGCAATTTCCTGTTTGTTCAAAATAATCGAATATTCCTTTAGAATTTCACTCATGT-TT
114220778 T
129 T
*
114220779 AAAAATTCTCTAAAACGAAAGTAATGTTCGATGTTGGCAATTCGGGGAATCGTGCCCTATCGTGC
1 AAAAATTCTCTAAAACGAAAGCAATGTTCGATGTTGGCAATTCGGGGAATCGTGCCCTATCGTGC
* *
114220844 TGGGTTGCGATTTCCTGTTGGTTCAAAATAATCGAATATTCCTTTAGAATTTCACTCATGTTTT
66 TGGGTTGCAATTTCCTGTTTGTTCAAAATAATCGAATATTCCTTTAGAATTTCACTCATGTTTT
** * * * * * * *
114220908 CTAAA-T-TCTAAAA-TAAGGCAATATCCGATGTCTAGAAATTCGAGGAATCGTGCCCTA-CTGT
1 AAAAATTCTCTAAAACGAAAGCAATGTTCGATGT-TGGCAATTCGGGGAATCGTGCCCTATC-GT
114220969 GCTGGGTT
64 GCTGGGTT
114220977 TCGATTTTTT
Statistics
Matches: 287, Mismatches: 37, Indels: 15
0.85 0.11 0.04
Matches are distributed among these distances:
126 14 0.05
127 39 0.14
128 1 0.00
129 6 0.02
130 86 0.30
131 32 0.11
132 108 0.38
133 1 0.00
ACGTcount: A:0.28, C:0.19, G:0.20, T:0.34
Consensus pattern (129 bp):
AAAAATTCTCTAAAACGAAAGCAATGTTCGATGTTGGCAATTCGGGGAATCGTGCCCTATCGTGC
TGGGTTGCAATTTCCTGTTTGTTCAAAATAATCGAATATTCCTTTAGAATTTCACTCATGTTTT
Found at i:114225267 original size:20 final size:20
Alignment explanation
Indices: 114225242--114225313 Score: 87
Period size: 20 Copynumber: 3.7 Consensus size: 20
114225232 CAAAATTACA
*
114225242 AAAAAATTTAAAATAATTTT
1 AAAAAATTCAAAATAATTTT
114225262 AAAAAATTCAAAATAATTTT
1 AAAAAATTCAAAATAATTTT
*
114225282 -TAAAATTCAAAAT-A-TTT
1 AAAAAATTCAAAATAATTTT
*
114225299 ATAAAATTCCAAAAT
1 AAAAAATT-CAAAAT
114225314 TTATATTTTT
Statistics
Matches: 48, Mismatches: 2, Indels: 5
0.87 0.04 0.09
Matches are distributed among these distances:
17 3 0.06
18 8 0.17
19 18 0.38
20 19 0.40
ACGTcount: A:0.58, C:0.06, G:0.00, T:0.36
Consensus pattern (20 bp):
AAAAAATTCAAAATAATTTT
Found at i:114225288 original size:19 final size:19
Alignment explanation
Indices: 114225244--114225313 Score: 88
Period size: 19 Copynumber: 3.6 Consensus size: 19
114225234 AAATTACAAA
* *
114225244 AAAATTTAAAATAATTTTAA
1 AAAATTCAAAATAATTTT-T
114225264 AAAATTCAAAATAATTTTT
1 AAAATTCAAAATAATTTTT
*
114225283 AAAATTCAAAAT-ATTTAT
1 AAAATTCAAAATAATTTTT
114225301 AAAATTCCAAAAT
1 AAAATT-CAAAAT
114225314 TTATATTTTT
Statistics
Matches: 46, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
18 11 0.24
19 18 0.39
20 17 0.37
ACGTcount: A:0.57, C:0.06, G:0.00, T:0.37
Consensus pattern (19 bp):
AAAATTCAAAATAATTTTT
Found at i:114225317 original size:17 final size:17
Alignment explanation
Indices: 114225259--114225318 Score: 66
Period size: 18 Copynumber: 3.4 Consensus size: 17
114225249 TTAAAATAAT
*
114225259 TTTAAAAAATTCAAAATAA
1 TTTATAAAATTC-AAA-AA
*
114225278 TTTTTAAAATTCAAAATA
1 TTTATAAAATTCAAAA-A
*
114225296 TTTATAAAATTCCAAAA
1 TTTATAAAATTCAAAAA
114225313 TTTATA
1 TTTATA
114225319 TTTTTTTAAA
Statistics
Matches: 36, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
17 8 0.22
18 18 0.50
19 10 0.28
ACGTcount: A:0.53, C:0.07, G:0.00, T:0.40
Consensus pattern (17 bp):
TTTATAAAATTCAAAAA
Found at i:114236791 original size:19 final size:20
Alignment explanation
Indices: 114236754--114236798 Score: 56
Period size: 19 Copynumber: 2.3 Consensus size: 20
114236744 TTGTTAAACA
*
114236754 TTTTTATTAACTTTAATAAT
1 TTTTTATTAAATTTAATAAT
*
114236774 TTTTTA-TAAATTTTATAAT
1 TTTTTATTAAATTTAATAAT
*
114236793 TATTTA
1 TTTTTA
