Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr13
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: 55873576
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.32
Warning! 1239791 characters in sequence are not A, C, G, or T
File 10 of 182
Found at i:3269384 original size:68 final size:69
Alignment explanation
Indices: 3269243--3269387 Score: 177
Period size: 68 Copynumber: 2.1 Consensus size: 69
3269233 TTAATCACAT
* * * *
3269243 TAATATTAAATTAATATAATACTTATCAAGATAAATATTAGATTAAATTTAATATTAATATAATC
1 TAATATTAAATTAATAAAATACTTATCAACATAAATATTAAATTAAATTTAATATTAATAAAATC
***
3269308 ACTT
66 AAAA
* * *
3269312 TAATATTAAATTAATAAAATAC-TATTAACATAAGTATTAAATTTAATTTAATATTAAATAAAAT
1 TAATATTAAATTAATAAAATACTTATCAACATAAATATTAAATTAAATTTAATATT-AATAAAAT
3269376 -AAAA
65 CAAAA
3269380 TAATATTA
1 TAATATTA
3269388 TTTTTGGAAT
Statistics
Matches: 65, Mismatches: 10, Indels: 3
0.83 0.13 0.04
Matches are distributed among these distances:
68 37 0.57
69 28 0.43
ACGTcount: A:0.53, C:0.04, G:0.02, T:0.41
Consensus pattern (69 bp):
TAATATTAAATTAATAAAATACTTATCAACATAAATATTAAATTAAATTTAATATTAATAAAATC
AAAA
Found at i:3282977 original size:49 final size:49
Alignment explanation
Indices: 3282841--3282977 Score: 143
Period size: 51 Copynumber: 2.8 Consensus size: 49
3282831 TGAAAGTGAA
* * *
3282841 AGTGATGGTTACGTGTAGTACTATGTGCAGGCTACTATGCGTACCGGAT
1 AGTGATGGTCACATGTAGTACTATGTGCAGGCTACTACGCGTACCGGAT
* * * *
3282890 AGCT--TCGATCACATGTGTAGTACTATGTGCAAGCTACTACGTGTATCGGAT
1 AG-TGAT-GGTCACA--TGTAGTACTATGTGCAGGCTACTACGCGTACCGGAT
* *
3282941 AGTGATGGTCACATGTAGTACTATGCGTAGGCTACTA
1 AGTGATGGTCACATGTAGTACTATGTGCAGGCTACTA
3282978 TGTGAACCAG
Statistics
Matches: 71, Mismatches: 11, Indels: 12
0.76 0.12 0.13
Matches are distributed among these distances:
48 1 0.01
49 27 0.38
50 2 0.03
51 40 0.56
52 1 0.01
ACGTcount: A:0.25, C:0.18, G:0.27, T:0.31
Consensus pattern (49 bp):
AGTGATGGTCACATGTAGTACTATGTGCAGGCTACTACGCGTACCGGAT
Found at i:3301463 original size:15 final size:15
Alignment explanation
Indices: 3301445--3301474 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
3301435 GTAATTAGAT
3301445 AAATAAAACTAAAAA
1 AAATAAAACTAAAAA
*
3301460 AAATTAAACTAAAAA
1 AAATAAAACTAAAAA
3301475 GAAGCTATCA
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:0.07, G:0.00, T:0.17
Consensus pattern (15 bp):
AAATAAAACTAAAAA
Found at i:3308504 original size:57 final size:58
Alignment explanation
Indices: 3308380--3308559 Score: 213
Period size: 57 Copynumber: 3.1 Consensus size: 58
3308370 ATACAAATGT
* * *
3308380 TGAAAATAGAGAAACAAGAAAGCATTTGGAAATGATTATGGTTTTCTCCTAAATT-AAA
1 TGAAAATGGAGAAA-TAGAAAGCATTTGGAAATGATTATGGTTTTCTCCAAAATTAAAA
*
3308438 TGAAAATGGAGAAATAGAAA-CATTTGAAAATGATTATGGTTTTCTCCAAAATTAAAA
1 TGAAAATGGAGAAATAGAAAGCATTTGGAAATGATTATGGTTTTCTCCAAAATTAAAA
** * *** * *
3308495 TGAAAATGGAGTGAT-GAAATCATTTGGAAATGAACGTGGTTTTCACCAAAATGAAAA
1 TGAAAATGGAGAAATAGAAAGCATTTGGAAATGATTATGGTTTTCTCCAAAATTAAAA
*
3308552 TGACAATG
1 TGAAAATG
3308560 ACCTGAAAAA
Statistics
Matches: 107, Mismatches: 13, Indels: 5
0.86 0.10 0.04
Matches are distributed among these distances:
56 35 0.33
57 59 0.55
58 13 0.12
ACGTcount: A:0.44, C:0.08, G:0.19, T:0.28
Consensus pattern (58 bp):
TGAAAATGGAGAAATAGAAAGCATTTGGAAATGATTATGGTTTTCTCCAAAATTAAAA
Found at i:3317558 original size:8 final size:8
Alignment explanation
Indices: 3317545--3317569 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
3317535 TTATCAACTC
3317545 TTATTATT
1 TTATTATT
3317553 TTATTATT
1 TTATTATT
3317561 TTATTATT
1 TTATTATT
3317569 T
1 T
3317570 CAAATTTTTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (8 bp):
TTATTATT
Found at i:3321644 original size:8 final size:8
Alignment explanation
Indices: 3321627--3321684 Score: 98
Period size: 8 Copynumber: 7.2 Consensus size: 8
3321617 TTATCAGCTC
*
3321627 TTATTGTT
1 TTATTATT
3321635 TTATTATT
1 TTATTATT
*
3321643 TTATTATC
1 TTATTATT
3321651 TTATTATT
1 TTATTATT
3321659 TTATTATT
1 TTATTATT
3321667 TTATTATT
1 TTATTATT
3321675 TTATTATT
1 TTATTATT
3321683 TT
1 TT
3321685 GAATTTTTAA
Statistics
Matches: 47, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
8 47 1.00
ACGTcount: A:0.22, C:0.02, G:0.02, T:0.74
Consensus pattern (8 bp):
TTATTATT
Found at i:3321692 original size:16 final size:16
Alignment explanation
Indices: 3321627--3321693 Score: 73
Period size: 16 Copynumber: 4.2 Consensus size: 16
3321617 TTATCAGCTC
* *
3321627 TTATTGTTTTATTATT
1 TTATTATTTTAATATT
* *
3321643 TTATTATCTTATTATT
1 TTATTATTTTAATATT
*
3321659 TTATTATTTTATTATT
1 TTATTATTTTAATATT
3321675 TTATTATTTTGAAT-TT
1 TTATTATTTT-AATATT
3321691 TTA
1 TTA
3321694 ATAATTATTA
Statistics
Matches: 46, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
16 44 0.96
17 2 0.04
ACGTcount: A:0.24, C:0.01, G:0.03, T:0.72
Consensus pattern (16 bp):
TTATTATTTTAATATT
Found at i:3321692 original size:24 final size:24
Alignment explanation
Indices: 3321625--3321693 Score: 86
Period size: 24 Copynumber: 2.9 Consensus size: 24
3321615 ATTTATCAGC
* *
3321625 TCTTATTGTTTTATTATTTTATTA
1 TCTTATTATTTTAATATTTTATTA
*
3321649 TCTTATTATTTTATTATTTTATTA
1 TCTTATTATTTTAATATTTTATTA
*
3321673 TTTTATTATTTTGAAT-TTTTA
1 TCTTATTATTTT-AATATTTTA
3321694 ATAATTATTA
Statistics
Matches: 41, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
24 39 0.95
25 2 0.05
ACGTcount: A:0.23, C:0.03, G:0.03, T:0.71
Consensus pattern (24 bp):
TCTTATTATTTTAATATTTTATTA
Found at i:3322187 original size:22 final size:23
Alignment explanation
Indices: 3322155--3322199 Score: 74
Period size: 22 Copynumber: 2.0 Consensus size: 23
3322145 TCATAGATTT
3322155 ATTATTCTATTTTAATTATTTTA
1 ATTATTCTATTTTAATTATTTTA
*
3322178 ATTATT-TATTTTAATTGTTTTA
1 ATTATTCTATTTTAATTATTTTA
3322200 TCTAACCTGG
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
22 15 0.71
23 6 0.29
ACGTcount: A:0.29, C:0.02, G:0.02, T:0.67
Consensus pattern (23 bp):
ATTATTCTATTTTAATTATTTTA
Found at i:3329580 original size:17 final size:17
Alignment explanation
Indices: 3329560--3329606 Score: 51
Period size: 17 Copynumber: 2.8 Consensus size: 17
3329550 TTCATTACTT
3329560 TGTTTTTTTATTACTAA
1 TGTTTTTTTATTACTAA
* *
3329577 TGTTTTATTA-TACTTA
1 TGTTTTTTTATTACTAA
*
3329593 TTTTATTTTTATTA
1 TGTT-TTTTTATTA
3329607 TATTTTTATA
Statistics
Matches: 24, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
16 8 0.33
17 14 0.58
18 2 0.08
ACGTcount: A:0.23, C:0.04, G:0.04, T:0.68
Consensus pattern (17 bp):
TGTTTTTTTATTACTAA
Found at i:3334378 original size:43 final size:43
Alignment explanation
Indices: 3334325--3334409 Score: 125
Period size: 43 Copynumber: 2.0 Consensus size: 43
3334315 TGGATAGTAC
* *
3334325 CTTGTAAGTCAAAATAGTCTATAACATTTGGTATTAGAATTAG
1 CTTGTAAGTCAAAATAGACTATAACATTTGGCATTAGAATTAG
* * *
3334368 CTTGTTAGTCAATATAGACTATAACTTTTGGCATTAGAATTA
1 CTTGTAAGTCAAAATAGACTATAACATTTGGCATTAGAATTA
3334410 ATTGTCTCCA
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
43 37 1.00
ACGTcount: A:0.35, C:0.11, G:0.15, T:0.39
Consensus pattern (43 bp):
CTTGTAAGTCAAAATAGACTATAACATTTGGCATTAGAATTAG
Found at i:3335528 original size:20 final size:19
Alignment explanation
Indices: 3335481--3335535 Score: 60
Period size: 19 Copynumber: 2.8 Consensus size: 19
3335471 GTAATAAAAT
*
3335481 AAAATAAAAATAGA-TTAG
1 AAAATAAAAATAAATTTAG
3335499 AAAATGTAAAAATAAATTTAAG
1 AAAA--TAAAAATAAATTT-AG
3335521 AAAAT-AAAATAAATT
1 AAAATAAAAATAAATT
3335536 GGTAAATAAA
Statistics
Matches: 32, Mismatches: 1, Indels: 7
0.80 0.03 0.17
Matches are distributed among these distances:
18 4 0.12
19 10 0.31
20 10 0.31
21 2 0.06
22 6 0.19
ACGTcount: A:0.67, C:0.00, G:0.07, T:0.25
Consensus pattern (19 bp):
AAAATAAAAATAAATTTAG
Found at i:3337843 original size:13 final size:13
Alignment explanation
Indices: 3337825--3337880 Score: 64
Period size: 13 Copynumber: 4.5 Consensus size: 13
3337815 TAGATTTTTC
3337825 CTAAATATAATCA
1 CTAAATATAATCA
*
3337838 CT-AA-ATAAT-T
1 CTAAATATAATCA
*
3337848 CTAAATATTATCA
1 CTAAATATAATCA
*
3337861 CTAAATATTATCA
1 CTAAATATAATCA
3337874 CTAAATA
1 CTAAATA
3337881 ATTCTAAATT
Statistics
Matches: 37, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
10 2 0.05
11 7 0.19
12 6 0.16
13 22 0.59
ACGTcount: A:0.50, C:0.14, G:0.00, T:0.36
Consensus pattern (13 bp):
CTAAATATAATCA
Found at i:3338373 original size:24 final size:23
Alignment explanation
Indices: 3338328--3338373 Score: 56
Period size: 24 Copynumber: 2.0 Consensus size: 23
3338318 ATTAGGTGAA
*
3338328 TCAAAAATAAGCAATTGCTAAAC
1 TCAAAAATAAGCAATTGATAAAC
* *
3338351 TCAAATAATAAGCATTTTATAAA
1 TCAAA-AATAAGCAATTGATAAA
3338374 ATCTCAAACA
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
23 5 0.26
24 14 0.74
ACGTcount: A:0.52, C:0.13, G:0.07, T:0.28
Consensus pattern (23 bp):
TCAAAAATAAGCAATTGATAAAC
Found at i:3351312 original size:26 final size:26
Alignment explanation
Indices: 3351278--3351327 Score: 100
Period size: 26 Copynumber: 1.9 Consensus size: 26
3351268 TACTGAAAGG
3351278 AAACTTTACATGGACAAGACTAGTGA
1 AAACTTTACATGGACAAGACTAGTGA
3351304 AAACTTTACATGGACAAGACTAGT
1 AAACTTTACATGGACAAGACTAGT
3351328 CTATACCAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.42, C:0.16, G:0.18, T:0.24
Consensus pattern (26 bp):
AAACTTTACATGGACAAGACTAGTGA
Found at i:3353957 original size:16 final size:16
Alignment explanation
Indices: 3353933--3353968 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
3353923 TGTAATGGAA
*
3353933 TAATGGAATAGAGCTG
1 TAATGGAATAGAGATG
*
3353949 TAATTGAATAGAGATG
1 TAATGGAATAGAGATG
3353965 TAAT
1 TAAT
3353969 CAGTAATTTA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.42, C:0.03, G:0.25, T:0.31
Consensus pattern (16 bp):
TAATGGAATAGAGATG
Found at i:3354212 original size:58 final size:58
Alignment explanation
Indices: 3354145--3354270 Score: 173
Period size: 58 Copynumber: 2.2 Consensus size: 58
3354135 TTTTAATAAG
* * *
3354145 ATTAATATTAAAAATAATTTAATAAAAATAATAAATAATTTAACCATATT-TTAACATA
1 ATTATTATTAAAAATAATTTAAT-AAAATAATAAATAATTTAACAAAATTCTTAACATA
* * * *
3354203 ATTATTATTAAATATAATTTAATAAAATAATATATAATTTAATAAAATTCTTAATATA
1 ATTATTATTAAAAATAATTTAATAAAATAATAAATAATTTAACAAAATTCTTAACATA
3354261 ATTATTATTA
1 ATTATTATTA
3354271 TATGAATTTA
Statistics
Matches: 60, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
57 22 0.37
58 38 0.63
ACGTcount: A:0.54, C:0.03, G:0.00, T:0.43
Consensus pattern (58 bp):
ATTATTATTAAAAATAATTTAATAAAATAATAAATAATTTAACAAAATTCTTAACATA
Found at i:3355930 original size:41 final size:41
Alignment explanation
Indices: 3355828--3355935 Score: 162
Period size: 41 Copynumber: 2.6 Consensus size: 41
3355818 ACTGGCTTTT
* * * * *
3355828 AGCCTGCTAGACTTAAAGTCCGAAATGTTTCATCGGCATCC
1 AGCCTGCTAGACATAGAGTCTGAATTGTTTCACCGGCATCC
