Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold436_ERROPOS236738
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: 236738
ACGTcount: A:0.21, C:0.13, G:0.12, T:0.21
Warning! 79178 characters in sequence are not A, C, G, or T
Found at i:2413 original size:28 final size:29
Alignment explanation
Indices: 2359--2420 Score: 99
Period size: 28 Copynumber: 2.2 Consensus size: 29
2349 GAGAGCATGA
*
2359 ATATGAATGTGATTTGGGCCTAATGGGCC
1 ATATGAATGAGATTTGGGCCTAATGGGCC
*
2388 ATATGAATGAGA-TTGGGCCTAGTGGGCC
1 ATATGAATGAGATTTGGGCCTAATGGGCC
2416 ATATG
1 ATATG
2421 TATGTATGTA
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
28 20 0.65
29 11 0.35
ACGTcount: A:0.26, C:0.13, G:0.32, T:0.29
Consensus pattern (29 bp):
ATATGAATGAGATTTGGGCCTAATGGGCC
Found at i:8638 original size:29 final size:29
Alignment explanation
Indices: 8605--8724 Score: 188
Period size: 29 Copynumber: 4.2 Consensus size: 29
8595 GAACACATGA
*
8605 ATATGGATGTGATTTGGGCCTAATGGGCC
1 ATATGAATGTGATTTGGGCCTAATGGGCC
*
8634 ATATGAATGTAATTTGGGCCTAATGGGCC
1 ATATGAATGTGATTTGGGCCTAATGGGCC
*
8663 ATACGAATGTGATTTGGGCCTAATGGGCC
1 ATATGAATGTGATTTGGGCCTAATGGGCC
* *
8692 ATATGAATGAGA-TTGGGCCTAGTGGGCC
1 ATATGAATGTGATTTGGGCCTAATGGGCC
8720 ATATG
1 ATATG
8725 TTTGTATGTG
Statistics
Matches: 84, Mismatches: 7, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
28 20 0.24
29 64 0.76
ACGTcount: A:0.25, C:0.14, G:0.32, T:0.29
Consensus pattern (29 bp):
ATATGAATGTGATTTGGGCCTAATGGGCC
Found at i:18443 original size:27 final size:27
Alignment explanation
Indices: 18405--18459 Score: 110
Period size: 27 Copynumber: 2.0 Consensus size: 27
18395 CAATGTGGAG
18405 TTGAGCTTAGTATACGGTGAAATAAGA
1 TTGAGCTTAGTATACGGTGAAATAAGA
18432 TTGAGCTTAGTATACGGTGAAATAAGA
1 TTGAGCTTAGTATACGGTGAAATAAGA
18459 T
1 T
18460 AAGTATTTGG
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:0.36, C:0.07, G:0.25, T:0.31
Consensus pattern (27 bp):
TTGAGCTTAGTATACGGTGAAATAAGA
Found at i:28362 original size:40 final size:40
Alignment explanation
Indices: 28318--28505 Score: 272
Period size: 40 Copynumber: 4.7 Consensus size: 40
28308 GCTACTTGCT
28318 CAAATGCCTTCAGGACTTAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCAGGACTTAGCCCGGTTATAGTAACTCGCA
*
28358 CAAATGCCTTCAGGACTTAGCCCGGTTATAGTAACTTGCA
1 CAAATGCCTTCAGGACTTAGCCCGGTTATAGTAACTCGCA
* *
28398 CAAATACCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCAGGACTTAGCCCGGTTATAGTAACTCGCA
* ** * *
28438 CAAATGCCTTCAGG-CTTTGCCC-GAAATTAGTCACTAGCA
1 CAAATGCCTTCAGGACTTAGCCCGGTTA-TAGTAACTCGCA
*
28477 CAAATGCCTTCGGGACTTAGCCCGGTTAT
1 CAAATGCCTTCAGGACTTAGCCCGGTTAT
28506 CATCCGAATA
Statistics
Matches: 130, Mismatches: 15, Indels: 6
0.86 0.10 0.04
Matches are distributed among these distances:
38 2 0.02
39 30 0.23
40 96 0.74
41 2 0.02
ACGTcount: A:0.27, C:0.27, G:0.20, T:0.26
Consensus pattern (40 bp):
CAAATGCCTTCAGGACTTAGCCCGGTTATAGTAACTCGCA
Found at i:28417 original size:80 final size:78
Alignment explanation
Indices: 28295--28505 Score: 300
Period size: 80 Copynumber: 2.7 Consensus size: 78
28285 CCTTCGGAAT
* *
28295 TTAG-CCGGATATAGCTACTTGCTCAAATGCCTTCAGGACTTAGCCCGGTTATAGTAACTCGCAC
1 TTAGCCCGGATATAG-TACTTGCACAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCAC
28359 AAATGCCTTCAGGAC
65 AAATGCCTTCAGG-C
* *
28374 TTAGCCCGGTTATAGTAACTTGCACAAATACCTTCGGGACTTAGCCCGGTTATAGTAACTCGCAC
1 TTAGCCCGGATATAGT-ACTTGCACAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCAC
28439 AAATGCCTTCAGGC
65 AAATGCCTTCAGGC
* * *
28453 TTTGCCC-GAAATTAGTCACTAGCACAAATGCCTTCGGGACTTAGCCCGGTTAT
1 TTAGCCCGGATA-TAGT-ACTTGCACAAATGCCTTCGGGACTTAGCCCGGTTAT
28506 CATCCGAATA
Statistics
Matches: 119, Mismatches: 10, Indels: 6
0.88 0.07 0.04
Matches are distributed among these distances:
78 2 0.02
79 50 0.42
80 67 0.56
ACGTcount: A:0.26, C:0.27, G:0.20, T:0.27
Consensus pattern (78 bp):
TTAGCCCGGATATAGTACTTGCACAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACA
AATGCCTTCAGGC