114236799 AATTCAAATA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
19 16 0.73
20 6 0.27
ACGTcount: A:0.36, C:0.02, G:0.00, T:0.62
Consensus pattern (20 bp):
TTTTTATTAAATTTAATAAT
Found at i:114237070 original size:30 final size:30
Alignment explanation
Indices: 114237034--114237148 Score: 153
Period size: 30 Copynumber: 3.8 Consensus size: 30
114237024 ACTTTTCTCA
114237034 ACTAGCCACACCTT-CTCCACCACCAACTCC
1 ACTAGCCACA-CTTGCTCCACCACCAACTCC
*
114237064 ACTAGCCACACCTT-CTCCACCACCAAATCC
1 ACTAGCCACA-CTTGCTCCACCACCAACTCC
** *
114237094 ACTAGCCACACTTGCTCCATTACCTACTCC
1 ACTAGCCACACTTGCTCCACCACCAACTCC
*
114237124 ACTAACCACACTTGCTCCACCACCA
1 ACTAGCCACACTTGCTCCACCACCA
114237149 CTTGTACCTA
Statistics
Matches: 75, Mismatches: 9, Indels: 2
0.87 0.10 0.02
Matches are distributed among these distances:
29 3 0.04
30 72 0.96
ACGTcount: A:0.28, C:0.49, G:0.04, T:0.19
Consensus pattern (30 bp):
ACTAGCCACACTTGCTCCACCACCAACTCC
Found at i:114237081 original size:18 final size:18
Alignment explanation
Indices: 114237028--114237083 Score: 52
Period size: 18 Copynumber: 3.4 Consensus size: 18
114237018 ACTTAAACTT
*
114237028 TTCTCAACTAGCCACACC
1 TTCTCCACTAGCCACACC
*
114237046 TTCTCCACCA-CCA-A--
1 TTCTCCACTAGCCACACC
114237060 --CTCCACTAGCCACACC
1 TTCTCCACTAGCCACACC
114237076 TTCTCCAC
1 TTCTCCAC
114237084 CACCAAATCC
Statistics
Matches: 29, Mismatches: 3, Indels: 12
0.66 0.07 0.27
Matches are distributed among these distances:
12 7 0.24
13 3 0.10
14 1 0.03
16 1 0.03
17 3 0.10
18 14 0.48
ACGTcount: A:0.25, C:0.50, G:0.04, T:0.21
Consensus pattern (18 bp):
TTCTCCACTAGCCACACC
Found at i:114237769 original size:25 final size:25
Alignment explanation
Indices: 114237648--114237864 Score: 92
Period size: 22 Copynumber: 8.5 Consensus size: 25
114237638 TTGTTATTAT
*
114237648 TATATTTCTTAATATTATATTA--TA
1 TATATTT-TTAATACTATATTATGTA
* *
114237672 TATATTCTTT--TAATATATTA-G-G
1 TATATT-TTTAATACTATATTATGTA
* * *
114237694 TATATTTTAAATTCTATATTACGTATA
1 TATATTTTTAATACTATATTA--TGTA
* *
114237721 TATATATATTTTATACTATTTTATGTA
1 TATAT-T-TTTAATACTATATTATGTA
* * *
114237748 TATATCTTTAATATTATATTATTTATATATA
1 TATAT-TTT--TA--ATACTATAT-TATGTA
** *
114237779 TATATTTTTACATGTTATCTTATGTA
1 TATATTTTTA-ATACTATATTATGTA
*
114237805 TATA-TCTT-A-ACTATATTATGTA
1 TATATTTTTAATACTATATTATGTA
* *
114237827 TGTATTTTTAACACTATATTATGTA
1 TATATTTTTAATACTATATTATGTA
*
114237852 CATATTTTTAATA
1 TATATTTTTAATA
114237865 TTATCACGTA
Statistics
Matches: 146, Mismatches: 29, Indels: 35
0.70 0.14 0.17
Matches are distributed among these distances:
21 2 0.01
22 28 0.19
23 12 0.08
24 9 0.06
25 27 0.18
26 11 0.08
27 21 0.14
28 4 0.03
29 11 0.08
30 11 0.08
31 10 0.07
ACGTcount: A:0.35, C:0.06, G:0.04, T:0.55
Consensus pattern (25 bp):
TATATTTTTAATACTATATTATGTA
Found at i:114237771 original size:30 final size:28
Alignment explanation
Indices: 114237731--114237812 Score: 78
Period size: 30 Copynumber: 2.9 Consensus size: 28
114237721 TATATATATT
*
114237731 TTATACTATTTTATGTATATATCTTTAATA
1 TTATATTATTTTATGTATATATCTTT--TA
*
114237761 TTATATTATTTATATATATATAT-TTTTA
1 TTATATTATTT-TATGTATATATCTTTTA
* * *
114237789 -CATGTTATCTTATGTATATATCTT
1 TTATATTATTTTATGTATATATCTT
114237813 AACTATATTA
Statistics
Matches: 44, Mismatches: 6, Indels: 7
0.77 0.11 0.12