3355869 AGCCTGCTAGACATAGAGTCTGAATTGTTTCACCGGCATCC
1 AGCCTGCTAGACATAGAGTCTGAATTGTTTCACCGGCATCC
*
3355910 AGCTTGCTAGACATAGAGTCTGAATT
1 AGCCTGCTAGACATAGAGTCTGAATT
3355936 ATCTCACTGG
Statistics
Matches: 61, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
41 61 1.00
ACGTcount: A:0.27, C:0.24, G:0.21, T:0.28
Consensus pattern (41 bp):
AGCCTGCTAGACATAGAGTCTGAATTGTTTCACCGGCATCC
Found at i:3360924 original size:17 final size:17
Alignment explanation
Indices: 3360898--3360931 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
3360888 AACAATCACC
3360898 CAAAAAAGAAAA-AAAA
1 CAAAAAAGAAAAGAAAA
3360914 CAAATAAAGAAAAGAAAA
1 CAAA-AAAGAAAAGAAAA
3360932 GAATGTGTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 4 0.25
17 8 0.50
18 4 0.25
ACGTcount: A:0.82, C:0.06, G:0.09, T:0.03
Consensus pattern (17 bp):
CAAAAAAGAAAAGAAAA
Found at i:3361531 original size:47 final size:47
Alignment explanation
Indices: 3361480--3361575 Score: 174
Period size: 47 Copynumber: 2.0 Consensus size: 47
3361470 TTTTGTAATG
* *
3361480 TTAATTATAATTTTTAATCAAATAATATAAGTAATATGAAACATTGT
1 TTAATTATAATTTTTAATCAAACAATATAAGTAATATAAAACATTGT
3361527 TTAATTATAATTTTTAATCAAACAATATAAGTAATATAAAACATTGT
1 TTAATTATAATTTTTAATCAAACAATATAAGTAATATAAAACATTGT
3361574 TT
1 TT
3361576 GAAGACCAAA
Statistics
Matches: 47, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
47 47 1.00
ACGTcount: A:0.47, C:0.05, G:0.05, T:0.43
Consensus pattern (47 bp):
TTAATTATAATTTTTAATCAAACAATATAAGTAATATAAAACATTGT
Found at i:3363254 original size:19 final size:19
Alignment explanation
Indices: 3363230--3363266 Score: 58
Period size: 19 Copynumber: 1.9 Consensus size: 19
3363220 AGTCACCATA
3363230 CAAGAAAA-CAACCAAAAAG
1 CAAGAAAATCAA-CAAAAAG
3363249 CAAGAAAATCAACAAAAA
1 CAAGAAAATCAACAAAAA
3363267 TAGAAAGTAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
19 14 0.82
20 3 0.18
ACGTcount: A:0.70, C:0.19, G:0.08, T:0.03
Consensus pattern (19 bp):
CAAGAAAATCAACAAAAAG
Found at i:3365409 original size:35 final size:34
Alignment explanation
Indices: 3365363--3365435 Score: 83
Period size: 34 Copynumber: 2.1 Consensus size: 34
3365353 AATGATGTTA
* **
3365363 AATTGAATGTATTTATTATGTACATAGCCGAACTG
1 AATTGAATGTATGTA-TAACTACATAGCCGAACTG
* * *
3365398 AATTGTATGTATGTATAACTACATTGCCGAATTG
1 AATTGAATGTATGTATAACTACATAGCCGAACTG
3365432 AATT
1 AATT
3365436 TAGCATGGAA
Statistics
Matches: 32, Mismatches: 6, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
34 19 0.59
35 13 0.41
ACGTcount: A:0.34, C:0.11, G:0.16, T:0.38
Consensus pattern (34 bp):
AATTGAATGTATGTATAACTACATAGCCGAACTG
Found at i:3365716 original size:43 final size:42
Alignment explanation
Indices: 3365546--3365717 Score: 136
Period size: 43 Copynumber: 4.0 Consensus size: 42
3365536 TAGGACTCCT
* * **
3365546 ATATGTGATTTCGTGTAAGACCACGTCTGGGACGTTGGCATTG
1 ATAT-TGATTACGTGTAAGACCACGTCTAGGACGTTGGCATCA
* * *
3365589 AT-TTGAGATTTACGTGTAAGACGATGTCTAGGACATTGGCATC-
1 ATATT--GA-TTACGTGTAAGACCACGTCTAGGACGTTGGCATCA
* **
3365632 GTATATGATTTTGTGTAAGACC-CTGTCTAGGACAGTT-GCATCA
1 ATAT-TGATTACGTGTAAGACCAC-GTCTAGGAC-GTTGGCATCA
* *
3365675 ATAGTTGATTACATGTAAGACCACGTCTGGGACGTTGGCATCA
1 ATA-TTGATTACGTGTAAGACCACGTCTAGGACGTTGGCATCA
3365718 TACGAGCTTT
Statistics
Matches: 101, Mismatches: 17, Indels: 22
0.72 0.12 0.16
Matches are distributed among these distances:
41 1 0.01
42 29 0.29
43 39 0.39
44 31 0.31
45 1 0.01
ACGTcount: A:0.26, C:0.16, G:0.26, T:0.32
Consensus pattern (42 bp):
ATATTGATTACGTGTAAGACCACGTCTAGGACGTTGGCATCA
Found at i:3369402 original size:78 final size:78
Alignment explanation
Indices: 3369273--3369430 Score: 307
Period size: 78 Copynumber: 2.0 Consensus size: 78
3369263 TTTTTAAACC
3369273 ATTTGTGTAAATCATTCAAAACTAATGAAATCAAATATTTAACTTAATCTCACAAAAATATGAGA
1 ATTTGTGTAAATCATTCAAAACTAATGAAATCAAATATTTAACTTAATCTCACAAAAATATGAGA
3369338 ATTATAGAAATCA
66 ATTATAGAAATCA
3369351 ATTTGTGTAAATCATTCAAAACTAATGAAATCAAATATTTAACTTAATCTCACAAAAATATGAGA
1 ATTTGTGTAAATCATTCAAAACTAATGAAATCAAATATTTAACTTAATCTCACAAAAATATGAGA
*
3369416 ATTATATAAATCA
66 ATTATAGAAATCA
3369429 AT
1 AT
3369431 GATTCAAATA
Statistics
Matches: 79, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
78 79 1.00
ACGTcount: A:0.49, C:0.11, G:0.07, T:0.33
Consensus pattern (78 bp):
ATTTGTGTAAATCATTCAAAACTAATGAAATCAAATATTTAACTTAATCTCACAAAAATATGAGA
ATTATAGAAATCA
Found at i:3370532 original size:484 final size:485
Alignment explanation
Indices: 3369617--3370593 Score: 1686
Period size: 484 Copynumber: 2.0 Consensus size: 485
3369607 AGTAATTTTG
3369617 AAAACTAAGTCTAATTTTATTAAAAACTTGTTTCTTAGAATTGCAGATAAAAACCACAACAAAAA
1 AAAACTAAGTCTAATTTTATTAAAAACTTGTTTCTTAGAATTGCAGATAAAAACCACAACAAAAA
* * *
3369682 TTTTTCCTAGAACCATATTCTGTTAAAAATCAATATTTCATGTAAATTCGGTAAAACATCAACAG
66 TTTTTACTAAAACCATATTCTGTTAAAAATCAATATTTCATGTAAATTCGATAAAACATCAACAG
* * *
3369747 ACAATTTAAAACCTCATAAATCAAGTCATATTTTTGTCAAAAACTCATTTCCATTTTCGAAGCGG
131 ACAATTTAAAACCTCAAAAATCAAGTCATATTTTCGTCAAAAACTCATTTCCATTGTCGAAGCGG
3369812 AAAATAGTGATTTTGTCAAGTTTTAATAGAAACCAAGTTTCATGCGTATTCTTATCAAACACTAA
196 AAAATAGTGATTTTGTCAAGTTTTAATAGAAACCAAGTTTCATGCGTATTCTTATCAAACACTAA
*
3369877 TTTATGAAGTTTTTAAAACTTGATATCAAGCAATCAACTCTTGCATATCAGAATGAAAAATCCCC
261 TTTATGAAGTTTTTAAAACTTAATATCAAGCAATCAACTCTTGCATATCAGAATGAAAAATCCCC
* * *
3369942 AAAGTAAAGTCTTATGCCATAGCCCATACTCAAACTTATTACAATCCAAAAATAAAAAATATTAA
326 AAAGTAAAGTCTCATGCCACAGCCCATACTCAAACTTATTACAATCCAAAAACAAAAAATATTAA
3370007 GATAAACTTTAATTACTTTAATTTAAAAAGAATTCCGAGAAACTCCTCCAAATGTTGTCATCGAA
391 GATAAACTTTAATTACTTTAATTTAAAAAGAATTCCGAGAAACTCCTCCAAATGTTGTCATCGAA
3370072 TCCTAA-CTCAAGGTTATCTATAAAATCAA
456 TCCTAACCTCAAGGTTATCTATAAAATCAA
* *
3370101 AAAACTAAGTCTAATTTTATTAAAAACTTGTTTCTTAGAATTGCAGATAAGAACCACAACGAAAA
1 AAAACTAAGTCTAATTTTATTAAAAACTTGTTTCTTAGAATTGCAGATAAAAACCACAACAAAAA
*
3370166 TTTTTACTAAAACCATATTTTGTTAAAAATCAATATTTCATGTAAATTCGATAAAACATCAACAG
66 TTTTTACTAAAACCATATTCTGTTAAAAATCAATATTTCATGTAAATTCGATAAAACATCAACAG
* * *
3370231 ACAATTTAAAATCTCAAAAATCAAGTCATATTTTCGTCTAAAACTTATTTCCATTGTCGAAGCGG
131 ACAATTTAAAACCTCAAAAATCAAGTCATATTTTCGTCAAAAACTCATTTCCATTGTCGAAGCGG
* *
3370296 AAAATAGTGATTTTGTCAAGTTTTAATAGAAACCAAGTTTCATGTGTATTCTTATCAAATACTAA
196 AAAATAGTGATTTTGTCAAGTTTTAATAGAAACCAAGTTTCATGCGTATTCTTATCAAACACTAA
* * *
3370361 TTTATGCAGTTTTTAAAACTTAATGTCATGCAATCAACTCTTGCATATCAGAATGAAAAATCCCC
261 TTTATGAAGTTTTTAAAACTTAATATCAAGCAATCAACTCTTGCATATCAGAATGAAAAATCCCC
** * *
3370426 AAAGTAAAGTCTCATGCCACAGTGCATATTCAAACTTATTACAATCCCAAAACAAAAAATATTAA
326 AAAGTAAAGTCTCATGCCACAGCCCATACTCAAACTTATTACAATCCAAAAACAAAAAATATTAA
* *
3370491 GATAAACTTTAATTACTTTAATTTAAAAAGAATTTCGAGAAACTCCTCCAAATGTTGTTATCGAA
391 GATAAACTTTAATTACTTTAATTTAAAAAGAATTCCGAGAAACTCCTCCAAATGTTGTCATCGAA
**
3370556 TCCTAACCTCGGGGTTATCTATAAAATCAA
456 TCCTAACCTCAAGGTTATCTATAAAATCAA
3370586 AAAACTAA
1 AAAACTAA
3370594 ATACGGTGAG
Statistics
Matches: 463, Mismatches: 29, Indels: 1
0.94 0.06 0.00
Matches are distributed among these distances:
484 434 0.94
485 29 0.06
ACGTcount: A:0.41, C:0.17, G:0.10, T:0.32
Consensus pattern (485 bp):
AAAACTAAGTCTAATTTTATTAAAAACTTGTTTCTTAGAATTGCAGATAAAAACCACAACAAAAA
TTTTTACTAAAACCATATTCTGTTAAAAATCAATATTTCATGTAAATTCGATAAAACATCAACAG
ACAATTTAAAACCTCAAAAATCAAGTCATATTTTCGTCAAAAACTCATTTCCATTGTCGAAGCGG
AAAATAGTGATTTTGTCAAGTTTTAATAGAAACCAAGTTTCATGCGTATTCTTATCAAACACTAA
TTTATGAAGTTTTTAAAACTTAATATCAAGCAATCAACTCTTGCATATCAGAATGAAAAATCCCC
AAAGTAAAGTCTCATGCCACAGCCCATACTCAAACTTATTACAATCCAAAAACAAAAAATATTAA
GATAAACTTTAATTACTTTAATTTAAAAAGAATTCCGAGAAACTCCTCCAAATGTTGTCATCGAA
TCCTAACCTCAAGGTTATCTATAAAATCAA
Found at i:3370933 original size:45 final size:45
Alignment explanation
Indices: 3370841--3370966 Score: 191
Period size: 45 Copynumber: 2.8 Consensus size: 45
3370831 AAATTTACAT
* * *
3370841 ACAAGCTACCATGCAGGTTATGGATAAA-CCACCAATATTCGCAG
1 ACAAGCTGCCATGTAGGTTGTGGATAAAGCCACCAATATTCGCAG
3370885 ACAAGCTGCCATGTAGGTTGTGGATAAAGCCACCAATATTCGCAG
1 ACAAGCTGCCATGTAGGTTGTGGATAAAGCCACCAATATTCGCAG
* **
3370930 ACAAGCTGACATGTAGGTTGTGGACGAAGCCACCAAT
1 ACAAGCTGCCATGTAGGTTGTGGATAAAGCCACCAAT
3370967 TCTTCCGCCT
Statistics
Matches: 75, Mismatches: 6, Indels: 1
0.91 0.07 0.01
Matches are distributed among these distances:
44 25 0.33
45 50 0.67
ACGTcount: A:0.33, C:0.23, G:0.23, T:0.21
Consensus pattern (45 bp):
ACAAGCTGCCATGTAGGTTGTGGATAAAGCCACCAATATTCGCAG
Found at i:3373963 original size:27 final size:26
Alignment explanation
Indices: 3373926--3374001 Score: 100
Period size: 27 Copynumber: 2.9 Consensus size: 26
3373916 ACATATATTC
* *
3373926 TCAAAATTTTACCAGGGATAAAATTA
1 TCAAAATTTTACCAGGGGTAAAATCA
*
3373952 TCAAAAATTTTATCAGGGGTAAAATCA
1 TC-AAAATTTTACCAGGGGTAAAATCA
*
3373979 TC-AAATTTTACTAGGGGTAAAAT
1 TCAAAATTTTACCAGGGGTAAAAT
3374002 AGGGATGATA
Statistics
Matches: 44, Mismatches: 5, Indels: 3
0.85 0.10 0.06
Matches are distributed among these distances:
25 19 0.43
26 2 0.05
27 23 0.52
ACGTcount: A:0.43, C:0.11, G:0.14, T:0.32
Consensus pattern (26 bp):
TCAAAATTTTACCAGGGGTAAAATCA
Found at i:3378060 original size:18 final size:18
Alignment explanation
Indices: 3378036--3378083 Score: 53
Period size: 18 Copynumber: 2.6 Consensus size: 18
3378026 TATAAAGCTA
3378036 AAAGAAA-AATACAAAGAT
1 AAAGAAAGAA-ACAAAGAT
* *
3378054 TAAGAAAGAAAGAAAGAT
1 AAAGAAAGAAACAAAGAT
3378072 AAAGAAATGAAA
1 AAAGAAA-GAAA
3378084 GCATAATCAA
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
18 19 0.76
19 6 0.24
ACGTcount: A:0.71, C:0.02, G:0.17, T:0.10
Consensus pattern (18 bp):
AAAGAAAGAAACAAAGAT
Found at i:3378075 original size:14 final size:16
Alignment explanation
Indices: 3378058--3378089 Score: 50
Period size: 14 Copynumber: 2.1 Consensus size: 16
3378048 AAAGATTAAG
3378058 AAAGAAA-GAAAG-AT
1 AAAGAAATGAAAGCAT
3378072 AAAGAAATGAAAGCAT
1 AAAGAAATGAAAGCAT
3378088 AA
1 AA
3378090 TCAACTTTCA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 7 0.44
15 5 0.31
16 4 0.25
ACGTcount: A:0.69, C:0.03, G:0.19, T:0.09
Consensus pattern (16 bp):
AAAGAAATGAAAGCAT
Found at i:3378732 original size:22 final size:22
Alignment explanation
Indices: 3378706--3378749 Score: 88
Period size: 22 Copynumber: 2.0 Consensus size: 22
3378696 AACAAAAAAG
3378706 TGTGATAAAAACATTATTATGA
1 TGTGATAAAAACATTATTATGA
3378728 TGTGATAAAAACATTATTATGA
1 TGTGATAAAAACATTATTATGA
3378750 GGCGAATTAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.45, C:0.05, G:0.14, T:0.36
Consensus pattern (22 bp):
TGTGATAAAAACATTATTATGA
Found at i:3381792 original size:440 final size:440
Alignment explanation
Indices: 3380971--3381851 Score: 1438
Period size: 440 Copynumber: 2.0 Consensus size: 440
3380961 TGTATCTATC
* * * * *
3380971 AAACATAGGACAAAATATGTTGTTTTAATTCATTATGCAACTAAACAAGTTTGTAATATTCAATT