Found at i:28494 original size:119 final size:119
Alignment explanation
Indices: 28283--28505 Score: 299
Period size: 119 Copynumber: 1.9 Consensus size: 119
28273 CCAAACCAAG
* * * **
28283 TACCTTCGGAATTTAGCCGGATATAGCTACTTGCTCAAATGCCTTCAGGACTTAGCCCGGTTATA
1 TACCTTCGGAACTTAGCCGGATATAGCTACTCGCACAAATGCCTTCAGGACTTAGCCCGAATATA
*
28348 GTAACTCGCACAAATGCCTTCAGGACTTAGCCCGGTTATAGTAACTTGCACAAA
66 GTAACTAGCACAAATGCCTTCAGGACTTAGCCCGGTTATAGTAACTTGCACAAA
* * *
28402 TACCTTCGGGACTTAGCCCGGTTATAG-TAACTCGCACAAATGCCTTCAGG-CTTTGCCCGAA-A
1 TACCTTCGGAACTTAG-CCGGATATAGCT-ACTCGCACAAATGCCTTCAGGACTTAGCCCGAATA
* *
28464 TTAGTCACTAGCACAAATGCCTTCGGGACTTAGCCCGGTTAT
64 -TAGTAACTAGCACAAATGCCTTCAGGACTTAGCCCGGTTAT
28506 CATCCGAATA
Statistics
Matches: 90, Mismatches: 11, Indels: 6
0.84 0.10 0.06
Matches are distributed among these distances:
118 1 0.01
119 61 0.68
120 28 0.31
ACGTcount: A:0.26, C:0.26, G:0.20, T:0.27
Consensus pattern (119 bp):
TACCTTCGGAACTTAGCCGGATATAGCTACTCGCACAAATGCCTTCAGGACTTAGCCCGAATATA
GTAACTAGCACAAATGCCTTCAGGACTTAGCCCGGTTATAGTAACTTGCACAAA
Found at i:32548 original size:39 final size:39
Alignment explanation
Indices: 32494--32667 Score: 201
Period size: 40 Copynumber: 4.4 Consensus size: 39
32484 AAACCAAGTA
* * * *
32494 CCTTCGGAATTTAGCCGGATATAGCT-ACTTGCTCAAATG
1 CCTTCGGGACTTAGCCGGATATAG-TAACTCGCACAAATG
* *
32533 CCTTCAGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAG-CCGGATATAGTAACTCGCACAAATG
*
32573 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAG-CCGGATATAGTAACTCGCACAAATG
* *
32613 CCTTCGGG-CTTAGCCTGGA-ATTAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCC-GGATA-TAGTAACTCGCACAAATG
32652 CCTTCGGGACTTAGCC
1 CCTTCGGGACTTAGCC
32668 CGGTTATCAT
Statistics
Matches: 120, Mismatches: 10, Indels: 9
0.86 0.07 0.06
Matches are distributed among these distances:
38 3 0.03
39 43 0.36
40 74 0.62
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (39 bp):
CCTTCGGGACTTAGCCGGATATAGTAACTCGCACAAATG
Found at i:32571 original size:40 final size:40
Alignment explanation
Indices: 32527--32674 Score: 228
Period size: 40 Copynumber: 3.7 Consensus size: 40
32517 GCTACTTGCT
*
32527 CAAATGCCTTCAGGACTTAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
32567 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
* * * *
32607 CAAATGCCTTCGGG-CTTAGCCTGG-AATTAGTCACTAGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTA-TAGTAACTCGCA
32646 CAAATGCCTTCGGGACTTAGCCCGGTTAT
1 CAAATGCCTTCGGGACTTAGCCCGGTTAT
32675 CATCCGAATA
Statistics
Matches: 98, Mismatches: 7, Indels: 6
0.88 0.06 0.05
Matches are distributed among these distances:
38 1 0.01
39 33 0.34
40 63 0.64
41 1 0.01
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
Found at i:32625 original size:79 final size:80
Alignment explanation
Indices: 32527--32674 Score: 228
Period size: 79 Copynumber: 1.9 Consensus size: 80
32517 GCTACTTGCT
* *
32527 CAAATGCCTTCAGGACTTAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCG
1 CAAATGCCTTCAGGACTTAGCCCGGAAT-TAGTAACTAGCACAAATGCCTTCGGGACTTAGCCCG
32591 GTTATAGTAACTCGCA
65 GTTATAGTAACTCGCA
* * *
32607 CAAATGCCTTC-GGGCTTAGCCTGGAATTAGTCACTAGCACAAATGCCTTCGGGACTTAGCCCGG
1 CAAATGCCTTCAGGACTTAGCCCGGAATTAGTAACTAGCACAAATGCCTTCGGGACTTAGCCCGG
32671 TTAT
66 TTAT
32675 CATCCGAATA
Statistics
Matches: 62, Mismatches: 5, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
79 50 0.81
80 12 0.19
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (80 bp):
CAAATGCCTTCAGGACTTAGCCCGGAATTAGTAACTAGCACAAATGCCTTCGGGACTTAGCCCGG
TTATAGTAACTCGCA
Found at i:44089 original size:40 final size:40
Alignment explanation
Indices: 44035--44152 Score: 209
Period size: 40 Copynumber: 3.0 Consensus size: 40
44025 CGGATGTAAC
* * *
44035 AACCAGCACAAATGCCTTCGGGACTTAACCCAGTTATAAT
1 AACCCGCACGAATGCCTTCGGGACTTAACCCGGTTATAAT
44075 AACCCGCACGAATGCCTTCGGGACTTAACCCGGTTATAAT
1 AACCCGCACGAATGCCTTCGGGACTTAACCCGGTTATAAT
44115 AACCCGCACGAATGCCTTCGGGACTTAACCCGGTTATA