Matches are distributed among these distances:
26 10 0.23
27 9 0.20
28 2 0.05
30 13 0.30
31 10 0.23
ACGTcount: A:0.32, C:0.06, G:0.04, T:0.59
Consensus pattern (28 bp):
TTATATTATTTTATGTATATATCTTTTA
Found at i:114237820 original size:54 final size:54
Alignment explanation
Indices: 114237663--114237827 Score: 144
Period size: 54 Copynumber: 3.1 Consensus size: 54
114237653 TTCTTAATAT
* * * * * * *
114237663 TATATTATATATATTCTTTTAATATATTAGGTATAT-T-TTAAATTCTATATTACG
1 TATA-TATATATATT-TTATACTATCTTATGTATATATCTTTAATACTATATTATG
* * *
114237717 TATATATATATATTTTATACTATTTTATGTATATATCTTTAATATTATATTATT
1 TATATATATATATTTTATACTATCTTATGTATATATCTTTAATACTATATTATG
114237771 TATATATATATATTTT-TACATGTTATCTTATGTATATATC-TT-A-ACTATATTATG
1 TATATATATATATTTTATAC----TATCTTATGTATATATCTTTAATACTATATTATG
114237825 TAT
1 TAT
114237828 GTATTTTTAA
Statistics
Matches: 93, Mismatches: 12, Indels: 12
0.79 0.10 0.10
Matches are distributed among these distances:
52 16 0.17
53 14 0.15
54 44 0.47
55 1 0.01
56 2 0.02
57 16 0.17
ACGTcount: A:0.35, C:0.05, G:0.04, T:0.56
Consensus pattern (54 bp):
TATATATATATATTTTATACTATCTTATGTATATATCTTTAATACTATATTATG
Found at i:114237824 original size:22 final size:24
Alignment explanation
Indices: 114237798--114237856 Score: 68
Period size: 25 Copynumber: 2.5 Consensus size: 24
114237788 ACATGTTATC
114237798 TTATGTATATATCTT-A-ACTATA
1 TTATGTATATATCTTAACACTATA
* *
114237820 TTATGTATGTATTTTTAACACTATA
1 TTATGTATATA-TCTTAACACTATA
*
114237845 TTATGTACATAT
1 TTATGTATATAT
114237857 TTTTAATATT
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
22 10 0.33
23 3 0.10
24 2 0.07
25 15 0.50
ACGTcount: A:0.34, C:0.08, G:0.07, T:0.51
Consensus pattern (24 bp):
TTATGTATATATCTTAACACTATA
Found at i:114237898 original size:22 final size:23
Alignment explanation
Indices: 114237854--114237898 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
114237844 ATTATGTACA
*
114237854 TATTTTTAATATTATCACGTATT
1 TATTTTTAATATTATCACATATT
* *
114237877 TATTTTTTATA-TATGACATATT
1 TATTTTTAATATTATCACATATT
114237899 GATGTAGTAT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
22 9 0.47
23 10 0.53
ACGTcount: A:0.31, C:0.07, G:0.04, T:0.58
Consensus pattern (23 bp):
TATTTTTAATATTATCACATATT
Found at i:114238051 original size:7 final size:7
Alignment explanation
Indices: 114238023--114238062 Score: 53
Period size: 8 Copynumber: 5.3 Consensus size: 7
114238013 TATTATTCTA
114238023 ATATTTT
1 ATATTTT
114238030 GATATTTT
1 -ATATTTT
114238038 AATATTTT
1 -ATATTTT
114238046 ATATTTT
1 ATATTTT
114238053 ATATATTT
1 ATAT-TTT
114238061 AT
1 AT
114238063 TATTCACATC
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
7 11 0.37
8 19 0.63
ACGTcount: A:0.33, C:0.00, G:0.03, T:0.65
Consensus pattern (7 bp):
ATATTTT
Found at i:114238062 original size:15 final size:15
Alignment explanation
Indices: 114238016--114238060 Score: 63
Period size: 16 Copynumber: 2.9 Consensus size: 15
114238006 TAATTATTAT
*
114238016 TATTCTAATATTTTGA
1 TATTTTAATATTTT-A
114238032 TATTTTAATATTTTA
1 TATTTTAATATTTTA
114238047 TATTTTATATATTT
1 TATTTTA-ATATTT
114238061 ATTATTCACA
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
15 8 0.30
16 19 0.70
ACGTcount: A:0.31, C:0.02, G:0.02, T:0.64
Consensus pattern (15 bp):
TATTTTAATATTTTA
Done.