1 AAACATAAGACAAAATATATTGTTTTAATTCATTATGCAACTAAACAAGTTTGCAACATTCAAAT
* * * *
3381036 ACTCAATTCACGTATTAGGAGTTATGCATGTATTTGTAATTTGTTATAATGACATACCTCGCAGT
66 ACTCAATTCACGCATTAGGAGTTATACAGGTATTTGTAATTTGTTATAATGACATACCTCGCAAT
3381101 TTTGAGTTGTAGCCTCGTGAGCTCCTTCTTGTCTTGGTTATCTTGTTCACCTTGGAGAGTGCAAA
131 TTTGAGTTGTAGCCTCGTGAGCTCCTTCTTGTCTTGGTTATCTTGTTCACCTTGGAGAGTGCAAA
*
3381166 CTATTGGATTCATCTAGGTTTCTTCCTAATCTATGCATAGTACTTACAGTGTGTCATAACTCGGG
196 CTATTGGATTCATCTAGGTTTCTTCCTAATCTATACATAGTACTTACAGTGTGTCATAACTCGGG
* *
3381231 GTCTCTCTATGCTCGAGTAGGATTTTCCCTCTTTGTTCGATGACAACAAAGGATGCTAACTTGGA
261 GTCTCTCTATGCTCGAGTAGAATTTTCCCTCTTTGTTCGATGAAAACAAAGGATGCTAACTTGGA
* * * * ** *
3381296 CAAAACATTAGCACATGTGTTGTCACTTTTCGGGAGCTGTTTAATTTGAACTTTGTCAAACCCTG
326 CAAAACATCAGCACACGTGTTATCACTTCTCGGGAGCTGTTTAATCAGAACTTTGTCAAACCCTA
* *
3381361 CAAGTAACTGGGCTACAATAAAATGATATTTCTTTAACACCGCCTCTTTT
391 CAAGCAACTAGGCTACAATAAAATGATATTTCTTTAACACCGCCTCTTTT
3381411 AAACATAAGACAAAATATATTGTTTTAATTCATTATGCAACTAAACAAGTTTGCAACATTCAAAT
1 AAACATAAGACAAAATATATTGTTTTAATTCATTATGCAACTAAACAAGTTTGCAACATTCAAAT
* *
3381476 ATTCAATTCATGCATTAGGAGTTATACAGGTATTTGTAATTTGTTATAATGACATACCTCGCAAT
66 ACTCAATTCACGCATTAGGAGTTATACAGGTATTTGTAATTTGTTATAATGACATACCTCGCAAT
*
3381541 TTTGAGTTGTAGCCTCGTGAGCTCCTTCTTGTCTTGGTTATCTTGTTCACCTTGGAGAGTGTAAA
131 TTTGAGTTGTAGCCTCGTGAGCTCCTTCTTGTCTTGGTTATCTTGTTCACCTTGGAGAGTGCAAA
* *
3381606 CTATTGGATTCATCTAGGTTTCTTCTTGATCTATACATAGTACTTACAGTGTGTCATAACTCGGG
196 CTATTGGATTCATCTAGGTTTCTTCCTAATCTATACATAGTACTTACAGTGTGTCATAACTCGGG
* *
3381671 GTCTCTTTATGCTCGAGTAGAATTTTCCCTCTTTGTTTGATGAAAACAAAGGATGCTAACTTGGA
261 GTCTCTCTATGCTCGAGTAGAATTTTCCCTCTTTGTTCGATGAAAACAAAGGATGCTAACTTGGA
* ** *
3381736 CAAAGCATCAGCATGCGTGTTATCACTTCTCGGGAGCTGTTTAATCAGAACTTTGTCAGACCCTA
326 CAAAACATCAGCACACGTGTTATCACTTCTCGGGAGCTGTTTAATCAGAACTTTGTCAAACCCTA
** * *
3381801 CAAGCAACTAGGCTACAATAGCATGATATTTGTTTAACACTGCCTCTTTT
391 CAAGCAACTAGGCTACAATAAAATGATATTTCTTTAACACCGCCTCTTTT
3381851 A
1 A
3381852 CATCGTATTC
Statistics
Matches: 405, Mismatches: 36, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
440 405 1.00
ACGTcount: A:0.28, C:0.18, G:0.17, T:0.36
Consensus pattern (440 bp):
AAACATAAGACAAAATATATTGTTTTAATTCATTATGCAACTAAACAAGTTTGCAACATTCAAAT
ACTCAATTCACGCATTAGGAGTTATACAGGTATTTGTAATTTGTTATAATGACATACCTCGCAAT
TTTGAGTTGTAGCCTCGTGAGCTCCTTCTTGTCTTGGTTATCTTGTTCACCTTGGAGAGTGCAAA
CTATTGGATTCATCTAGGTTTCTTCCTAATCTATACATAGTACTTACAGTGTGTCATAACTCGGG
GTCTCTCTATGCTCGAGTAGAATTTTCCCTCTTTGTTCGATGAAAACAAAGGATGCTAACTTGGA
CAAAACATCAGCACACGTGTTATCACTTCTCGGGAGCTGTTTAATCAGAACTTTGTCAAACCCTA
CAAGCAACTAGGCTACAATAAAATGATATTTCTTTAACACCGCCTCTTTT
Found at i:3387193 original size:39 final size:40
Alignment explanation
Indices: 3387139--3387231 Score: 111
Period size: 40 Copynumber: 2.4 Consensus size: 40
3387129 TAAAAAAATG
** *
3387139 TTTT-AAAAT-ATTTTTTATACTTTTTAATGATTTT-AATT
1 TTTTAAAAATAATTTTTTA-ACTTTTTAACAATTTTAAAGT
*
3387177 TTTTAAAAATAATTTTTTAATTTTTTAACAATTTTAAAGT
1 TTTTAAAAATAATTTTTTAACTTTTTAACAATTTTAAAGT
3387217 TTTTAAAAATTAATT
1 TTTTAAAAA-TAATT
3387232 AAATGTTGAC
Statistics
Matches: 47, Mismatches: 4, Indels: 5
0.84 0.07 0.09
Matches are distributed among these distances:
38 4 0.09
39 18 0.38
40 20 0.43
41 5 0.11
ACGTcount: A:0.38, C:0.02, G:0.02, T:0.58
Consensus pattern (40 bp):
TTTTAAAAATAATTTTTTAACTTTTTAACAATTTTAAAGT
Found at i:3391990 original size:31 final size:32
Alignment explanation
Indices: 3391952--3392018 Score: 127
Period size: 31 Copynumber: 2.1 Consensus size: 32
3391942 TTATTATTAA
3391952 TTACATTCAATAGCTTAGTTTAAT-ATTTTTT
1 TTACATTCAATAGCTTAGTTTAATAATTTTTT
3391983 TTACATTCAATAGCTTAGTTTAATAATTTTTT
1 TTACATTCAATAGCTTAGTTTAATAATTTTTT
3392015 TTAC
1 TTAC
3392019 TTCTAAATGA
Statistics
Matches: 35, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
31 24 0.69
32 11 0.31
ACGTcount: A:0.30, C:0.10, G:0.06, T:0.54
Consensus pattern (32 bp):
TTACATTCAATAGCTTAGTTTAATAATTTTTT
Found at i:3402845 original size:27 final size:27
Alignment explanation
Indices: 3402815--3402869 Score: 110
Period size: 27 Copynumber: 2.0 Consensus size: 27
3402805 ATTTTGAAGG
3402815 TAAGTGACGAATGGATTGAATGAATCA
1 TAAGTGACGAATGGATTGAATGAATCA
3402842 TAAGTGACGAATGGATTGAATGAATCA
1 TAAGTGACGAATGGATTGAATGAATCA
3402869 T
1 T
3402870 TATCAATGTT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.40, C:0.07, G:0.25, T:0.27
Consensus pattern (27 bp):
TAAGTGACGAATGGATTGAATGAATCA
Found at i:3412206 original size:15 final size:16
Alignment explanation
Indices: 3412174--3412207 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
3412164 ATTTCATCTC
*
3412174 ATTTGCATTTAGGTTA
1 ATTTGCATCTAGGTTA
3412190 ATTTGCATCTA-GTTA
1 ATTTGCATCTAGGTTA
3412205 ATT
1 ATT
3412208 AATTTAATTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 7 0.41
16 10 0.59
ACGTcount: A:0.26, C:0.09, G:0.15, T:0.50
Consensus pattern (16 bp):
ATTTGCATCTAGGTTA
Found at i:3423714 original size:223 final size:223
Alignment explanation
Indices: 3423326--3423767 Score: 866
Period size: 223 Copynumber: 2.0 Consensus size: 223
3423316 ATTTTGTTTG
3423326 ATTCTAGATTGATTGCAATTCTTTGTTTAATTTTATTTCTACTTTGTTGATATGTCCCGTGCATA
1 ATTCTAGATTGATTGCAATTCTTTGTTTAATTTTATTTCTACTTTGTTGATATGTCCCGTGCATA
3423391 ATTTGTTTACCCGTTCAAGTAAAATCATGTATGTTCTTCTTACATTTTAAAGTGTTAGAAAGCAT
66 ATTTGTTTACCCGTTCAAGTAAAATCATGTATGTTCTTCTTACATTTTAAAGTGTTAGAAAGCAT
*
3423456 TTGAATTAGTCATTTCATCCAAACAAGATGATAATTAATGGACAGAATATTTGAATGGTGCATGT
131 TTGAATTAATCATTTCATCCAAACAAGATGATAATTAATGGACAGAATATTTGAATGGTGCATGT
3423521 TTGGTTGTTTATGGATTAATAATTTTTT
196 TTGGTTGTTTATGGATTAATAATTTTTT
3423549 ATTCTAGATTGATTGCAATTCTTTGTTTAATTTTATTTCTACTTTGTTGATATGTCCCGTGCATA
1 ATTCTAGATTGATTGCAATTCTTTGTTTAATTTTATTTCTACTTTGTTGATATGTCCCGTGCATA
*
3423614 ATTTGTTTACTCGTTCAAGTAAAATCATGTATGTTCTTCTTACATTTTAAAGTGTTAGAAAGCAT
66 ATTTGTTTACCCGTTCAAGTAAAATCATGTATGTTCTTCTTACATTTTAAAGTGTTAGAAAGCAT
3423679 TTGAATTAATCATTTCATCCAAACAAGATGATAATTAATGGACAGAATATTTGAATGGTGCATGT
131 TTGAATTAATCATTTCATCCAAACAAGATGATAATTAATGGACAGAATATTTGAATGGTGCATGT
3423744 TTGGTTGTTTATGGATTAATAATT
196 TTGGTTGTTTATGGATTAATAATT
3423768 AGATTTGTAA
Statistics
Matches: 217, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
223 217 1.00
ACGTcount: A:0.29, C:0.11, G:0.16, T:0.44
Consensus pattern (223 bp):
ATTCTAGATTGATTGCAATTCTTTGTTTAATTTTATTTCTACTTTGTTGATATGTCCCGTGCATA
ATTTGTTTACCCGTTCAAGTAAAATCATGTATGTTCTTCTTACATTTTAAAGTGTTAGAAAGCAT
TTGAATTAATCATTTCATCCAAACAAGATGATAATTAATGGACAGAATATTTGAATGGTGCATGT
TTGGTTGTTTATGGATTAATAATTTTTT
Found at i:3431272 original size:21 final size:19
Alignment explanation
Indices: 3431240--3431287 Score: 62
Period size: 20 Copynumber: 2.5 Consensus size: 19
3431230 TTTTTTTTTC
3431240 AAAATCAAAATTTTCTTTAA
1 AAAATCAAAATTTTC-TTAA
*
3431260 AAAATCACTAATTTTCTT-A
1 AAAATCA-AAATTTTCTTAA
3431279 AAAATCAAA
1 AAAATCAAA
3431288 GCTTTATTTC
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
18 1 0.04
19 8 0.32
20 9 0.36
21 7 0.28
ACGTcount: A:0.52, C:0.12, G:0.00, T:0.35
Consensus pattern (19 bp):
AAAATCAAAATTTTCTTAA
Found at i:3431539 original size:137 final size:139
Alignment explanation
Indices: 3431258--3431529 Score: 377
Period size: 146 Copynumber: 1.9 Consensus size: 139
3431248 AATTTTCTTT
* *
3431258 AAAAAATCACTAATTTTCTTAAAAATCAAAGCTTTATTTCGAAATAATTGAAAAATATCAAAAAT
1 AAAAAATCACTAATTTTCTTAAAAATCAAAGATTTATTTCGAAATAATTGAAAAAGATCAAAAAT
3431323 TTGTTCTAAAATTTTAAAATTTTCAGTTAAAATGACTAAAAAACATATTTTTATTTTAAAAATCT
66 TTG-------ATTTTAAAATTTTCAGTTAAAATGACTAAAAAACATATTTTTATTTTAAAAATCT
3431388 AAACTTTCTCTTTTAA
124 AAACTTTCTCTTTTAA
* * * *
3431404 AAAAAATCACTATTTTTCTTAAAAATCAAAGATTTATTTTGAAATAGTTGAAAAAGATCAAAACT
1 AAAAAATCACTAATTTTCTTAAAAATCAAAGATTTATTTCGAAATAATTGAAAAAGATCAAAAAT
* ** *
3431469 TTG-TTTTAAATTTTTCCTTTAATATGACTAAAAAA-ATATTTTTATTTTAAAAATCTAAACT
66 TTGATTTTAAAATTTTCAGTTAAAATGACTAAAAAACATATTTTTATTTTAAAAATCTAAACT
3431530 CTTTTTTTTA
Statistics
Matches: 116, Mismatches: 10, Indels: 9
0.86 0.07 0.07
Matches are distributed among these distances:
137 26 0.22
138 28 0.24
146 62 0.53
ACGTcount: A:0.45, C:0.10, G:0.05, T:0.40
Consensus pattern (139 bp):
AAAAAATCACTAATTTTCTTAAAAATCAAAGATTTATTTCGAAATAATTGAAAAAGATCAAAAAT
TTGATTTTAAAATTTTCAGTTAAAATGACTAAAAAACATATTTTTATTTTAAAAATCTAAACTTT
CTCTTTTAA
Found at i:3433104 original size:18 final size:18
Alignment explanation
Indices: 3433062--3433098 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
3433052 TATAATACTA
*
3433062 TAACACCCTCATAAATAT
1 TAACACCCTCATAAATAC
3433080 TAACACCCTCAT-AATAC
1 TAACACCCTCATAAATAC
3433097 TA
1 TA
3433099 GTCACCATTG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 6 0.33
18 12 0.67
ACGTcount: A:0.43, C:0.30, G:0.00, T:0.27
Consensus pattern (18 bp):
TAACACCCTCATAAATAC
Found at i:3438439 original size:21 final size:21
Alignment explanation
Indices: 3438413--3438608 Score: 100
Period size: 21 Copynumber: 9.5 Consensus size: 21
3438403 CGTGTTTACT
3438413 TTCTGTTCAACTCTTTTGAGC
1 TTCTGTTCAACTCTTTTGAGC
* *
3438434 TTCTGTTC--GT-GTTT-A-C
1 TTCTGTTCAACTCTTTTGAGC
*
3438450 TTTCTGTTCAGCTCTTTTGAGC
1 -TTCTGTTCAACTCTTTTGAGC
* * * * * *
3438472 TTTTGTTTAACCCTTATGGGT
1 TTCTGTTCAACTCTTTTGAGC
*
3438493 TTCTATTCAACTCTTTTGAGC
1 TTCTGTTCAACTCTTTTGAGC
* * * *
3438514 TTCTGTTTAACCCTTAT-AGGT
1 TTCTGTTCAACTCTTTTGA-GC
*
3438535 TTCTGTTCAACTCTTTTCAGC
1 TTCTGTTCAACTCTTTTGAGC
* * * * *
3438556 TTCTATTTAACTATTATG-GG
1 TTCTGTTCAACTCTTTTGAGC
* **
3438576 TTTTCGTTCAACTCTTACGAGC
1 TTCT-GTTCAACTCTTTTGAGC
*
3438598 TTCTATTCAAC
1 TTCTGTTCAAC
3438609 CCTTATGGGT
Statistics
Matches: 124, Mismatches: 41, Indels: 20
0.67 0.22 0.11
Matches are distributed among these distances:
16 1 0.01
17 9 0.07
18 3 0.02
19 2 0.02
20 8 0.06
21 95 0.77
22 6 0.05
ACGTcount: A:0.16, C:0.21, G:0.14, T:0.48
Consensus pattern (21 bp):
TTCTGTTCAACTCTTTTGAGC
Found at i:3438444 original size:38 final size:38
Alignment explanation
Indices: 3438402--3438478 Score: 136
Period size: 38 Copynumber: 2.0 Consensus size: 38
3438392 TTGCGAACTC
3438402 TCGTGTTTACTTTCTGTTCAACTCTTTTGAGCTTCTGT
1 TCGTGTTTACTTTCTGTTCAACTCTTTTGAGCTTCTGT
* *
3438440 TCGTGTTTACTTTCTGTTCAGCTCTTTTGAGCTTTTGT
1 TCGTGTTTACTTTCTGTTCAACTCTTTTGAGCTTCTGT
3438478 T
1 T
3438479 TAACCCTTAT
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
38 37 1.00
ACGTcount: A:0.09, C:0.19, G:0.17, T:0.55
Consensus pattern (38 bp):
TCGTGTTTACTTTCTGTTCAACTCTTTTGAGCTTCTGT
Found at i:3438509 original size:42 final size:42
Alignment explanation
Indices: 3438450--3438622 Score: 222
Period size: 42 Copynumber: 4.1 Consensus size: 42
3438440 TCGTGTTTAC
* *
3438450 TTTCTGTTCAGCTCTTTTGAGCTTTTGTTTAACCCTTATGGG
1 TTTCTGTTCAACTCTTTTGAGCTTCTGTTTAACCCTTATGGG