1 AACCCGCACGAATGCCTTCGGGACTTAACCCGGTTATA
44153 TTTTTTTTTC
Statistics
Matches: 75, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
40 75 1.00
ACGTcount: A:0.30, C:0.30, G:0.19, T:0.22
Consensus pattern (40 bp):
AACCCGCACGAATGCCTTCGGGACTTAACCCGGTTATAAT
Found at i:52202 original size:24 final size:26
Alignment explanation
Indices: 52151--52202 Score: 63
Period size: 27 Copynumber: 2.0 Consensus size: 26
52141 ACCAATAGAA
**
52151 ATTATAAGTTGAGAATAATTTATTTTG
1 ATTATAAGTTGAGAAT-ATTTAGCTTG
52178 ATTATAAGTTGAGAAT-TTT-GCTTG
1 ATTATAAGTTGAGAATATTTAGCTTG
52202 A
1 A
52203 GGACAAGGAA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
24 4 0.17
25 3 0.13
27 16 0.70
ACGTcount: A:0.35, C:0.02, G:0.17, T:0.46
Consensus pattern (26 bp):
ATTATAAGTTGAGAATATTTAGCTTG
Found at i:54788 original size:41 final size:40
Alignment explanation
Indices: 54743--54833 Score: 110
Period size: 41 Copynumber: 2.2 Consensus size: 40
54733 CACGTATGCA
* *
54743 CAATTCAGGGATACCGAAGTACAAACATAGGCACCTATATG
1 CAATTCAAGG-TACCGAAGTACAAACAGAGGCACCTATATG
* * * *
54784 CAATTCAAAGGTATCGAAGTACAAACAGGGGCACGTATGTG
1 CAATTC-AAGGTACCGAAGTACAAACAGAGGCACCTATATG
54825 CAATTCAAG
1 CAATTCAAG
54834 ATAATCTTCT
Statistics
Matches: 43, Mismatches: 6, Indels: 3
0.83 0.12 0.06
Matches are distributed among these distances:
40 3 0.07
41 37 0.86
42 3 0.07
ACGTcount: A:0.38, C:0.20, G:0.22, T:0.20
Consensus pattern (40 bp):
CAATTCAAGGTACCGAAGTACAAACAGAGGCACCTATATG
Found at i:59084 original size:6 final size:6
Alignment explanation
Indices: 59054--59116 Score: 58
Period size: 6 Copynumber: 10.3 Consensus size: 6
59044 AAGAAACATT
* *
59054 ATCAGA A-CTAGA ATCAAA ATGAGA ATCAGA ATCAGA ATCAG- ATGACAGA
1 ATCAGA ATC-AGA ATCAGA ATCAGA ATCAGA ATCAGA ATCAGA AT--CAGA
*
59103 ATCAGA ATTAGA AT
1 ATCAGA ATCAGA AT
59117 TAGGTGACAG
Statistics
Matches: 47, Mismatches: 5, Indels: 10
0.76 0.08 0.16
Matches are distributed among these distances:
5 3 0.06
6 38 0.81
7 4 0.09
8 2 0.04
ACGTcount: A:0.51, C:0.13, G:0.17, T:0.19
Consensus pattern (6 bp):
ATCAGA
Found at i:59108 original size:25 final size:25
Alignment explanation
Indices: 59075--59135 Score: 88
Period size: 25 Copynumber: 2.5 Consensus size: 25
59065 AATCAAAATG
59075 AGAATCAGAATCAGAATCAGATGAC
1 AGAATCAGAATCAGAATCAGATGAC
* * *
59100 AGAATCAGAATTAGAATTAGGTGAC
1 AGAATCAGAATCAGAATCAGATGAC
59125 AGAATCA-AATC
1 AGAATCAGAATC
59136 TGTATCACTT
Statistics
Matches: 32, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
24 3 0.09
25 29 0.91
ACGTcount: A:0.48, C:0.13, G:0.20, T:0.20
Consensus pattern (25 bp):
AGAATCAGAATCAGAATCAGATGAC
Found at i:59321 original size:27 final size:27
Alignment explanation
Indices: 59293--59415 Score: 133
Period size: 27 Copynumber: 4.6 Consensus size: 27
59283 AGAACAAATA
* *
59293 TTGTGACAGAGTCACCAGATATAGATA-
1 TTGTGGCAGAGCCACCAGA-ATAGATAT
*
59320 TTGTGGCAGAGCCACCAGAACAGATAT
1 TTGTGGCAGAGCCACCAGAATAGATAT
* *
59347 TTGTGTCATAGCCACCAGAATAGATAT
1 TTGTGGCAGAGCCACCAGAATAGATAT
* *
59374 TTGTGGCATAGCCACCAGAAACAGATA-
1 TTGTGGCAGAGCCACCAG-AATAGATAT
* *
59401 ATGTGGCAAAGCCAC
1 TTGTGGCAGAGCCAC
59416 TTAACAGAAT
Statistics
Matches: 84, Mismatches: 10, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
26 6 0.07
27 71 0.85
28 7 0.08
ACGTcount: A:0.35, C:0.20, G:0.23, T:0.22
Consensus pattern (27 bp):
TTGTGGCAGAGCCACCAGAATAGATAT
Found at i:59378 original size:54 final size:53
Alignment explanation
Indices: 59281--59415 Score: 164
Period size: 54 Copynumber: 2.5 Consensus size: 53
59271 AGCATGGCTG
* *
59281 CCAGAACAAATATTGTGACAGAGTCACCAGATATAGATATTGTGGCAGAGCCA
1 CCAGAACAGATATTGTGACAGAGCCACCAGATATAGATATTGTGGCAGAGCCA
* * *
59334 CCAGAACAGATATTTGTGTCATAGCCACCAGA-ATAGATATTTGTGGCATAGCCA
1 CCAGAACAGATA-TTGTGACAGAGCCACCAGATATAGATA-TTGTGGCAGAGCCA
* * *
59388 CCAGAAACAGATAATGTGGCAAAGCCAC
1 CCAG-AACAGATATTGTGACAGAGCCAC
59416 TTAACAGAAT
Statistics
Matches: 71, Mismatches: 8, Indels: 5
0.85 0.10 0.06
Matches are distributed among these distances:
53 18 0.25
54 45 0.63
55 8 0.11
ACGTcount: A:0.37, C:0.21, G:0.21, T:0.21
Consensus pattern (53 bp):
CCAGAACAGATATTGTGACAGAGCCACCAGATATAGATATTGTGGCAGAGCCA
Found at i:59602 original size:22 final size:22
Alignment explanation
Indices: 59574--59638 Score: 69
Period size: 22 Copynumber: 3.0 Consensus size: 22
59564 GCAAATATGT
* *
59574 TTGGCACACAGACATAATCAGG
1 TTGGCACAAAGCCATAATCAGG
* *
59596 TTGGCACAGAGCCAT-ATGTAGG
1 TTGGCACAAAGCCATAAT-CAGG
*
59618 TTGGCGCAAAGCCATAATCAG
1 TTGGCACAAAGCCATAATCAG
59639 AATAATTGGC
Statistics
Matches: 35, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
21 2 0.06
22 31 0.89
23 2 0.06
ACGTcount: A:0.32, C:0.22, G:0.26, T:0.20
Consensus pattern (22 bp):
TTGGCACAAAGCCATAATCAGG
Found at i:60045 original size:27 final size:28
Alignment explanation
Indices: 59983--60046 Score: 78
Period size: 27 Copynumber: 2.4 Consensus size: 28
59973 CAGCCACTTG
*
59983 CCCACAAGGGCAAAATAGTTATTTAACA
1 CCCACAAGGGCAAAATAGTAATTTAACA
* * *
60011 CCC-TAAGGGCAAAATGGTAATTTTAC-
1 CCCACAAGGGCAAAATAGTAATTTAACA
60037 CCCACAAGGG
1 CCCACAAGGG
60047 TATCTCGGTA
Statistics
Matches: 30, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
26 3 0.10
27 24 0.80
28 3 0.10
ACGTcount: A:0.38, C:0.23, G:0.19, T:0.20
Consensus pattern (28 bp):
CCCACAAGGGCAAAATAGTAATTTAACA
Found at i:60056 original size:27 final size:27
Alignment explanation
Indices: 60026--60375 Score: 497
Period size: 27 Copynumber: 13.0 Consensus size: 27
60016 AGGGCAAAAT
* * * *
60026 GGTAATTTTACCCCACAAGGGTATCTC
1 GGTAATTCTACCCTACAGGGGTATTTC
60053 GGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
60080 GATAATTCTATCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
** *
60107 AATAATTCTACCCTACAGGGGTATTTT
1 GGTAATTCTACCCTACAGGGGTATTTC
*
60134 AGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
60161 GGTAATTCTACCCTACAGGGGTATTTT
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
60188 GATAATTCTACCCTATAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
60215 AGTAATTCTACCCTATAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
60242 AGTAATTCTACCCTATAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
60269 AGG-AATTCTACCCTACAGGGGTATTTC
1 -GGTAATTCTACCCTACAGGGGTATTTC
*
60296 GATAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
60323 GGTAATTCTATCCTACA-GGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
60349 GGTAATTCTACCCTATAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
60376 TATCATTTTG
Statistics
Matches: 295, Mismatches: 25, Indels: 6
0.90 0.08 0.02
Matches are distributed among these distances:
26 25 0.08
27 269 0.91
28 1 0.00
ACGTcount: A:0.25, C:0.20, G:0.19, T:0.35
Consensus pattern (27 bp):
GGTAATTCTACCCTACAGGGGTATTTC
Found at i:62428 original size:27 final size:26
Alignment explanation
Indices: 62382--62439 Score: 71
Period size: 27 Copynumber: 2.2 Consensus size: 26
62372 GAGACTACTC
*
62382 GATATTGTGACGAAGTCACCAGATACA
1 GATATTGTGACGAAGCCACCAGA-ACA
* *
62409 GATATTGTGGCTAAGCCACCAGAACA
1 GATATTGTGACGAAGCCACCAGAACA
*
62435 TATAT
1 GATAT
62440 ATATATGTGG
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
26 7 0.26
27 20 0.74
ACGTcount: A:0.36, C:0.19, G:0.21, T:0.24
Consensus pattern (26 bp):
GATATTGTGACGAAGCCACCAGAACA
Found at i:62500 original size:71 final size:67
Alignment explanation
Indices: 62407--62548 Score: 176
Period size: 67 Copynumber: 2.1 Consensus size: 67
62397 TCACCAGATA
* * * *
62407 CAGATATTGTGGCTAAGCCACCAGAACATATATATATATGTGGCGAAGCCACTAGATTGCAGCGA
1 CAGATATTGTGACGAAGCCACCAG---A-ATAGATATATGTGGCGAAGCCACCAGATTGCAGCGA
*
62472 GGTTGC
62 GGCTGC
* * *
62478 CAGATATTGTGACGAAGTCACCAGAATAGATATATGTGGCGAGGCCACCAGATTGCAGGGAGGCT
1 CAGATATTGTGACGAAGCCACCAGAATAGATATATGTGGCGAAGCCACCAGATTGCAGCGAGGCT
62543 GC
66 GC
62545 CAGA
1 CAGA
62549 ACGCTTCCTT
Statistics
Matches: 63, Mismatches: 8, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
67 41 0.65
68 1 0.02
71 21 0.33