* *
3438492 TTTCTATTCAACTCTTTTGAGCTTCTGTTTAACCCTTATAGG
1 TTTCTGTTCAACTCTTTTGAGCTTCTGTTTAACCCTTATGGG
* * **
3438534 TTTCTGTTCAACTCTTTTCAGCTTCTATTTAACTATTATGGG
1 TTTCTGTTCAACTCTTTTGAGCTTCTGTTTAACCCTTATGGG
** * *
3438576 TTT-TCGTTCAACTCTTACGAGCTTCTATTCAACCCTTATGGG
1 TTTCT-GTTCAACTCTTTTGAGCTTCTGTTTAACCCTTATGGG
3438618 TTTCT
1 TTTCT
3438623 ATTTAGCTCT
Statistics
Matches: 113, Mismatches: 16, Indels: 3
0.86 0.12 0.02
Matches are distributed among these distances:
41 1 0.01
42 111 0.98
43 1 0.01
ACGTcount: A:0.17, C:0.21, G:0.14, T:0.48
Consensus pattern (42 bp):
TTTCTGTTCAACTCTTTTGAGCTTCTGTTTAACCCTTATGGG
Found at i:3438622 original size:21 final size:21
Alignment explanation
Indices: 3438484--3438625 Score: 97
Period size: 21 Copynumber: 6.8 Consensus size: 21
3438474 TTGTTTAACC
3438484 CTTATGGGTTTCTATTCAACT
1 CTTATGGGTTTCTATTCAACT
* * * * * *
3438505 CTTTTGAGCTTCTGTTTAACC
1 CTTATGGGTTTCTATTCAACT
* *
3438526 CTTATAGGTTTCTGTTCAACT
1 CTTATGGGTTTCTATTCAACT
* ** * *
3438547 CTTTTCAGCTTCTATTTAACT
1 CTTATGGGTTTCTATTCAACT
* *
3438568 ATTATGGGTTT-TCGTTCAACT
1 CTTATGGGTTTCT-ATTCAACT
* * * *
3438589 CTTACGAGCTTCTATTCAACC
1 CTTATGGGTTTCTATTCAACT
3438610 CTTATGGGTTTCTATT
1 CTTATGGGTTTCTATT
3438626 TAGCTCTCAT
Statistics
Matches: 85, Mismatches: 34, Indels: 4
0.69 0.28 0.03
Matches are distributed among these distances:
20 1 0.01
21 83 0.98
22 1 0.01
ACGTcount: A:0.18, C:0.21, G:0.13, T:0.47
Consensus pattern (21 bp):
CTTATGGGTTTCTATTCAACT
Found at i:3438641 original size:84 final size:84
Alignment explanation
Indices: 3438467--3438641 Score: 190
Period size: 84 Copynumber: 2.1 Consensus size: 84
3438457 TCAGCTCTTT
* * * ** * *
3438467 TGAGCTTTTGTTTAACCCTTATGGGTTTCTATTCAACTCTTTTGAGCTTCTGTTTAACCCTTATA
1 TGAGCTTCTATTTAACCATTATGGGTTTCTATTCAACTCTTACGAGCTTCTATTCAACCCTTATA
* **
3438532 GGTTTCTGTTCAACTCTTT
66 GGTTTCTATTCAACTCTCA
* * *
3438551 TCAGCTTCTATTTAACTATTATGGGTTT-TCGTTCAACTCTTACGAGCTTCTATTCAACCCTTAT
1 TGAGCTTCTATTTAACCATTATGGGTTTCT-ATTCAACTCTTACGAGCTTCTATTCAACCCTTAT
* * *
3438615 GGGTTTCTATTTAGCTCTCA
65 AGGTTTCTATTCAACTCTCA
3438635 TGAGCTT
1 TGAGCTT
3438642 TTGTTCAGCT
Statistics
Matches: 73, Mismatches: 17, Indels: 2
0.79 0.18 0.02
Matches are distributed among these distances:
83 1 0.01
84 72 0.99
ACGTcount: A:0.18, C:0.21, G:0.14, T:0.46
Consensus pattern (84 bp):
TGAGCTTCTATTTAACCATTATGGGTTTCTATTCAACTCTTACGAGCTTCTATTCAACCCTTATA
GGTTTCTATTCAACTCTCA
Found at i:3443153 original size:19 final size:19
Alignment explanation
Indices: 3443111--3443156 Score: 58
Period size: 19 Copynumber: 2.4 Consensus size: 19
3443101 CCTTTATTTT
*
3443111 ATTTTCTTCTTTTTCTTTC
1 ATTTTCTTCTTTTCCTTTC
*
3443130 ATTTTTTTCTTTTCCATTTC
1 ATTTTCTTCTTTTCC-TTTC
3443150 -TTTTCTT
1 ATTTTCTT
3443157 ATAGATGGAG
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
19 19 0.83
20 4 0.17
ACGTcount: A:0.07, C:0.20, G:0.00, T:0.74
Consensus pattern (19 bp):
ATTTTCTTCTTTTCCTTTC
Found at i:3446666 original size:9 final size:8
Alignment explanation
Indices: 3446651--3446675 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
3446641 GAATACAATA
3446651 ATTTTTTT
1 ATTTTTTT
3446659 ATTTTTTT
1 ATTTTTTT
3446667 ATTTTTTT
1 ATTTTTTT
3446675 A
1 A
3446676 AATTTTAAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.16, C:0.00, G:0.00, T:0.84
Consensus pattern (8 bp):
ATTTTTTT
Found at i:3446692 original size:11 final size:11
Alignment explanation
Indices: 3446678--3446779 Score: 53
Period size: 11 Copynumber: 9.9 Consensus size: 11
3446668 TTTTTTTAAA
3446678 TTTTAAAATAC
1 TTTTAAAATAC
3446689 TTTTAAAATAC
1 TTTTAAAATAC
3446700 TTTTTTTAAAAT--
1 ---TTTTAAAATAC
* *
3446712 TTTT---TTAA
1 TTTTAAAATAC
*
3446720 TTTTAAAATAT
1 TTTTAAAATAC
3446731 TTTTAAAATAC
1 TTTTAAAATAC
*
3446742 TTTT--AAT-T
1 TTTTAAAATAC
*
3446750 TTTTTAAA-A-
1 TTTTAAAATAC
*
3446759 TTTTAAAATAT
1 TTTTAAAATAC
3446770 TTTTAAAATA
1 TTTTAAAATA
3446780 GAATTTTTTA
Statistics
Matches: 72, Mismatches: 6, Indels: 26
0.69 0.06 0.25
Matches are distributed among these distances:
6 1 0.01
8 8 0.11
9 14 0.19
10 3 0.04
11 37 0.51
14 9 0.12
ACGTcount: A:0.41, C:0.03, G:0.00, T:0.56
Consensus pattern (11 bp):
TTTTAAAATAC
Found at i:3446725 original size:17 final size:17
Alignment explanation
Indices: 3446703--3446736 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
3446693 AAAATACTTT
*
3446703 TTTTAAAATTTTTTTAA
1 TTTTAAAATATTTTTAA
3446720 TTTTAAAATATTTTTAA
1 TTTTAAAATATTTTTAA
3446737 AATACTTTTA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (17 bp):
TTTTAAAATATTTTTAA
Found at i:3446787 original size:81 final size:82
Alignment explanation
Indices: 3446662--3446812 Score: 207
Period size: 81 Copynumber: 1.9 Consensus size: 82
3446652 TTTTTTTATT
* **
3446662 TTTTTATTTTTTTAAATTTTAAAATACTTTTAAAATACTTTTTTTAAAATTT-TTTTAA-TTTTA
1 TTTTAATTTTTTTAAATTTTAAAATACTTTTAAAATACAATTTTTAAAATTTATTTTAATTTTTA
3446725 AAATATTTTTAAAATAC
66 AAATATTTTTAAAATAC
* * * **
3446742 TTTTAATTTTTTTAAAATTTTAAAATATTTTTAAAATAGAATTTTTTATTTTTATTTTAATTTTT
1 TTTTAATTTTTTT-AAATTTTAAAATACTTTTAAAATACAATTTTTAAAATTTATTTTAATTTTT
3446807 AAAATA
65 AAAATA
3446813 AATTTTTGGT
Statistics
Matches: 60, Mismatches: 8, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
80 12 0.20
81 32 0.53
82 6 0.10
83 10 0.17
ACGTcount: A:0.38, C:0.02, G:0.01, T:0.60
Consensus pattern (82 bp):
TTTTAATTTTTTTAAATTTTAAAATACTTTTAAAATACAATTTTTAAAATTTATTTTAATTTTTA
AAATATTTTTAAAATAC
Found at i:3446828 original size:32 final size:33
Alignment explanation
Indices: 3446768--3446830 Score: 92
Period size: 32 Copynumber: 1.9 Consensus size: 33
3446758 ATTTTAAAAT
* *
3446768 ATTTTTAAAATAGAATTTTTTATTTTTATTTTA
1 ATTTTTAAAATAGAATTTTTGATATTTATTTTA
*
3446801 ATTTTTAAAATA-AATTTTTGGTATTTATTT
1 ATTTTTAAAATAGAATTTTTGATATTTATTT
3446831 AAAAAACGGG
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
32 15 0.56
33 12 0.44
ACGTcount: A:0.33, C:0.00, G:0.05, T:0.62
Consensus pattern (33 bp):
ATTTTTAAAATAGAATTTTTGATATTTATTTTA
Found at i:3446847 original size:5 final size:5
Alignment explanation
Indices: 3446837--3446867 Score: 53
Period size: 5 Copynumber: 6.0 Consensus size: 5
3446827 ATTTAAAAAA
3446837 CGGGC CGGGC CGGGC CGGGC CGGGCC CGGGC
1 CGGGC CGGGC CGGGC CGGGC CGGG-C CGGGC
3446868 TTATGAATTT
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
5 20 0.80
6 5 0.20
ACGTcount: A:0.00, C:0.42, G:0.58, T:0.00
Consensus pattern (5 bp):
CGGGC
Found at i:3448330 original size:20 final size:20
Alignment explanation
Indices: 3448293--3448332 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
3448283 TTTGAAGGTC
**
3448293 TGAAAAGTAAAATTGTTTGG
1 TGAAAAGTAAAAGGGTTTGG
3448313 TGAAAAGTAAAAGGGTTTGG
1 TGAAAAGTAAAAGGGTTTGG
3448333 GGGTTCGGGG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.40, C:0.00, G:0.30, T:0.30
Consensus pattern (20 bp):
TGAAAAGTAAAAGGGTTTGG
Found at i:3449882 original size:12 final size:12
Alignment explanation
Indices: 3449865--3449889 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
3449855 ACTTAATCAC
3449865 TTTAATATTAAA
1 TTTAATATTAAA
3449877 TTTAATATTAAA
1 TTTAATATTAAA
3449889 T
1 T
3449890 CTATTAAATT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (12 bp):
TTTAATATTAAA
Found at i:3452652 original size:38 final size:39
Alignment explanation
Indices: 3452608--3452690 Score: 96
Period size: 39 Copynumber: 2.2 Consensus size: 39
3452598 TCATAACTTC
* * *
3452608 TTTTCTCACACACTCTCTTTT-TATTTCCTTTTCTTTTT
1 TTTTCTCACACAATCTCTTTTATATTTACTTTTCTTTTA
* * * *
3452646 TTTTCTCTCTCAATCTCTTTTATTTTTATTTTTCTTTTA
1 TTTTCTCACACAATCTCTTTTATATTTACTTTTCTTTTA
3452685 TTTTCT
1 TTTTCT
3452691 TTCATCAATA
Statistics
Matches: 37, Mismatches: 7, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
38 18 0.49
39 19 0.51
ACGTcount: A:0.11, C:0.22, G:0.00, T:0.67
Consensus pattern (39 bp):
TTTTCTCACACAATCTCTTTTATATTTACTTTTCTTTTA
Found at i:3452690 original size:39 final size:40
Alignment explanation
Indices: 3452636--3452717 Score: 121
Period size: 40 Copynumber: 2.1 Consensus size: 40
3452626 TTTTATTTCC
* **
3452636 TTTTCTTTTTTTTTCTCTC-TCAATCTCTTTTATTTTTAT
1 TTTTCTTTTATTTTCTCTCATCAATAACTTTTATTTTTAT
*
3452675 TTTTCTTTTATTTTCTTTCATCAATAACTTTTATTTTTAT
1 TTTTCTTTTATTTTCTCTCATCAATAACTTTTATTTTTAT
3452715 TTT
1 TTT
3452718 CCCTTATTCT
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
39 17 0.45
40 21 0.55
ACGTcount: A:0.15, C:0.15, G:0.00, T:0.71
Consensus pattern (40 bp):
TTTTCTTTTATTTTCTCTCATCAATAACTTTTATTTTTAT
Found at i:3455165 original size:988 final size:988
Alignment explanation
Indices: 3453249--3455224 Score: 3952
Period size: 988 Copynumber: 2.0 Consensus size: 988
3453239 CAATACAAAC
3453249 CTCGTGAATCCACTCAAAAAGAAAAATCACTCTTCTCGTGTTTGTGCACAATTCAGGCTTTTACC
1 CTCGTGAATCCACTCAAAAAGAAAAATCACTCTTCTCGTGTTTGTGCACAATTCAGGCTTTTACC
3453314 ACTCAGTTGATCTCACATGCTCTTGCCTTTTTTCGCTCAAAATTCCTCTTAAGCTCTTCAAGAAC
66 ACTCAGTTGATCTCACATGCTCTTGCCTTTTTTCGCTCAAAATTCCTCTTAAGCTCTTCAAGAAC
3453379 GTTGGAAATGAACCTAACAAAACATGTAACCTTATTGACGTTGATAGGATGTGACAACTTGAAGG
131 GTTGGAAATGAACCTAACAAAACATGTAACCTTATTGACGTTGATAGGATGTGACAACTTGAAGG
3453444 AAATAGAAACAAACAGATGAAAATGACACAAATGACTCAAATACGAAAAATAAAAAAATATATCA
196 AAATAGAAACAAACAGATGAAAATGACACAAATGACTCAAATACGAAAAATAAAAAAATATATCA
3453509 AAGGATTTCTTTGTCACAAGAATTCAACTATATATTTTCTTCATTTTCAATCATGACCCTCTATT
261 AAGGATTTCTTTGTCACAAGAATTCAACTATATATTTTCTTCATTTTCAATCATGACCCTCTATT
3453574 ATAATTTCATTTCAATTTGAATCATTCAAAGCTTTAAAATCATAACACCATTAATTCAATCATAA
326 ATAATTTCATTTCAATTTGAATCATTCAAAGCTTTAAAATCATAACACCATTAATTCAATCATAA
3453639 GCATACACAAATTATATTATACTACATAAACAACAATTAACTCAATTTATATGCTATACAAACTT
391 GCATACACAAATTATATTATACTACATAAACAACAATTAACTCAATTTATATGCTATACAAACTT
3453704 AACTAAATTGATTCTGCAGCAAATATGACTCTAAGGACTAATCAATAATTTTTCCTTTTTCGCAT
456 AACTAAATTGATTCTGCAGCAAATATGACTCTAAGGACTAATCAATAATTTTTCCTTTTTCGCAT
3453769 TTGTCTATCGATTGATTTGTTTCTTGATCTATATAATAATTTAATTTCGTTATCCAATTCAAATC
521 TTGTCTATCGATTGATTTGTTTCTTGATCTATATAATAATTTAATTTCGTTATCCAATTCAAATC
3453834 ATTTTAAATACTAAAATTCATATAATTGACCCTTTAATCAACATTTTATACTTTTACTCTAAACT
586 ATTTTAAATACTAAAATTCATATAATTGACCCTTTAATCAACATTTTATACTTTTACTCTAAACT
3453899 TTTACCTTTTATTCAATTTAGTCCCTAAACCCAAAACTTTCAAATCTATGACAATTTCACCAATT
651 TTTACCTTTTATTCAATTTAGTCCCTAAACCCAAAACTTTCAAATCTATGACAATTTCACCAATT
3453964 TCATGCTAGTCGAATTTTCCCTTATGCCATTAAAGCGGATAATTATTAAAATATCACAATAATTT
716 TCATGCTAGTCGAATTTTCCCTTATGCCATTAAAGCGGATAATTATTAAAATATCACAATAATTT
3454029 CATGCCAAGTTTATTATTTTAACAATTTAGTCATTAAACTTAAAACTAACCCAAATCACTATAAA
781 CATGCCAAGTTTATTATTTTAACAATTTAGTCATTAAACTTAAAACTAACCCAAATCACTATAAA
3454094 AAATAGTCCTATTTAACTATCAAGCTTAATAATCTATTATCAAACTTTAAAAACATCACAAACTC
846 AAATAGTCCTATTTAACTATCAAGCTTAATAATCTATTATCAAACTTTAAAAACATCACAAACTC
3454159 ATCAATGGCATAACTCAAGGCATTTGATAGTTTCACAAACCAGTCCTTGGGTTAGCTAGAATAAG
911 ATCAATGGCATAACTCAAGGCATTTGATAGTTTCACAAACCAGTCCTTGGGTTAGCTAGAATAAG
3454224 TTACAATGATATT
976 TTACAATGATATT
3454237 CTCGTGAATCCACTCAAAAAGAAAAATCACTCTTCTCGTGTTTGTGCACAATTCAGGCTTTTACC
1 CTCGTGAATCCACTCAAAAAGAAAAATCACTCTTCTCGTGTTTGTGCACAATTCAGGCTTTTACC
3454302 ACTCAGTTGATCTCACATGCTCTTGCCTTTTTTCGCTCAAAATTCCTCTTAAGCTCTTCAAGAAC
66 ACTCAGTTGATCTCACATGCTCTTGCCTTTTTTCGCTCAAAATTCCTCTTAAGCTCTTCAAGAAC
3454367 GTTGGAAATGAACCTAACAAAACATGTAACCTTATTGACGTTGATAGGATGTGACAACTTGAAGG
131 GTTGGAAATGAACCTAACAAAACATGTAACCTTATTGACGTTGATAGGATGTGACAACTTGAAGG
3454432 AAATAGAAACAAACAGATGAAAATGACACAAATGACTCAAATACGAAAAATAAAAAAATATATCA
196 AAATAGAAACAAACAGATGAAAATGACACAAATGACTCAAATACGAAAAATAAAAAAATATATCA
3454497 AAGGATTTCTTTGTCACAAGAATTCAACTATATATTTTCTTCATTTTCAATCATGACCCTCTATT
261 AAGGATTTCTTTGTCACAAGAATTCAACTATATATTTTCTTCATTTTCAATCATGACCCTCTATT
3454562 ATAATTTCATTTCAATTTGAATCATTCAAAGCTTTAAAATCATAACACCATTAATTCAATCATAA
326 ATAATTTCATTTCAATTTGAATCATTCAAAGCTTTAAAATCATAACACCATTAATTCAATCATAA
3454627 GCATACACAAATTATATTATACTACATAAACAACAATTAACTCAATTTATATGCTATACAAACTT
391 GCATACACAAATTATATTATACTACATAAACAACAATTAACTCAATTTATATGCTATACAAACTT
3454692 AACTAAATTGATTCTGCAGCAAATATGACTCTAAGGACTAATCAATAATTTTTCCTTTTTCGCAT
456 AACTAAATTGATTCTGCAGCAAATATGACTCTAAGGACTAATCAATAATTTTTCCTTTTTCGCAT
3454757 TTGTCTATCGATTGATTTGTTTCTTGATCTATATAATAATTTAATTTCGTTATCCAATTCAAATC
521 TTGTCTATCGATTGATTTGTTTCTTGATCTATATAATAATTTAATTTCGTTATCCAATTCAAATC
3454822 ATTTTAAATACTAAAATTCATATAATTGACCCTTTAATCAACATTTTATACTTTTACTCTAAACT
586 ATTTTAAATACTAAAATTCATATAATTGACCCTTTAATCAACATTTTATACTTTTACTCTAAACT
3454887 TTTACCTTTTATTCAATTTAGTCCCTAAACCCAAAACTTTCAAATCTATGACAATTTCACCAATT
651 TTTACCTTTTATTCAATTTAGTCCCTAAACCCAAAACTTTCAAATCTATGACAATTTCACCAATT
3454952 TCATGCTAGTCGAATTTTCCCTTATGCCATTAAAGCGGATAATTATTAAAATATCACAATAATTT
716 TCATGCTAGTCGAATTTTCCCTTATGCCATTAAAGCGGATAATTATTAAAATATCACAATAATTT
3455017 CATGCCAAGTTTATTATTTTAACAATTTAGTCATTAAACTTAAAACTAACCCAAATCACTATAAA
781 CATGCCAAGTTTATTATTTTAACAATTTAGTCATTAAACTTAAAACTAACCCAAATCACTATAAA
3455082 AAATAGTCCTATTTAACTATCAAGCTTAATAATCTATTATCAAACTTTAAAAACATCACAAACTC
846 AAATAGTCCTATTTAACTATCAAGCTTAATAATCTATTATCAAACTTTAAAAACATCACAAACTC
3455147 ATCAATGGCATAACTCAAGGCATTTGATAGTTTCACAAACCAGTCCTTGGGTTAGCTAGAATAAG
911 ATCAATGGCATAACTCAAGGCATTTGATAGTTTCACAAACCAGTCCTTGGGTTAGCTAGAATAAG
3455212 TTACAATGATATT
976 TTACAATGATATT
3455225 AAAAACATAA
Statistics
Matches: 988, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
988 988 1.00
ACGTcount: A:0.37, C:0.19, G:0.09, T:0.35
Consensus pattern (988 bp):
CTCGTGAATCCACTCAAAAAGAAAAATCACTCTTCTCGTGTTTGTGCACAATTCAGGCTTTTACC
ACTCAGTTGATCTCACATGCTCTTGCCTTTTTTCGCTCAAAATTCCTCTTAAGCTCTTCAAGAAC
GTTGGAAATGAACCTAACAAAACATGTAACCTTATTGACGTTGATAGGATGTGACAACTTGAAGG
AAATAGAAACAAACAGATGAAAATGACACAAATGACTCAAATACGAAAAATAAAAAAATATATCA
AAGGATTTCTTTGTCACAAGAATTCAACTATATATTTTCTTCATTTTCAATCATGACCCTCTATT
ATAATTTCATTTCAATTTGAATCATTCAAAGCTTTAAAATCATAACACCATTAATTCAATCATAA
GCATACACAAATTATATTATACTACATAAACAACAATTAACTCAATTTATATGCTATACAAACTT
AACTAAATTGATTCTGCAGCAAATATGACTCTAAGGACTAATCAATAATTTTTCCTTTTTCGCAT
TTGTCTATCGATTGATTTGTTTCTTGATCTATATAATAATTTAATTTCGTTATCCAATTCAAATC
ATTTTAAATACTAAAATTCATATAATTGACCCTTTAATCAACATTTTATACTTTTACTCTAAACT
TTTACCTTTTATTCAATTTAGTCCCTAAACCCAAAACTTTCAAATCTATGACAATTTCACCAATT
TCATGCTAGTCGAATTTTCCCTTATGCCATTAAAGCGGATAATTATTAAAATATCACAATAATTT
CATGCCAAGTTTATTATTTTAACAATTTAGTCATTAAACTTAAAACTAACCCAAATCACTATAAA
AAATAGTCCTATTTAACTATCAAGCTTAATAATCTATTATCAAACTTTAAAAACATCACAAACTC
ATCAATGGCATAACTCAAGGCATTTGATAGTTTCACAAACCAGTCCTTGGGTTAGCTAGAATAAG
TTACAATGATATT
Found at i:3457276 original size:12 final size:12
Alignment explanation
Indices: 3457259--3457289 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
3457249 CCTCACACAC
3457259 CCGTGTGCTAGG
1 CCGTGTGCTAGG
*
3457271 CCGTGTGTTAGG
1 CCGTGTGCTAGG
3457283 CCGTGTG
1 CCGTGTG
3457290 AAAACTGGAG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.06, C:0.23, G:0.42, T:0.29
Consensus pattern (12 bp):
CCGTGTGCTAGG
Found at i:3462738 original size:33 final size:33
Alignment explanation
Indices: 3462688--3462766 Score: 131
Period size: 33 Copynumber: 2.4 Consensus size: 33
3462678 GTGGTGACTA
* *
3462688 GTGAGTGGTGAGTGACGCTGGACAGCGGTGGTG
1 GTGATTGGTGAGCGACGCTGGACAGCGGTGGTG
*
3462721 GTGATTGGTGAGCGACGCTGGATAGCGGTGGTG
1 GTGATTGGTGAGCGACGCTGGACAGCGGTGGTG
3462754 GTGATTGGTGAGC
1 GTGATTGGTGAGC
3462767 AGCAGGCGAC
Statistics
Matches: 43, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
33 43 1.00
ACGTcount: A:0.15, C:0.11, G:0.49, T:0.24
Consensus pattern (33 bp):
GTGATTGGTGAGCGACGCTGGACAGCGGTGGTG
Found at i:3463316 original size:22 final size:21
Alignment explanation
Indices: 3463262--3463317 Score: 60
Period size: 23 Copynumber: 2.5 Consensus size: 21
3463252 CTATTAGTTG
3463262 AATTAAAAATAAAAAATATGT
1 AATTAAAAATAAAAAATATGT
*
3463283 ATATAAAGAAATAAAAATATCAT-T
1 A-ATTAA-AAATAAAAA-AT-ATGT
3463307 AATTAAAAATA
1 AATTAAAAATA
3463318 CGTTAATATG
Statistics
Matches: 29, Mismatches: 2, Indels: 7
0.76 0.05 0.18
Matches are distributed among these distances:
21 1 0.03
22 9 0.31
23 13 0.45
24 4 0.14
25 2 0.07
ACGTcount: A:0.66, C:0.02, G:0.04, T:0.29
Consensus pattern (21 bp):
AATTAAAAATAAAAAATATGT
Found at i:3464451 original size:15 final size:16
Alignment explanation
Indices: 3464415--3464456 Score: 59
Period size: 16 Copynumber: 2.7 Consensus size: 16
3464405 TTGAAAATTT
*
3464415 TTTTAAATATATATGA
1 TTTTAAATTTATATGA
3464431 TTTTAAATTTATATG-
1 TTTTAAATTTATATGA
*
3464446 TTTTAACTTTA
1 TTTTAAATTTA
3464457 AATTTAATCA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
15 10 0.42
16 14 0.58
ACGTcount: A:0.36, C:0.02, G:0.05, T:0.57
Consensus pattern (16 bp):
TTTTAAATTTATATGA
Found at i:3465328 original size:13 final size:13
Alignment explanation
Indices: 3465310--3465373 Score: 76
Period size: 13 Copynumber: 4.9 Consensus size: 13
3465300 TTTAAATCAA
*
3465310 ACTTCTCAAAAGC
1 ACTTTTCAAAAGC
* *
3465323 ACTTCTCAAAAGT
1 ACTTTTCAAAAGC
*
3465336 ACTTTTCCACAA-C
1 ACTTTT-CAAAAGC
3465349 ACTTTTCAAAAGC
1 ACTTTTCAAAAGC
3465362 ACTTTTCAAAAG
1 ACTTTTCAAAAG
3465374 TAATGAAGAA
Statistics
Matches: 44, Mismatches: 5, Indels: 4
0.83 0.09 0.08
Matches are distributed among these distances:
12 4 0.09
13 36 0.82
14 4 0.09
ACGTcount: A:0.38, C:0.27, G:0.06, T:0.30
Consensus pattern (13 bp):
ACTTTTCAAAAGC
Found at i:3469596 original size:24 final size:23
Alignment explanation
Indices: 3469542--3469596 Score: 58
Period size: 24 Copynumber: 2.3 Consensus size: 23
3469532 TTTATGAAAA
*
3469542 AGCTTCTAGTTGGAAGGTTTTTAG
1 AGCTTC-AATTGGAAGGTTTTTAG
*
3469566 -GCTTTCAATTGGAAGCGTTTTTTG
1 AGC-TTCAATTGGAAG-GTTTTTAG
3469590 AGCTTCA
1 AGCTTCA
3469597 CATCAACACT
Statistics
Matches: 26, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
23 10 0.38
24 14 0.54
25 2 0.08
ACGTcount: A:0.20, C:0.13, G:0.25, T:0.42
Consensus pattern (23 bp):
AGCTTCAATTGGAAGGTTTTTAG
Found at i:3471837 original size:55 final size:55
Alignment explanation
Indices: 3471771--3471880 Score: 202
Period size: 55 Copynumber: 2.0 Consensus size: 55
3471761 TTTGAGTTGT
*
3471771 GAATGCGCAGCTAAAAATGAGAAAGTTGGTTTAAACATTCAGAAGAAGTTTTTGA
1 GAATGCACAGCTAAAAATGAGAAAGTTGGTTTAAACATTCAGAAGAAGTTTTTGA
*
3471826 GAATGCACAGCTAAAAATGAGAAAGTTGGTTTAAACATTCAGAAGACGTTTTTGA
1 GAATGCACAGCTAAAAATGAGAAAGTTGGTTTAAACATTCAGAAGAAGTTTTTGA
3471881 TCATAAATTA
Statistics
Matches: 53, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
55 53 1.00
ACGTcount: A:0.40, C:0.10, G:0.23, T:0.27
Consensus pattern (55 bp):
GAATGCACAGCTAAAAATGAGAAAGTTGGTTTAAACATTCAGAAGAAGTTTTTGA
Found at i:3476489 original size:3 final size:3
Alignment explanation
Indices: 3476481--3476506 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
3476471 CTCTATCTAT
3476481 TTC TTC TTC TTC TTC TTC TTC TTC TT
1 TTC TTC TTC TTC TTC TTC TTC TTC TT
3476507 ATTATTATCA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.00, C:0.31, G:0.00, T:0.69
Consensus pattern (3 bp):
TTC
Found at i:3488302 original size:40 final size:41
Alignment explanation
Indices: 3488199--3488302 Score: 104
Period size: 40 Copynumber: 2.6 Consensus size: 41
3488189 TGTTATTAGA
* * * * * * *
3488199 AGCACCATAGTGCTAACAAGAGCACGAATGTGCTGTCAAGG
1 AGCACCGTAGTGCTATCAAGAGTACAAAAGTACTATCAAGG
* **
3488240 -GCAGCGTAGTGCTATCTGGAGTACAAAAGTACTAT-AAGG
1 AGCACCGTAGTGCTATCAAGAGTACAAAAGTACTATCAAGG
3488279 AGCACCGTAGTGCTATCAAGAGTA
1 AGCACCGTAGTGCTATCAAGAGTA
3488303 GTTATTTAGG
Statistics
Matches: 49, Mismatches: 13, Indels: 3
0.75 0.20 0.05
Matches are distributed among these distances:
39 4 0.08
40 45 0.92
ACGTcount: A:0.34, C:0.19, G:0.27, T:0.20
Consensus pattern (41 bp):
AGCACCGTAGTGCTATCAAGAGTACAAAAGTACTATCAAGG
Found at i:3493279 original size:30 final size:31
Alignment explanation
Indices: 3493227--3493294 Score: 84
Period size: 30 Copynumber: 2.2 Consensus size: 31
3493217 ACTCTTAAAA
** * **
3493227 TATTTACACTATTAGTCCTTCAACTTTTTTG
1 TATTTACACTATTAACCCTTCAAATTTTGAG
3493258 TATTTACACT-TTAACCCTTCAAATTTTGAG
1 TATTTACACTATTAACCCTTCAAATTTTGAG
3493288 TATTTAC
1 TATTTAC
3493295 TCTTCGGCAA
Statistics
Matches: 32, Mismatches: 5, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
30 22 0.69
31 10 0.31
ACGTcount: A:0.26, C:0.19, G:0.06, T:0.49
Consensus pattern (31 bp):
TATTTACACTATTAACCCTTCAAATTTTGAG
Found at i:3496916 original size:17 final size:19
Alignment explanation
Indices: 3496894--3496928 Score: 56
Period size: 17 Copynumber: 1.9 Consensus size: 19
3496884 TTATTGGTTT
3496894 TGGCTTG-TAA-TTTTCTG
1 TGGCTTGATAACTTTTCTG
3496911 TGGCTTGATAACTTTTCT
1 TGGCTTGATAACTTTTCT
3496929 TTTGGGGATT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 7 0.44
18 3 0.19
19 6 0.38
ACGTcount: A:0.14, C:0.14, G:0.20, T:0.51
Consensus pattern (19 bp):
TGGCTTGATAACTTTTCTG
Found at i:3501129 original size:20 final size:22
Alignment explanation
Indices: 3501088--3501134 Score: 85
Period size: 22 Copynumber: 2.1 Consensus size: 22
3501078 TTTTCCATGG
3501088 TTAGATCCAATTTTTATATATA
1 TTAGATCCAATTTTTATATATA
*
3501110 TTAGATTCAATTTTTATATATA
1 TTAGATCCAATTTTTATATATA
3501132 TTA
1 TTA
3501135 ACATTGATTT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.36, C:0.06, G:0.04, T:0.53
Consensus pattern (22 bp):
TTAGATCCAATTTTTATATATA
Found at i:3501145 original size:22 final size:22
Alignment explanation
Indices: 3501095--3501139 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 22
3501085 TGGTTAGATC
*
3501095 CAATTTTTATATATATTAGATT
1 CAATTTTTATATATATTACATT
3501117 CAATTTTTATATATATTAACATT
1 CAATTTTTATATATATT-ACATT
3501140 GATTTTGCTG