ACGTcount: A:0.31, C:0.20, G:0.28, T:0.21
Consensus pattern (67 bp):
CAGATATTGTGACGAAGCCACCAGAATAGATATATGTGGCGAAGCCACCAGATTGCAGCGAGGCT
GC
Found at i:62526 original size:27 final size:26
Alignment explanation
Indices: 62479--62529 Score: 66
Period size: 27 Copynumber: 1.9 Consensus size: 26
62469 CGAGGTTGCC
*
62479 AGATATTGTGACGAAGTCACCAGAAT
1 AGATATTGTGACGAAGCCACCAGAAT
* *
62505 AGATATATGTGGCGAGGCCACCAGA
1 AGATAT-TGTGACGAAGCCACCAGA
62530 TTGCAGGGAG
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
26 6 0.29
27 15 0.71
ACGTcount: A:0.35, C:0.18, G:0.27, T:0.20
Consensus pattern (26 bp):
AGATATTGTGACGAAGCCACCAGAAT
Found at i:65052 original size:28 final size:28
Alignment explanation
Indices: 65020--65089 Score: 106
Period size: 28 Copynumber: 2.5 Consensus size: 28
65010 AATGAGATTG
*
65020 GCACTAAGTGTGCGAGTTTAATT-GTATA
1 GCACTAAGTGTGCGAGTTTAATTATTA-A
*
65048 GCACTAAGTGTGCGAGTTTGATTATTAA
1 GCACTAAGTGTGCGAGTTTAATTATTAA
65076 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
65090 GACTTACTAT
Statistics
Matches: 39, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
28 37 0.95
29 2 0.05
ACGTcount: A:0.27, C:0.13, G:0.27, T:0.33
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTAATTATTAA
Found at i:72941 original size:28 final size:28
Alignment explanation
Indices: 72909--72978 Score: 97
Period size: 28 Copynumber: 2.5 Consensus size: 28
72899 AATGAGATTG
*
72909 GCACTAAGTGTGCGAGTTTAATT-GTATA
1 GCACTAAGTGTGCGAGTTTAATTATTA-A
*
72937 GCACTAAGTGTGCGAGTTTGATTATTAA
1 GCACTAAGTGTGCGAGTTTAATTATTAA
*
72965 GCATTAAGTGTGCG
1 GCACTAAGTGTGCG
72979 GACTTACTAT
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
28 36 0.95
29 2 0.05
ACGTcount: A:0.27, C:0.11, G:0.27, T:0.34
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTAATTATTAA
Found at i:85970 original size:21 final size:22
Alignment explanation
Indices: 85928--85970 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 22
85918 CTATTTGAAT
**
85928 TTATTAAATTACCTTTTTAACC
1 TTATTAAATTACCTTTAAAACC
*
85950 TTATT-AATTATCTTTAAAACC
1 TTATTAAATTACCTTTAAAACC
85971 ATTCAATTTA
Statistics
Matches: 18, Mismatches: 3, Indels: 1
0.82 0.14 0.05
Matches are distributed among these distances:
21 13 0.72
22 5 0.28
ACGTcount: A:0.35, C:0.16, G:0.00, T:0.49
Consensus pattern (22 bp):
TTATTAAATTACCTTTAAAACC
Found at i:93554 original size:101 final size:102
Alignment explanation
Indices: 93441--93730 Score: 539
Period size: 101 Copynumber: 2.9 Consensus size: 102
93431 GGAATTAGCG
93441 GCCGACCAATATGCATGGATTAATGACTTGAATTATTTATTATGTTTTATGGCATTATGGTATAC
1 GCCGACCAATATGCATGGATTAATGACTTGAATTATTTATTATGTTTTATGGCATTATGGTATAC
93506 TTTAATATATGTTAATATATTATAAAAGAT-AAAGTA
66 TTTAATATATGTTAATATATTATAAAAGATGAAAGTA
*
93542 GCCGACCAATATGCATGGATTAATGAATTGAATTATTTATTATGTTTTATGGCATTATGGTATAC
1 GCCGACCAATATGCATGGATTAATGACTTGAATTATTTATTATGTTTTATGGCATTATGGTATAC
93607 -TTAATATATGTTAATATATTATAAAAGATGAAAGTA
66 TTTAATATATGTTAATATATTATAAAAGATGAAAGTA
* *
93643 GCCGACCAATATGCATGGATTAATGACTTGAATTGTTTATTATATTTTATGGCATTATGGTATAC
1 GCCGACCAATATGCATGGATTAATGACTTGAATTATTTATTATGTTTTATGGCATTATGGTATAC
93708 TTTAATATATGTTAATATATTAT
66 TTTAATATATGTTAATATATTAT
93731 GTTTAAGAAG
Statistics
Matches: 183, Mismatches: 4, Indels: 3
0.96 0.02 0.02
Matches are distributed among these distances:
100 29 0.16
101 132 0.72
102 22 0.12
ACGTcount: A:0.36, C:0.08, G:0.15, T:0.41
Consensus pattern (102 bp):
GCCGACCAATATGCATGGATTAATGACTTGAATTATTTATTATGTTTTATGGCATTATGGTATAC
TTTAATATATGTTAATATATTATAAAAGATGAAAGTA
Found at i:120675 original size:20 final size:20
Alignment explanation
Indices: 120650--120687 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
120640 ATTTTATGTG
*
120650 ATGAATGTGAATGTGTATAT
1 ATGAATGTGAATATGTATAT
120670 ATGAATGTGAATATGTAT
1 ATGAATGTGAATATGTAT
120688 GAATGTGATG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.37, C:0.00, G:0.24, T:0.39
Consensus pattern (20 bp):
ATGAATGTGAATATGTATAT