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
22 17 0.81
23 4 0.19
ACGTcount: A:0.38, C:0.07, G:0.02, T:0.53
Consensus pattern (22 bp):
CAATTTTTATATATATTACATT
Found at i:3502125 original size:19 final size:19
Alignment explanation
Indices: 3502103--3502147 Score: 54
Period size: 19 Copynumber: 2.4 Consensus size: 19
3502093 CATTAAAAAT
3502103 TTTAATAATTTAAGTATAA
1 TTTAATAATTTAAGTATAA
* * *
3502122 TTTAATTATTTTATTATAA
1 TTTAATAATTTAAGTATAA
*
3502141 TTAAATA
1 TTTAATA
3502148 TTTTTCGACA
Statistics
Matches: 21, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.53
Consensus pattern (19 bp):
TTTAATAATTTAAGTATAA
Found at i:3502412 original size:18 final size:17
Alignment explanation
Indices: 3502389--3502423 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
3502379 GTCCAAATGT
3502389 ATTATGTAAAAGAGAGAG
1 ATTATGTAAAAGA-AGAG
*
3502407 ATTATGTTAAAGAAGAG
1 ATTATGTAAAAGAAGAG
3502424 TTGGCTACCT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 4 0.25
18 12 0.75
ACGTcount: A:0.49, C:0.00, G:0.26, T:0.26
Consensus pattern (17 bp):
ATTATGTAAAAGAAGAG
Found at i:3504211 original size:26 final size:25
Alignment explanation
Indices: 3504168--3504216 Score: 62
Period size: 26 Copynumber: 1.9 Consensus size: 25
3504158 GTTTTCAATG
*
3504168 TTCTGTTGCTGCTGTTGGGTGCTAAT
1 TTCTGTTGCTACTGTT-GGTGCTAAT
* *
3504194 TTCTGTTGCTATTTTTGGTGCTA
1 TTCTGTTGCTACTGTTGGTGCTA
3504217 TTTTGCTTAA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
25 7 0.35
26 13 0.65
ACGTcount: A:0.08, C:0.14, G:0.27, T:0.51
Consensus pattern (25 bp):
TTCTGTTGCTACTGTTGGTGCTAAT
Found at i:3509269 original size:12 final size:13
Alignment explanation
Indices: 3509252--3509283 Score: 50
Period size: 12 Copynumber: 2.6 Consensus size: 13
3509242 CAGTGCCTCA
3509252 GCCCGTGTC-CGT
1 GCCCGTGTCTCGT
3509264 GCCCGTG-CTCGT
1 GCCCGTGTCTCGT
3509276 GCCCGTGT
1 GCCCGTGT
3509284 AACTCACTAA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
11 1 0.06
12 17 0.94
ACGTcount: A:0.00, C:0.41, G:0.34, T:0.25
Consensus pattern (13 bp):
GCCCGTGTCTCGT
Found at i:3511067 original size:40 final size:40
Alignment explanation
Indices: 3510946--3511078 Score: 151
Period size: 40 Copynumber: 3.3 Consensus size: 40
3510936 AGATCAACTG
* * * * * *
3510946 AACATACCAGACAGAAGCACAGAATAGCTAATCCAACCGA
1 AACACACCAAACAGAAGCTCATAAGAGCTTATCCAACCGA
*
3510986 AACACACCAAAAAGAAGCTCATAAGAGCTTATCCAACCGA
1 AACACACCAAACAGAAGCTCATAAGAGCTTATCCAACCGA
* * *
3511026 AACACACCAAACAGAAGCTCATAAGAG-TTGGTTCAATCGA
1 AACACACCAAACAGAAGCTCATAAGAGCTT-ATCCAACCGA
*
3511066 AACACGCCAAACA
1 AACACACCAAACA
3511079 AAAAGTATAA
Statistics
Matches: 80, Mismatches: 12, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
39 2 0.03
40 78 0.98
ACGTcount: A:0.47, C:0.27, G:0.14, T:0.12
Consensus pattern (40 bp):
AACACACCAAACAGAAGCTCATAAGAGCTTATCCAACCGA
Found at i:3526772 original size:30 final size:30
Alignment explanation
Indices: 3526738--3526802 Score: 112
Period size: 30 Copynumber: 2.2 Consensus size: 30
3526728 CAACTTAACA
*
3526738 AACAAATGCCTCTAAAGTAATAACAAAATT
1 AACAAATGCCTCTAAAATAATAACAAAATT
*
3526768 AACAAATGCCTTTAAAATAATAACAAAATT
1 AACAAATGCCTCTAAAATAATAACAAAATT
3526798 AACAA
1 AACAA
3526803 TAAAATAAGT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 33 1.00
ACGTcount: A:0.57, C:0.15, G:0.05, T:0.23
Consensus pattern (30 bp):
AACAAATGCCTCTAAAATAATAACAAAATT
Found at i:3529167 original size:85 final size:85
Alignment explanation
Indices: 3529024--3529230 Score: 351
Period size: 85 Copynumber: 2.4 Consensus size: 85
3529014 AGAAATTGTG
* * * * *
3529024 AAATCGCGCCATCATGGACGCGATTTCGCTACAGTTGGTCATGTAGGAAATAATTATTTTTTGAC
1 AAATCGTGCCCTCGTGGACGCGATTTTGCTACAGTTGGTCATGTACGAAATAATTATTTTTTGAC
3529089 ATTTCTGAGCAAATAGTGTC
66 ATTTCTGAGCAAATAGTGTC
*
3529109 AAATCGTGCCCTCGTGGACGCGATTTTGCTACAGTTGGTTATGTACGAAATAATTATTTTTTGAC
1 AAATCGTGCCCTCGTGGACGCGATTTTGCTACAGTTGGTCATGTACGAAATAATTATTTTTTGAC
*
3529174 GTTTCTGAGCAAATAGTGTC
66 ATTTCTGAGCAAATAGTGTC
3529194 AAATCGTGCCCTCGTGGACGCGATTTTGCTACAGTTG
1 AAATCGTGCCCTCGTGGACGCGATTTTGCTACAGTTG
3529231 CAAGTTTGGG
Statistics
Matches: 115, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
85 115 1.00
ACGTcount: A:0.25, C:0.18, G:0.23, T:0.34
Consensus pattern (85 bp):
AAATCGTGCCCTCGTGGACGCGATTTTGCTACAGTTGGTCATGTACGAAATAATTATTTTTTGAC
ATTTCTGAGCAAATAGTGTC
Found at i:3532108 original size:29 final size:29
Alignment explanation
Indices: 3532066--3532479 Score: 756
Period size: 29 Copynumber: 14.3 Consensus size: 29
3532056 NNNNNNNNNN
3532066 AATTAAATTAGGTTAGGGTTAGGGTTTTT
1 AATTAAATTAGGTTAGGGTTAGGGTTTTT
3532095 AATTAAATTAGGTTAGGGTTAGGGTTTTT
1 AATTAAATTAGGTTAGGGTTAGGGTTTTT
*
3532124 AATTAAATTAGTTTAGGGTTAGGGTTTTT
1 AATTAAATTAGGTTAGGGTTAGGGTTTTT
3532153 AATTAAATTAGGTTAGGGTTAGGGTTTTT
1 AATTAAATTAGGTTAGGGTTAGGGTTTTT
*
3532182 AATTAAATTAGGTTAGAGTTAGGGTTTTT
1 AATTAAATTAGGTTAGGGTTAGGGTTTTT
*
3532211 AATCAAATTAGGTTAGGGTTAGGGTTTTT
1 AATTAAATTAGGTTAGGGTTAGGGTTTTT
*
3532240 AATTAAATTAGGTTAGGGTTAAGGTTTTT
1 AATTAAATTAGGTTAGGGTTAGGGTTTTT
*
3532269 AATTAAATTAGGTTAGGGTTAAGGTTTTT
1 AATTAAATTAGGTTAGGGTTAGGGTTTTT
3532298 AATTAAATTAGGTTAGGGTTAGGGTTTTT
1 AATTAAATTAGGTTAGGGTTAGGGTTTTT
3532327 AATTAAATTAGGTTAGGGTTAGGGTTTTT
1 AATTAAATTAGGTTAGGGTTAGGGTTTTT
3532356 AATTAAATTAGGTTAGGGTTAGGGTTTTT
1 AATTAAATTAGGTTAGGGTTAGGGTTTTT
3532385 AATTAAATTAGGTTAGGGTTAGGGTTTTT
1 AATTAAATTAGGTTAGGGTTAGGGTTTTT
* *
3532414 AATTAAATTAGGTTAAGGTTAAGGTTTTT
1 AATTAAATTAGGTTAGGGTTAGGGTTTTT
*
3532443 AATCAAATTAGGTTAGGGTTAGGGTTTTT
1 AATTAAATTAGGTTAGGGTTAGGGTTTTT
3532472 AATTAAAT
1 AATTAAAT
3532480 CAAATAATAT
Statistics
Matches: 371, Mismatches: 14, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 371 1.00
ACGTcount: A:0.29, C:0.00, G:0.26, T:0.44
Consensus pattern (29 bp):
AATTAAATTAGGTTAGGGTTAGGGTTTTT
Found at i:3534749 original size:21 final size:21
Alignment explanation
Indices: 3534705--3534753 Score: 55
Period size: 22 Copynumber: 2.2 Consensus size: 21
3534695 TAATATGGAG
*
3534705 TTGAGAGATTTTTTGAAGGAAAT
1 TTGAG-GA-TTTTGGAAGGAAAT
3534728 TGTGAGGATTTTGGAAGG-AAT
1 T-TGAGGATTTTGGAAGGAAAT
3534749 TTGAG
1 TTGAG
3534754 AGTTTAAGAG
Statistics
Matches: 24, Mismatches: 1, Indels: 5
0.80 0.03 0.17
Matches are distributed among these distances:
20 4 0.17
21 4 0.17
22 9 0.38
23 3 0.12
24 4 0.17
ACGTcount: A:0.31, C:0.00, G:0.33, T:0.37
Consensus pattern (21 bp):
TTGAGGATTTTGGAAGGAAAT
Found at i:3534780 original size:52 final size:52
Alignment explanation
Indices: 3534708--3534807 Score: 155
Period size: 52 Copynumber: 1.9 Consensus size: 52
3534698 TATGGAGTTG
* * * *
3534708 AGAGATTTTTTGAAGGAAATTGTGAGGATTTTGGAAGGAATTTGAGAGTTTA
1 AGAGAGTTTTGGAAGGAAATTGAGAGAATTTTGGAAGGAATTTGAGAGTTTA
*
3534760 AGAGAGTTTTGGAAGGAAATTGAGAGAATTTTTGAAGGAATTTGAGAG
1 AGAGAGTTTTGGAAGGAAATTGAGAGAATTTTGGAAGGAATTTGAGAG
3534808 AATTTTTGAA
Statistics
Matches: 43, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
52 43 1.00
ACGTcount: A:0.35, C:0.00, G:0.32, T:0.33
Consensus pattern (52 bp):
AGAGAGTTTTGGAAGGAAATTGAGAGAATTTTGGAAGGAATTTGAGAGTTTA
Found at i:3534786 original size:22 final size:22
Alignment explanation
Indices: 3534760--3534828 Score: 93
Period size: 22 Copynumber: 3.1 Consensus size: 22
3534750 TGAGAGTTTA
*
3534760 AGAGAGTTTTGGAAGGAAATTG
1 AGAGAATTTTGGAAGGAAATTG
* *
3534782 AGAGAATTTTTGAAGGAATTTG
1 AGAGAATTTTGGAAGGAAATTG
* *
3534804 AGAGAATTTTTGAATGAAATTG
1 AGAGAATTTTGGAAGGAAATTG
3534826 AGA
1 AGA
3534829 TGAGATTTGT
Statistics
Matches: 42, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
22 42 1.00
ACGTcount: A:0.39, C:0.00, G:0.29, T:0.32
Consensus pattern (22 bp):
AGAGAATTTTGGAAGGAAATTG
Found at i:3554673 original size:21 final size:21
Alignment explanation
Indices: 3554641--3554681 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
3554631 GAACATTTGG
3554641 TGTATAGGCTAAGAA-AGGCCT
1 TGTATAGGCTAA-AACAGGCCT
3554662 TGTAT-GGCCTAAAACAGGCC
1 TGTATAGG-CTAAAACAGGCC
3554682 CCTCGAGCCT
Statistics
Matches: 18, Mismatches: 0, Indels: 4
0.82 0.00 0.18
Matches are distributed among these distances:
20 4 0.22
21 14 0.78
ACGTcount: A:0.32, C:0.20, G:0.27, T:0.22
Consensus pattern (21 bp):
TGTATAGGCTAAAACAGGCCT
Found at i:3556798 original size:37 final size:37
Alignment explanation
Indices: 3556735--3556807 Score: 94
Period size: 37 Copynumber: 2.0 Consensus size: 37
3556725 CCTGTTTCTG
* *
3556735 TCAAACATAAAGAGATCACTGAACTTGTGCCAAATCC
1 TCAAACATAAAGAGATCACTGAACTTGAGACAAATCC
* *
3556772 TCAAACATAAAGAGATTA-TTATACTTGAGACAAATC
1 TCAAACATAAAGAGATCACTGA-ACTTGAGACAAATC
3556808 ACATTGTTCA
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
36 2 0.06
37 29 0.94
ACGTcount: A:0.44, C:0.19, G:0.12, T:0.25
Consensus pattern (37 bp):
TCAAACATAAAGAGATCACTGAACTTGAGACAAATCC
Found at i:3560270 original size:21 final size:21
Alignment explanation
Indices: 3560238--3560278 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
3560228 GAACATTTGG
3560238 TGTATAGGCTAAGAA-AGGCCT
1 TGTATAGGCTAA-AACAGGCCT
3560259 TGTAT-GGCCTAAAACAGGCC
1 TGTATAGG-CTAAAACAGGCC
3560279 CCTCGAGCCT
Statistics
Matches: 18, Mismatches: 0, Indels: 4
0.82 0.00 0.18
Matches are distributed among these distances:
20 4 0.22
21 14 0.78
ACGTcount: A:0.32, C:0.20, G:0.27, T:0.22
Consensus pattern (21 bp):
TGTATAGGCTAAAACAGGCCT
Found at i:3564431 original size:36 final size:36
Alignment explanation
Indices: 3564387--3564457 Score: 142
Period size: 36 Copynumber: 2.0 Consensus size: 36
3564377 AATTCAAATA
3564387 TGTGCGGATACTACGCGTACCTTGTTTGCTGCCATG
1 TGTGCGGATACTACGCGTACCTTGTTTGCTGCCATG
3564423 TGTGCGGATACTACGCGTACCTTGTTTGCTGCCAT
1 TGTGCGGATACTACGCGTACCTTGTTTGCTGCCAT
3564458 AGTTTCTGCT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 35 1.00
ACGTcount: A:0.14, C:0.25, G:0.27, T:0.34
Consensus pattern (36 bp):
TGTGCGGATACTACGCGTACCTTGTTTGCTGCCATG
Found at i:3570644 original size:29 final size:28
Alignment explanation
Indices: 3570601--3570660 Score: 77
Period size: 29 Copynumber: 2.1 Consensus size: 28
3570591 TACAGGTTGT
*
3570601 ATGCACTCAACAAAATCATCAA-AGCAGC
1 ATGCACTCAACAAAAACAT-AACAGCAGC
*
3570629 ATGCACTTCAATAAAAACATAACAGCAGC
1 ATGCAC-TCAACAAAAACATAACAGCAGC
3570658 ATG
1 ATG
3570661 GTTGGCCATT
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
28 8 0.29
29 20 0.71
ACGTcount: A:0.47, C:0.25, G:0.12, T:0.17
Consensus pattern (28 bp):
ATGCACTCAACAAAAACATAACAGCAGC
Found at i:3576209 original size:18 final size:19
Alignment explanation
Indices: 3576169--3576206 Score: 53
Period size: 18 Copynumber: 2.1 Consensus size: 19
3576159 GACATCTTTC
*
3576169 AATAAGTGTCTTTCTAAAT
1 AATAAGTGTCTTTCAAAAT
3576188 AATAA-TGTCTTT-AAAAT
1 AATAAGTGTCTTTCAAAAT
3576205 AA
1 AA
3576207 ATACATAATT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
17 6 0.33
18 7 0.39
19 5 0.28
ACGTcount: A:0.45, C:0.08, G:0.08, T:0.39
Consensus pattern (19 bp):
AATAAGTGTCTTTCAAAAT
Found at i:3579148 original size:15 final size:16
Alignment explanation
Indices: 3579128--3579161 Score: 52
Period size: 15 Copynumber: 2.2 Consensus size: 16
3579118 ACTGAAGTTC
*
3579128 AACTTTAGATTTAT-A
1 AACTTTAAATTTATCA
3579143 AACTTTAAATTTATCA
1 AACTTTAAATTTATCA
3579159 AAC
1 AAC
3579162 GCTTCATCTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 13 0.76
16 4 0.24
ACGTcount: A:0.44, C:0.12, G:0.03, T:0.41
Consensus pattern (16 bp):
AACTTTAAATTTATCA
Found at i:3592060 original size:20 final size:21
Alignment explanation
Indices: 3592017--3592092 Score: 70
Period size: 20 Copynumber: 3.8 Consensus size: 21
3592007 GAATTATAGA
* *
3592017 TGCAGAATAGGGGCA-CATACG
1 TGCAGAACAGGGGCACCA-AAG
*
3592038 TGCAG-TCAGGGGCACCAAAG
1 TGCAGAACAGGGGCACCAAAG
*
3592058 TGC-GAACAGGGGCACTAAAG
1 TGCAGAACAGGGGCACCAAAG
*
3592078 TGCA-AACAGGAGCAC
1 TGCAGAACAGGGGCAC
3592093 AAACATGCAA
Statistics
Matches: 46, Mismatches: 6, Indels: 7
0.78 0.10 0.12
Matches are distributed among these distances:
19 1 0.02
20 38 0.83
21 7 0.15
ACGTcount: A:0.34, C:0.22, G:0.33, T:0.11
Consensus pattern (21 bp):
TGCAGAACAGGGGCACCAAAG
Found at i:3600960 original size:26 final size:26
Alignment explanation
Indices: 3600927--3600978 Score: 95
Period size: 26 Copynumber: 2.0 Consensus size: 26
3600917 ACACTTGCTT
3600927 CCTACATATAAAAATGCGAGGTGTTG
1 CCTACATATAAAAATGCGAGGTGTTG
*
3600953 CCTACATATAAAAATGTGAGGTGTTG
1 CCTACATATAAAAATGCGAGGTGTTG
3600979 GTTGAGCTAA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.35, C:0.13, G:0.23, T:0.29
Consensus pattern (26 bp):
CCTACATATAAAAATGCGAGGTGTTG
Found at i:3609420 original size:17 final size:16
Alignment explanation
Indices: 3609394--3609428 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 16
3609384 TGTATCAAGC
*
3609394 CACTATCTTCTAGTGT
1 CACTATCTTCAAGTGT
3609410 CACTGATCTTCAAGTGT
1 CACT-ATCTTCAAGTGT
3609427 CA
1 CA
3609429 ATTTGGTGGT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 4 0.24
17 13 0.76
ACGTcount: A:0.23, C:0.26, G:0.14, T:0.37
Consensus pattern (16 bp):
CACTATCTTCAAGTGT
Found at i:3619582 original size:13 final size:13
Alignment explanation
Indices: 3619564--3619588 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
3619554 TGATTGTAGA
3619564 TTTTTCTTCTTTC
1 TTTTTCTTCTTTC
3619577 TTTTTCTTCTTT
1 TTTTTCTTCTTT
3619589 GGATTCTTTT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.00, C:0.20, G:0.00, T:0.80
Consensus pattern (13 bp):
TTTTTCTTCTTTC
Found at i:3620484 original size:24 final size:24
Alignment explanation
Indices: 3620449--3620518 Score: 81
Period size: 24 Copynumber: 2.9 Consensus size: 24
3620439 CATATTTTTG
3620449 AAGTTATCATGTATTATTATTCTAA
1 AAGTTATCATGTATTATTATT-TAA
* *
3620474 AA-TTATTATGTATTATTACTTAA
1 AAGTTATCATGTATTATTATTTAA
*
3620497 AAGTTATGC-TTTATTATTATTT
1 AAGTTAT-CATGTATTATTATTT
3620519 TATTATTTGT
Statistics
Matches: 38, Mismatches: 5, Indels: 5
0.79 0.10 0.10
Matches are distributed among these distances:
23 5 0.13
24 31 0.82
25 2 0.05
ACGTcount: A:0.34, C:0.06, G:0.07, T:0.53
Consensus pattern (24 bp):
AAGTTATCATGTATTATTATTTAA
Found at i:3623260 original size:11 final size:11
Alignment explanation
Indices: 3623239--3623267 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
3623229 CGGTATGCAC
3623239 AGAGG-TGGAG
1 AGAGGTTGGAG
3623249 AGAGGTTGGAG
1 AGAGGTTGGAG
3623260 AGAGGTTG
1 AGAGGTTG
3623268 CAGTCCAAGT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 5 0.28
11 13 0.72
ACGTcount: A:0.28, C:0.00, G:0.55, T:0.17
Consensus pattern (11 bp):
AGAGGTTGGAG
Found at i:3624191 original size:25 final size:25
Alignment explanation
Indices: 3624162--3624215 Score: 74
Period size: 25 Copynumber: 2.2 Consensus size: 25
3624152 ATTGTGATCA
3624162 TTTTTGAGCCAA-TATTCTTTCAGTC
1 TTTTTGA-CCAATTATTCTTTCAGTC
* *
3624187 TTTTTGACTAATTATTCTTTCATTC
1 TTTTTGACCAATTATTCTTTCAGTC
3624212 TTTT
1 TTTT
3624216 GGATTTCCTT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
24 3 0.12
25 23 0.88
ACGTcount: A:0.19, C:0.17, G:0.07, T:0.57
Consensus pattern (25 bp):
TTTTTGACCAATTATTCTTTCAGTC
Found at i:3626330 original size:44 final size:44
Alignment explanation
Indices: 3626267--3626517 Score: 324
Period size: 44 Copynumber: 5.7 Consensus size: 44
3626257 AAACTATATA
* *
3626267 TCCTATCTCCCTGAACAGCAGTGGAATAGGTAGAAGATTGTAAG
1 TCCTAGCTCCCTGAACAGCAGTGGAATAGGTGGAAGATTGTAAG
* * **
3626311 TCCTAGCTCCCTGACCAGCAGTGGAATAGGTGGAAGACTAAAAG
1 TCCTAGCTCCCTGAACAGCAGTGGAATAGGTGGAAGATTGTAAG
* * * * *
3626355 TCCTAGATTCCTGAACAGTAGTGGAATAGGCGGAAGATTGTAAA
1 TCCTAGCTCCCTGAACAGCAGTGGAATAGGTGGAAGATTGTAAG
* * *
3626399 TTCTAGCTCCCTGAACAGCATTGGAATAGGTGGAAGACTGTAAG
1 TCCTAGCTCCCTGAACAGCAGTGGAATAGGTGGAAGATTGTAAG
* *
3626443 TCCTAGCTCCCTGACCAGCAGTGGAATAGGTAGAAGATTGTAAG
1 TCCTAGCTCCCTGAACAGCAGTGGAATAGGTGGAAGATTGTAAG
* *
3626487 TCCTAGCTCCCTG-ACTAGCTGTGGAGTAGGT
1 TCCTAGCTCCCTGAAC-AGCAGTGGAATAGGT
3626518 TGACAATTAC
Statistics
Matches: 175, Mismatches: 31, Indels: 2
0.84 0.15 0.01
Matches are distributed among these distances:
43 1 0.01
44 174 0.99
ACGTcount: A:0.29, C:0.20, G:0.27, T:0.24
Consensus pattern (44 bp):
TCCTAGCTCCCTGAACAGCAGTGGAATAGGTGGAAGATTGTAAG
Found at i:3627338 original size:13 final size:13
Alignment explanation
Indices: 3627320--3627344 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
3627310 TGATTGCAGA
3627320 TTTTTCTTCTTTC
1 TTTTTCTTCTTTC
3627333 TTTTTCTTCTTT
1 TTTTTCTTCTTT
3627345 GGATTCTTTT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.00, C:0.20, G:0.00, T:0.80
Consensus pattern (13 bp):
TTTTTCTTCTTTC
Found at i:3628239 original size:24 final size:24
Alignment explanation
Indices: 3628203--3628272 Score: 83
Period size: 24 Copynumber: 2.9 Consensus size: 24
3628193 CATAATTTGG
3628203 AAGTTATCG-TGTATTATTATTCTAA
1 AAGTTAT-GTTGTATTATTATT-TAA
*
3628228 AA-TTAT-TATGTATTATTACTTAA
1 AAGTTATGT-TGTATTATTATTTAA
3628251 AAGTTATGTTGTATTATTATTT
1 AAGTTATGTTGTATTATTATTT
3628273 TATTATTTAT
Statistics
Matches: 39, Mismatches: 2, Indels: 9
0.78 0.04 0.18
Matches are distributed among these distances:
23 5 0.13
24 31 0.79
25 3 0.08
ACGTcount: A:0.33, C:0.04, G:0.10, T:0.53
Consensus pattern (24 bp):
AAGTTATGTTGTATTATTATTTAA
Found at i:3633304 original size:17 final size:17
Alignment explanation
Indices: 3633278--3633312 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
3633268 AATTTAGTGT
3633278 TTTTAATGTAAGTTTTA
1 TTTTAATGTAAGTTTTA
* *
3633295 TTTTACTGTATGTTTTA
1 TTTTAATGTAAGTTTTA
3633312 T
1 T
3633313 GATTTTTTAC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.23, C:0.03, G:0.11, T:0.63
Consensus pattern (17 bp):
TTTTAATGTAAGTTTTA
Found at i:3637640 original size:14 final size:15
Alignment explanation
Indices: 3637614--3637644 Score: 55
Period size: 14 Copynumber: 2.1 Consensus size: 15
3637604 AAATACAAAT
3637614 AAAACAACTAATAAA
1 AAAACAACTAATAAA
3637629 AAAACAAC-AATAAA
1 AAAACAACTAATAAA
3637643 AA
1 AA
3637645 TAAGACTGAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 8 0.50
15 8 0.50
ACGTcount: A:0.77, C:0.13, G:0.00, T:0.10
Consensus pattern (15 bp):
AAAACAACTAATAAA
Found at i:3643481 original size:15 final size:16
Alignment explanation
Indices: 3643446--3643492 Score: 55
Period size: 15 Copynumber: 3.1 Consensus size: 16
3643436 ATGTGAAAAA
*
3643446 GAAATAAAAA-AAG-T
1 GAAAGAAAAAGAAGAT
*
3643460 GAGAGAAAAAGAA-AT
1 GAAAGAAAAAGAAGAT
3643475 GAAAGAAAAAGAAGAT
1 GAAAGAAAAAGAAGAT
3643491 GA
1 GA
3643493 GTGTGAAAAA
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
14 8 0.30
15 15 0.56
16 4 0.15
ACGTcount: A:0.68, C:0.00, G:0.23, T:0.09
Consensus pattern (16 bp):
GAAAGAAAAAGAAGAT
Found at i:3643501 original size:33 final size:34
Alignment explanation
Indices: 3643457--3643546 Score: 91
Period size: 36 Copynumber: 2.6 Consensus size: 34
3643447 AAATAAAAAA
3643457 AGTGAGA--GAAAAAGAAATGAAA-GAAAAAGA-
1 AGTGAGATTGAAAAAGAAATGAAACGAAAAAGAG
*
3643487 AGATGAG-TGTGAAAAAGAAAAGAAAACTGAAAAAGAG
1 AG-TGAGAT-TGAAAAAGAAATG-AAAC-GAAAAAGAG
3643524 AGTGAGATTGAAGAAAGAAATGA
1 AGTGAGATTGAA-AAAGAAATGA
3643547 GAGTGCAAAA
Statistics
Matches: 48, Mismatches: 2, Indels: 14
0.75 0.03 0.22
Matches are distributed among these distances:
30 2 0.04
31 4 0.08
33 11 0.23
34 3 0.06
36 17 0.35
37 11 0.23
ACGTcount: A:0.60, C:0.01, G:0.28, T:0.11
Consensus pattern (34 bp):
AGTGAGATTGAAAAAGAAATGAAACGAAAAAGAG
Found at i:3643547 original size:18 final size:17
Alignment explanation
Indices: 3643464--3643564 Score: 80
Period size: 18 Copynumber: 5.8 Consensus size: 17
3643454 AAAAGTGAGA
*
3643464 GAAAAAGAAATGA-A-A
1 GAAAAAGAAATGAGAGT
*
3643479 GAAAAAGAAGATGAGTGT
1 GAAAAAGAA-ATGAGAGT
* * *
3643497 GAAAAAGAAAAGAAAACT
1 GAAAAAGAAATG-AGAGT
* *
3643515 GAAAAAGAGAGTGAGATT
1 GAAAAAGA-AATGAGAGT
3643533 GAAGAAAGAAATGAGAGT
1 GAA-AAAGAAATGAGAGT
*
3643551 GCAAAAGAAATGAG
1 GAAAAAGAAATGAG
3643565 TGATATGGTA
Statistics
Matches: 67, Mismatches: 13, Indels: 10
0.74 0.14 0.11
Matches are distributed among these distances:
15 9 0.13
16 4 0.06
17 13 0.19
18 34 0.51
19 7 0.10
ACGTcount: A:0.59, C:0.02, G:0.28, T:0.11
Consensus pattern (17 bp):
GAAAAAGAAATGAGAGT
Found at i:3646238 original size:16 final size:15
Alignment explanation
Indices: 3646212--3646241 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
3646202 TCCATCAATT
3646212 ACCTTTTTCTATCCC
1 ACCTTTTTCTATCCC
3646227 ACCTTGTTTCTATCC
1 ACCTT-TTTCTATCC
3646242 TAAACCGAAC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.13, C:0.37, G:0.03, T:0.47
Consensus pattern (15 bp):
ACCTTTTTCTATCCC
Found at i:3648089 original size:12 final size:12
Alignment explanation
Indices: 3648062--3648100 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
3648052 AGCTAAAGTA
*
3648062 AATAAAAAATAAT
1 AATAATAAA-AAT
3648075 AATAATAAAAAT
1 AATAATAAAAAT
*
3648087 AATAGTAAAAAT
1 AATAATAAAAAT
3648099 AA
1 AA
3648101 CAACTAAAAC
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
12 16 0.67
13 8 0.33
ACGTcount: A:0.74, C:0.00, G:0.03, T:0.23
Consensus pattern (12 bp):
AATAATAAAAAT
Found at i:3648164 original size:16 final size:17
Alignment explanation
Indices: 3648145--3648198 Score: 55
Period size: 15 Copynumber: 3.5 Consensus size: 17
3648135 AAAAAATAGG
3648145 AATAATAA-AACAAATA
1 AATAATAATAACAAATA
3648161 AAT-ATAATAAC-AATA
1 AATAATAATAACAAATA
* *
3648176 AAAAATAATGA-AAAT-
1 AATAATAATAACAAATA
3648191 AATAATAA
1 AATAATAA
3648199 AATAAAATAA
Statistics
Matches: 32, Mismatches: 3, Indels: 7
0.76 0.07 0.17
Matches are distributed among these distances:
15 17 0.53
16 15 0.47
ACGTcount: A:0.72, C:0.04, G:0.02, T:0.22