Found at i:120690 original size:16 final size:15
Alignment explanation
Indices: 120657--120696 Score: 55
Period size: 16 Copynumber: 2.7 Consensus size: 15
120647 GTGATGAATG
120657 TGAATGTG-TATATA
1 TGAATGTGATATATA
*
120671 TGAATGTGAATATGTA
1 TGAATGTG-ATATATA
120687 TGAATGTGAT
1 TGAATGTGAT
120697 GCATAATGTG
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
14 8 0.35
15 2 0.09
16 13 0.57
ACGTcount: A:0.35, C:0.00, G:0.25, T:0.40
Consensus pattern (15 bp):
TGAATGTGATATATA
Found at i:120762 original size:47 final size:47
Alignment explanation
Indices: 120695--120870 Score: 189
Period size: 47 Copynumber: 3.8 Consensus size: 47
120685 TATGAATGTG
*
120695 ATGCATA-ATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAGC
1 ATGCATATATGTGATAAAGCCGAATGGCCAATGTGATGAATGTGAGC
* * * * *
120741 ATGCATATGTGTGATAAGGCCGAATGGCCAATGTGGTGAATATGAAC
1 ATGCATATATGTGATAAAGCCGAATGGCCAATGTGATGAATGTGAGC
* * * *
120788 ATGCATATATGTGGTAAAGCCGAATGGCTAATGTGA-AATATGTATGAGA
1 ATGCATATATGTGATAAAGCCGAATGGCCAATGTGATGA-ATG--TGAGC
* *
120837 ATG--TATATGTGGTAAAGCCGAATGGCTAATGTGA
1 ATGCATATATGTGATAAAGCCGAATGGCCAATGTGA
120871 AATATGTATG
Statistics
Matches: 113, Mismatches: 13, Indels: 7
0.85 0.10 0.05
Matches are distributed among these distances:
46 8 0.07
47 99 0.88
49 6 0.05
ACGTcount: A:0.34, C:0.11, G:0.29, T:0.27
Consensus pattern (47 bp):
ATGCATATATGTGATAAAGCCGAATGGCCAATGTGATGAATGTGAGC
Found at i:120779 original size:25 final size:25
Alignment explanation
Indices: 120704--120779 Score: 63
Period size: 23 Copynumber: 3.2 Consensus size: 25
120694 GATGCATAAT
120704 GTGATAAGGCCGAATGGCCAATGTG
1 GTGATAAGGCCGAATGGCCAATGTG
* * * *
120729 ATGA-ATGTG-AGCAT-G-CATATGT-
1 GTGATAAG-GCCGAATGGCCA-ATGTG
120751 GTGATAAGGCCGAATGGCCAATGTG
1 GTGATAAGGCCGAATGGCCAATGTG
120776 GTGA
1 GTGA
120780 ATATGAACAT
Statistics
Matches: 36, Mismatches: 8, Indels: 14
0.62 0.14 0.24
Matches are distributed among these distances:
22 6 0.17
23 10 0.28
24 10 0.28
25 10 0.28
ACGTcount: A:0.29, C:0.13, G:0.34, T:0.24
Consensus pattern (25 bp):
GTGATAAGGCCGAATGGCCAATGTG
Found at i:120857 original size:94 final size:96
Alignment explanation
Indices: 120695--120973 Score: 265
Period size: 94 Copynumber: 2.9 Consensus size: 96
120685 TATGAATGTG
* * * * * *
120695 ATGCATA-ATGTGATAAGGCCGAATGGCCAATGTGATGA-ATG--TGAGCATGCATATGTGTGAT
1 ATGCATATATGTGGTAAAGCCGAATGGCTAATGTGA-AATATGTATGAGAATGTATATGTG-G-T
* *
120756 AAGGCCGAATGGCCAATGTG-GTGA-ATATGA-AC
63 AAAGCCGAATGGCCAATGTGAAT-ATATATGAGAC
120788 ATGCATATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGAATGTATATGTGGTAAA
1 ATGCATATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGAATGTATATGTGGTAAA
* * *
120853 GCCGAATGGCTAATGTGAAATATGTATGAGAT
66 GCCGAATGGCCAATGTG-AATATATATGAGAC
* *
120885 ATGC--ATATGTGGTAAAGCTGAATGG-TCAATGTGAAATATATATATGAGATATGTATATGTGG
1 ATGCATATATGTGGTAAAGCCGAATGGCT-AATGTG-AA-ATATGTATGAGA-ATGTATATGTGG
* *
120947 TAAAGCCGAATGGCTAGTGTGAA-ATAT
62 TAAAGCCGAATGGCCAATGTGAATATAT
120974 GTAGGCGATG
Statistics
Matches: 159, Mismatches: 15, Indels: 21
0.82 0.08 0.11
Matches are distributed among these distances:
93 8 0.05
94 48 0.30
95 28 0.18
96 25 0.16
97 18 0.11
98 32 0.20
ACGTcount: A:0.35, C:0.09, G:0.28, T:0.29
Consensus pattern (96 bp):
ATGCATATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGAATGTATATGTGGTAAA
GCCGAATGGCCAATGTGAATATATATGAGAC
Found at i:120992 original size:50 final size:48
Alignment explanation
Indices: 120793--120976 Score: 291
Period size: 47 Copynumber: 3.8 Consensus size: 48
120783 TGAACATGCA
120793 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGA-ATG
1 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATG
120840 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATG
1 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATG
* * *
120888 CATATGTGGTAAAGCTGAATGG-TCAATGTGAAATATATATATGAGATATG
1 TATATGTGGTAAAGCCGAATGGCT-AATGTG-AA-ATATGTATGAGATATG
*
120938 TATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTA
1 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTA
120977 GGCGATGTGC
Statistics
Matches: 125, Mismatches: 7, Indels: 9
0.89 0.05 0.06
Matches are distributed among these distances:
47 45 0.36
48 35 0.28
49 4 0.03
50 40 0.32
51 1 0.01
ACGTcount: A:0.36, C:0.07, G:0.27, T:0.31
Consensus pattern (48 bp):
TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATG
Found at i:121220 original size:37 final size:37
Alignment explanation
Indices: 121123--121228 Score: 178
Period size: 36 Copynumber: 2.9 Consensus size: 37
121113 GAAATATATT
*
121123 CGGGTAAGACCCGATGACTACGTGTGGAGATTATGTC
1 CGGGTAAGACCCGATGACTACGTGTGGAGATTTTGTC
121160 CGGGTAAGA-CCGATGACTACGTGTGGAGATTTTGTC
1 CGGGTAAGACCCGATGACTACGTGTGGAGATTTTGTC
* *
121196 CGGGTAAGACCCGATAACTTCGTGTGGAGATTT
1 CGGGTAAGACCCGATGACTACGTGTGGAGATTT
121229 CGTCTGAGCT
Statistics
Matches: 65, Mismatches: 3, Indels: 2
0.93 0.04 0.03
Matches are distributed among these distances:
36 35 0.54
37 30 0.46
ACGTcount: A:0.24, C:0.18, G:0.32, T:0.26
Consensus pattern (37 bp):
CGGGTAAGACCCGATGACTACGTGTGGAGATTTTGTC
Found at i:122548 original size:40 final size:40
Alignment explanation
Indices: 122493--122819 Score: 573
Period size: 40 Copynumber: 8.2 Consensus size: 40
122483 GAGAATTGAG
* * *
122493 AGTGATATATCCGGGCTAAGTCCCAAAGAGCATTCGTGCT
1 AGTGATGTATCCGGACTAAGTCCCGAAGAGCATTCGTGCT
* *
122533 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
1 AGTGATGTATCCGGACTAAGTCCCGAAGAGCATTCGTGCT
*
122573 AGTGATGTATCCGGACTAAGTCCCGAACAGCATTCGTGCT
1 AGTGATGTATCCGGACTAAGTCCCGAAGAGCATTCGTGCT
*
122613 AGTGATGTATCCAGACTAAGTCCCGAAGAGCATTCGTGCT
1 AGTGATGTATCCGGACTAAGTCCCGAAGAGCATTCGTGCT
122653 AGTGATGTATCCGGACTAAGTCCCGAAGAGCATTCGTGCT
1 AGTGATGTATCCGGACTAAGTCCCGAAGAGCATTCGTGCT
*
122693 AGTGATGTATCCGGACTAAGTCCCGAAGAGCATTTGTGCT
1 AGTGATGTATCCGGACTAAGTCCCGAAGAGCATTCGTGCT
*
122733 AGTGATGTATCCGGACTAAGCCCCGAAGAGCATTCGTGCT
1 AGTGATGTATCCGGACTAAGTCCCGAAGAGCATTCGTGCT
122773 AGTGATGTATCCGGACTAAGTCCCGAAGAGCATTCGTGCT
1 AGTGATGTATCCGGACTAAGTCCCGAAGAGCATTCGTGCT
122813 AGTGATG
1 AGTGATG
122820 AGCATTCGTG
Statistics
Matches: 276, Mismatches: 11, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
40 276 1.00
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (40 bp):
AGTGATGTATCCGGACTAAGTCCCGAAGAGCATTCGTGCT
Found at i:122886 original size:59 final size:59
Alignment explanation
Indices: 122760--122878 Score: 148
Period size: 59 Copynumber: 2.0 Consensus size: 59
122750 AAGCCCCGAA
* * * *
122760 GAGCATTCGTGCTAGTGATGTATCCGGACTAAGTCCCGAAGAGCATTCGTGCTAGTGAT
1 GAGCATTCGTGCTAGTGATATATCCGGACTAAGTCCCGAAGAGCAATCATGCTAGTGAC
* * * * * *
122819 GAGCATTCGTGCTGGTGTTATATCCGGGCTAGGTCTCGAAGAGCAATCATGCTGGTGAC
1 GAGCATTCGTGCTAGTGATATATCCGGACTAAGTCCCGAAGAGCAATCATGCTAGTGAC
122878 G
1 G
122879 TGTATTCGGG
Statistics
Matches: 50, Mismatches: 10, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
59 50 1.00
ACGTcount: A:0.22, C:0.20, G:0.31, T:0.27
Consensus pattern (59 bp):
GAGCATTCGTGCTAGTGATATATCCGGACTAAGTCCCGAAGAGCAATCATGCTAGTGAC
Found at i:126944 original size:47 final size:47
Alignment explanation
Indices: 126890--127083 Score: 298
Period size: 47 Copynumber: 4.1 Consensus size: 47
126880 TTAGGATTTT
** * *
126890 ATGTGATGAATGTGAATGTGTATATATGAGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
126937 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* *
126984 ATGTGATGAATGTGAGCATGCATATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* * * *
127031 ATGTGGTGAATATGAACATGCATATATGTGATAAAGCCGAATGGCTA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
127078 ATGTGA
1 ATGTGA
127084 AATATGTATG
Statistics
Matches: 134, Mismatches: 13, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
47 134 1.00
ACGTcount: A:0.34, C:0.11, G:0.29, T:0.27
Consensus pattern (47 bp):
ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
Found at i:126990 original size:22 final size:22
Alignment explanation