Consensus pattern (17 bp):
AATAATAATAACAAATA
Found at i:3648838 original size:13 final size:13
Alignment explanation
Indices: 3648803--3648841 Score: 60
Period size: 13 Copynumber: 3.0 Consensus size: 13
3648793 CGTGTTGGGC
*
3648803 CACACGACCATGT
1 CACACGACCGTGT
*
3648816 TACACGACCGTGT
1 CACACGACCGTGT
3648829 CACACGACCGTGT
1 CACACGACCGTGT
3648842 GGGGTTTTCA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
13 23 1.00
ACGTcount: A:0.26, C:0.36, G:0.21, T:0.18
Consensus pattern (13 bp):
CACACGACCGTGT
Found at i:3648976 original size:45 final size:45
Alignment explanation
Indices: 3648909--3649003 Score: 145
Period size: 45 Copynumber: 2.1 Consensus size: 45
3648899 AGACACGATA
* * *
3648909 GTGTGTCCAGGTCGTGTATGATATTTCTTTGCTTCTCCCATACCC
1 GTGTGTCCAGGCCGTGTATGATATTCCTTCGCTTCTCCCATACCC
* *
3648954 GTGTGTCCAGGCCGTGTGTGATATTCCTTCGCTTCTCCCATGCCC
1 GTGTGTCCAGGCCGTGTATGATATTCCTTCGCTTCTCCCATACCC
3648999 GTGTG
1 GTGTG
3649004 CAAGGTCGTG
Statistics
Matches: 45, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
45 45 1.00
ACGTcount: A:0.11, C:0.28, G:0.24, T:0.37
Consensus pattern (45 bp):
GTGTGTCCAGGCCGTGTATGATATTCCTTCGCTTCTCCCATACCC
Found at i:3651811 original size:18 final size:17
Alignment explanation
Indices: 3651788--3651842 Score: 56
Period size: 19 Copynumber: 3.1 Consensus size: 17
3651778 AACAACTCAT
*
3651788 TTATTAATCTAATATGAG
1 TTATTAA-CTAAGATGAG
*
3651806 TTATTAACTAAGATGAAC
1 TTATTAACTAAGATG-AG
*
3651824 TAAATTAACTAAGATGAG
1 T-TATTAACTAAGATGAG
3651842 T
1 T
3651843 AATTTATTCA
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
17 7 0.23
18 11 0.35
19 13 0.42
ACGTcount: A:0.44, C:0.07, G:0.13, T:0.36
Consensus pattern (17 bp):
TTATTAACTAAGATGAG
Found at i:3653525 original size:12 final size:12
Alignment explanation
Indices: 3653508--3653532 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
3653498 GTTCACAATA
3653508 CTCGATTCAGCC
1 CTCGATTCAGCC
3653520 CTCGATTCAGCC
1 CTCGATTCAGCC
3653532 C
1 C
3653533 CAATCAGAGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.16, C:0.44, G:0.16, T:0.24
Consensus pattern (12 bp):
CTCGATTCAGCC
Found at i:3657920 original size:60 final size:60
Alignment explanation
Indices: 3657838--3657988 Score: 185
Period size: 60 Copynumber: 2.5 Consensus size: 60
3657828 GTGCAACAGG
* * *
3657838 GACACCGAAGTGTATATAGGGGCACTGAAGTGCGAACAAGAGCATAGACGTGCAAATAGA
1 GACACCGAAGTGTATATAGGGGCACCGAAGTACGAACAAGAGCATACACGTGCAAATAGA
* * * * ** *
3657898 GACACCGAAGTGTATATAGGGGCACCGAAGTATGAATAGGGGCATACTGGTGGAAATAGA
1 GACACCGAAGTGTATATAGGGGCACCGAAGTACGAACAAGAGCATACACGTGCAAATAGA
* **
3657958 GACACCGAAGTGTATACATTGGCACCGAAGT
1 GACACCGAAGTGTATATAGGGGCACCGAAGT
3657989 GCAAATAGGG
Statistics
Matches: 78, Mismatches: 13, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
60 78 1.00
ACGTcount: A:0.36, C:0.17, G:0.30, T:0.17
Consensus pattern (60 bp):
GACACCGAAGTGTATATAGGGGCACCGAAGTACGAACAAGAGCATACACGTGCAAATAGA
Found at i:3658001 original size:20 final size:20
Alignment explanation
Indices: 3657835--3658002 Score: 70
Period size: 20 Copynumber: 8.4 Consensus size: 20
3657825 GATGTGCAAC
* *
3657835 AGGGACACCGAAGTGTATAT
1 AGGGGCACCGAAGTGTAAAT
* ** *
3657855 AGGGGCACTGAAGTGCGAAC
1 AGGGGCACCGAAGTGTAAAT
* * ** * *
3657875 AAGAGCATAGACGTGCAAAT
1 AGGGGCACCGAAGTGTAAAT
* * *
3657895 AGAGACACCGAAGTGTATAT
1 AGGGGCACCGAAGTGTAAAT
* *
3657915 AGGGGCACCGAAGTATGAAT
1 AGGGGCACCGAAGTGTAAAT
* *
3657935 AGGGGCATACTG--GTGGAAAT
1 AGGGGC--ACCGAAGTGTAAAT
* * * *
3657955 AGAGACACCGAAGTGTATAC
1 AGGGGCACCGAAGTGTAAAT
** *
3657975 ATTGGCACCGAAGTGCAAAT
1 AGGGGCACCGAAGTGTAAAT
3657995 AGGGGCAC
1 AGGGGCAC
3658003 TGTTATGGAA
Statistics
Matches: 99, Mismatches: 45, Indels: 8
0.65 0.30 0.05
Matches are distributed among these distances:
18 3 0.03
20 93 0.94
22 3 0.03
ACGTcount: A:0.36, C:0.17, G:0.32, T:0.16
Consensus pattern (20 bp):
AGGGGCACCGAAGTGTAAAT
Found at i:3665402 original size:31 final size:31
Alignment explanation
Indices: 3665361--3665420 Score: 77
Period size: 31 Copynumber: 1.9 Consensus size: 31
3665351 TGAGTTTATT
* *
3665361 TCTTTCCTTTTTCGTT-TTATTTTTATTTTTA
1 TCTTTCC-TTTTAGTTGCTATTTTTATTTTTA
*
3665392 TCTTTGCTTTTAGTTGCTATTTTTATTTT
1 TCTTTCCTTTTAGTTGCTATTTTTATTTT
3665421 CTTAAACTTA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
30 7 0.28
31 18 0.72
ACGTcount: A:0.10, C:0.12, G:0.07, T:0.72
Consensus pattern (31 bp):
TCTTTCCTTTTAGTTGCTATTTTTATTTTTA
Found at i:3673706 original size:145 final size:145
Alignment explanation
Indices: 3673443--3673727 Score: 509
Period size: 145 Copynumber: 2.0 Consensus size: 145
3673433 AATTTCATCG
*
3673443 GATACTTGGGAAAGCTCACTCGAAGTGTGCCTTTACATAATCGTAACCTTTCCTTTACGTCATTG
1 GATACTTGGGAAAGCTCACTCGAAGTGTGCCTTTACATAATCGTAACATTTCCTTTACGTCATTG
**
3673508 CTCACAGGAGCTATGAAATGGGCCTTTTTACACGATTTGTGGGTCGAAATGTAAGCTATACAATC
66 CTCACACAAGCTATGAAATGGGCCTTTTTACACGATTTGTGGGTCGAAATGTAAGCTATACAATC
*
3673573 CTGCTTACATAATCA
131 CTGCTCACATAATCA
*
3673588 GATACTTGGGAAAGCTCACAT-GAAGTGTGCCTTTACATAATCTTAACATTTCCTTTACGTCATT
1 GATACTTGGGAAAGCTCAC-TCGAAGTGTGCCTTTACATAATCGTAACATTTCCTTTACGTCATT
3673652 GCTCACACAAGCTATGAAATGGGCCTTTTTACACGATTTGTGGGTCGAAATGTAAGCTATACAAT
65 GCTCACACAAGCTATGAAATGGGCCTTTTTACACGATTTGTGGGTCGAAATGTAAGCTATACAAT
3673717 CCTGCTCACAT
130 CCTGCTCACAT
3673728 GAGCTTTGGA
Statistics
Matches: 134, Mismatches: 5, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
145 133 0.99
146 1 0.01
ACGTcount: A:0.28, C:0.21, G:0.19, T:0.32
Consensus pattern (145 bp):
GATACTTGGGAAAGCTCACTCGAAGTGTGCCTTTACATAATCGTAACATTTCCTTTACGTCATTG
CTCACACAAGCTATGAAATGGGCCTTTTTACACGATTTGTGGGTCGAAATGTAAGCTATACAATC
CTGCTCACATAATCA
Found at i:3676597 original size:19 final size:20
Alignment explanation
Indices: 3676557--3676597 Score: 66
Period size: 20 Copynumber: 2.1 Consensus size: 20
3676547 GTAGGACTTA
3676557 AGACAAATTAAATGGCCTAT
1 AGACAAATTAAATGGCCTAT
*
3676577 AGACAACTTAAATGG-CTAT
1 AGACAAATTAAATGGCCTAT
3676596 AG
1 AG
3676598 GAATTTAGGT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
19 6 0.30
20 14 0.70
ACGTcount: A:0.44, C:0.15, G:0.17, T:0.24
Consensus pattern (20 bp):
AGACAAATTAAATGGCCTAT
Found at i:3678657 original size:6 final size:6
Alignment explanation
Indices: 3678603--3678761 Score: 52
Period size: 6 Copynumber: 25.0 Consensus size: 6
3678593 GTTTCTTCAA
* * * **
3678603 TTTCTT TTTCGATT TTCTCTT TTTCAT TTCCTT TTTCAAT TTT-AA TTTCTT
1 TTTCTT TTTC--TT TT-TCTT TTTCTT TTTCTT TTTC-TT TTTCTT TTTCTT
* * ** *
3678654 TTTCGATT TTCTCTT TTTCGT TTTCTT TTTCTC TCAC-T TCTCTT TTTCTT
1 TTTC--TT TT-TCTT TTTCTT TTTCTT TTTCTT TTTCTT TTTCTT TTTCTT
* * * ** * *
3678704 TTCTCAT TTTCAT TCTCATTT TCTTCTT TTTCTT TTTCAC TTGCCT TTTCTT
1 TT-TCTT TTTCTT TTTC--TT T-TTCTT TTTCTT TTTCTT TTTCTT TTTCTT
3678756 TTTCTT
1 TTTCTT
3678762 CTTTTTGGAT
Statistics
Matches: 113, Mismatches: 27, Indels: 26
0.68 0.16 0.16
Matches are distributed among these distances:
5 7 0.06
6 70 0.62
7 20 0.18
8 10 0.09
9 6 0.05
ACGTcount: A:0.08, C:0.22, G:0.03, T:0.68
Consensus pattern (6 bp):
TTTCTT
Found at i:3678685 original size:20 final size:19
Alignment explanation
Indices: 3678648--3678741 Score: 71
Period size: 21 Copynumber: 4.5 Consensus size: 19
3678638 TCAATTTTAA
3678648 TTTCTTTTTCGATTTTCTCTT
1 TTTCTTTTTC--TTTTCTCTT
*
3678669 TTTCGTTTTCTTTTTCTCTCACT
1 TTTCTTTTTC-TTTTCTCT---T
* *
3678692 TCTCTTTTTCTTTTCTCAT
1 TTTCTTTTTCTTTTCTCTT
* *
3678711 TTTCATTCTCATTTTCTTCTT
1 TTTCTTTTTC-TTTTC-TCTT
3678732 TTTCTTTTTC
1 TTTCTTTTTC
3678742 ACTTGCCTTT
Statistics
Matches: 57, Mismatches: 11, Indels: 10
0.73 0.14 0.13
Matches are distributed among these distances:
19 8 0.14
20 13 0.23
21 20 0.35
22 7 0.12
23 9 0.16
ACGTcount: A:0.05, C:0.23, G:0.02, T:0.69
Consensus pattern (19 bp):
TTTCTTTTTCTTTTCTCTT
Found at i:3678764 original size:33 final size:34
Alignment explanation
Indices: 3678694--3678767 Score: 96
Period size: 33 Copynumber: 2.2 Consensus size: 34
3678684 CTCTCACTTC
* *
3678694 TCTTTTTCTTTTCTCATTTTCATTCTCATTTTCT
1 TCTTTTTCTTTTCTCACTTGCATTCTCATTTTCT
* * *
3678728 TCTTTTTCTTTT-TCACTTGCCTTTTCTTTTTCT
1 TCTTTTTCTTTTCTCACTTGCATTCTCATTTTCT
3678761 TCTTTTT
1 TCTTTTT
3678768 GGATTTTATT
Statistics
Matches: 35, Mismatches: 5, Indels: 1
0.85 0.12 0.02
Matches are distributed among these distances:
33 23 0.66
34 12 0.34
ACGTcount: A:0.05, C:0.23, G:0.01, T:0.70
Consensus pattern (34 bp):
TCTTTTTCTTTTCTCACTTGCATTCTCATTTTCT
Found at i:3680321 original size:20 final size:20
Alignment explanation
Indices: 3680296--3680341 Score: 65
Period size: 20 Copynumber: 2.3 Consensus size: 20
3680286 AATTAAACCG
3680296 AGCTCAAATGAGCTGAATTA
1 AGCTCAAATGAGCTGAATTA
**
3680316 AGCTCATGTGAGCTGAATTA
1 AGCTCAAATGAGCTGAATTA
*
3680336 AACTCA
1 AGCTCA
3680342 TGTGATCTAA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.37, C:0.17, G:0.20, T:0.26
Consensus pattern (20 bp):
AGCTCAAATGAGCTGAATTA
Found at i:3680342 original size:20 final size:20
Alignment explanation
Indices: 3680304--3680346 Score: 77
Period size: 20 Copynumber: 2.1 Consensus size: 20
3680294 CGAGCTCAAA
*
3680304 TGAGCTGAATTAAGCTCATG
1 TGAGCTGAATTAAACTCATG
3680324 TGAGCTGAATTAAACTCATG
1 TGAGCTGAATTAAACTCATG
3680344 TGA
1 TGA
3680347 TCTAAACAGA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.33, C:0.14, G:0.23, T:0.30
Consensus pattern (20 bp):
TGAGCTGAATTAAACTCATG
Found at i:3681131 original size:157 final size:157
Alignment explanation
Indices: 3680845--3681162 Score: 503
Period size: 157 Copynumber: 2.0 Consensus size: 157
3680835 GTCAGACTTG
** * * *
3680845 CAAACTTTGAAATCTACAAGGGACACACAGGTAAGACACAAGCCCGTATCTTAGGTCGTGTGGAC
1 CAAACTTTGAAATCTACAAGGGACACACAACTAAGACACAAGCCCATATCTTAAGCCGTGTGGAC
* * *
3680910 AAGAAATTGGCCAACATGAAGCCATTTCCTTCACCCACCTCAAGCATTTATCTAATCACATTTGC
66 AAGAAATTGGCCAAAATGAAGCCATTTCCTTCACCCACCTCAAGCATTTACCTAACCACATTTGC
*
3680975 AC-ATATGACCAAGGAATCAAACCTACC
131 -CTATATGACCAAGAAATCAAACCTACC
* *
3681002 CAAACTTTGAAATCTACAAGGGACACACAACTAAGACACATGCCCATGTCTTAAGCCGTGTGGAC
1 CAAACTTTGAAATCTACAAGGGACACACAACTAAGACACAAGCCCATATCTTAAGCCGTGTGGAC
* *
3681067 AAGAAATTGGCCAAAATGAAGCCATTTCCTTCACCTACCTCAAGCATTTACCTTACCACATTTGC
66 AAGAAATTGGCCAAAATGAAGCCATTTCCTTCACCCACCTCAAGCATTTACCTAACCACATTTGC
3681132 CTATATGACCAAGAAATCAAACCTACC
131 CTATATGACCAAGAAATCAAACCTACC
3681159 CAAA
1 CAAA
3681163 ACATGCATAA
Statistics
Matches: 147, Mismatches: 13, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
156 1 0.01
157 146 0.99
ACGTcount: A:0.36, C:0.27, G:0.14, T:0.22
Consensus pattern (157 bp):
CAAACTTTGAAATCTACAAGGGACACACAACTAAGACACAAGCCCATATCTTAAGCCGTGTGGAC
AAGAAATTGGCCAAAATGAAGCCATTTCCTTCACCCACCTCAAGCATTTACCTAACCACATTTGC
CTATATGACCAAGAAATCAAACCTACC
Done.