Indices: 126919--126990 Score: 58
Period size: 22 Copynumber: 3.1 Consensus size: 22
126909 GTATATATGA
126919 GATAAGGCCGAATGGCCAATGT
1 GATAAGGCCGAATGGCCAATGT
* * *
126941 GATGAATG-TGAACAT-GCATATATGT
1 GAT-AAGGCCG-A-ATGGC-CA-ATGT
126966 GATAAGGCCGAATGGCCAATGT
1 GATAAGGCCGAATGGCCAATGT
126988 GAT
1 GAT
126991 GAATGTGAGC
Statistics
Matches: 37, Mismatches: 6, Indels: 14
0.65 0.11 0.25
Matches are distributed among these distances:
22 11 0.30
23 9 0.24
24 9 0.24
25 8 0.22
ACGTcount: A:0.33, C:0.14, G:0.29, T:0.24
Consensus pattern (22 bp):
GATAAGGCCGAATGGCCAATGT
Found at i:127039 original size:25 final size:25
Alignment explanation
Indices: 126964--127039 Score: 63
Period size: 23 Copynumber: 3.2 Consensus size: 25
126954 ATGCATATAT
126964 GTGATAAGGCCGAATGGCCAATGTG
1 GTGATAAGGCCGAATGGCCAATGTG
* * * *
126989 ATGA-ATGTG-AGCAT-G-CATATGT-
1 GTGATAAG-GCCGAATGGCCA-ATGTG
127011 GTGATAAGGCCGAATGGCCAATGTG
1 GTGATAAGGCCGAATGGCCAATGTG
127036 GTGA
1 GTGA
127040 ATATGAACAT
Statistics
Matches: 36, Mismatches: 8, Indels: 14
0.62 0.14 0.24
Matches are distributed among these distances:
22 6 0.17
23 10 0.28
24 10 0.28
25 10 0.28
ACGTcount: A:0.29, C:0.13, G:0.34, T:0.24
Consensus pattern (25 bp):
GTGATAAGGCCGAATGGCCAATGTG
Found at i:127211 original size:98 final size:96
Alignment explanation
Indices: 127054--127237 Score: 280
Period size: 98 Copynumber: 1.9 Consensus size: 96
127044 GAACATGCAT
*
127054 ATATGTGATAAAGCCGAATGGCTAATGTGAAATATGTATGAGAAATGTATATGTGGTAAAGCCGA
1 ATATGTGATAAAGCCGAATGGCTAATGTGAAATATATATGAGAAATGTATATGTGGTAAAGCCGA
*
127119 ATGGCTAATGTGAAATATGTATGAGATATGC
66 ATGGCTAATGAGAAATATGTATGAGATATGC
* * *
127150 ATATGTGGTAAAGCTGAATGG-TCAATGTGAAATATATATATGAGATATGTATATGTGGTAAAGC
1 ATATGTGATAAAGCCGAATGGCT-AATGTG-AA-ATATATATGAGAAATGTATATGTGGTAAAGC
*
127214 CGAATGGCTAGTGAGAAATATGTA
63 CGAATGGCTAATGAGAAATATGTA
127238 GGCGATGTGC
Statistics
Matches: 79, Mismatches: 6, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
95 1 0.01
96 25 0.32
97 2 0.03
98 51 0.65
ACGTcount: A:0.38, C:0.07, G:0.26, T:0.30
Consensus pattern (96 bp):
ATATGTGATAAAGCCGAATGGCTAATGTGAAATATATATGAGAAATGTATATGTGGTAAAGCCGA
ATGGCTAATGAGAAATATGTATGAGATATGC
Found at i:127232 original size:50 final size:48
Alignment explanation
Indices: 127053--127237 Score: 273
Period size: 48 Copynumber: 3.8 Consensus size: 48
127043 TGAACATGCA
* *
127053 TATATGTGATAAAGCCGAATGGCTAATGTGAAATATGTATGAGAAATG
1 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATG
127101 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATG
1 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATG
* * *
127149 CATATGTGGTAAAGCTGAATGG-TCAATGTGAAATATATATATGAGATATG
1 TATATGTGGTAAAGCCGAATGGCT-AATGTG-AA-ATATGTATGAGATATG
* *
127199 TATATGTGGTAAAGCCGAATGGCTAGTGAGAAATATGTA
1 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTA
127238 GGCGATGTGC
Statistics
Matches: 123, Mismatches: 10, Indels: 8
0.87 0.07 0.06
Matches are distributed among these distances:
47 1 0.01
48 78 0.63
49 4 0.03
50 39 0.32
51 1 0.01
ACGTcount: A:0.37, C:0.06, G:0.26, T:0.30
Consensus pattern (48 bp):
TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATG
Found at i:127489 original size:37 final size:37
Alignment explanation
Indices: 127384--127489 Score: 178
Period size: 37 Copynumber: 2.9 Consensus size: 37
127374 GAAATATATT
*
127384 CGGGTAAGA-CCGATGACTACGTGTGGAGATTATGTC
1 CGGGTAAGACCCGATGACTACGTGTGGAGATTTTGTC
127420 CGGGTAAGACCCGATGACTACGTGTGGAGATTTTGTC
1 CGGGTAAGACCCGATGACTACGTGTGGAGATTTTGTC
* *
127457 CGGGTAAGACCCGATAACTTCGTGTGGAGATTT
1 CGGGTAAGACCCGATGACTACGTGTGGAGATTT
127490 CGTCTGAGCT
Statistics
Matches: 66, Mismatches: 3, Indels: 1
0.94 0.04 0.01
Matches are distributed among these distances:
36 9 0.14
37 57 0.86
ACGTcount: A:0.24, C:0.18, G:0.32, T:0.26
Consensus pattern (37 bp):
CGGGTAAGACCCGATGACTACGTGTGGAGATTTTGTC
Found at i:223756 original size:53 final size:54
Alignment explanation
Indices: 223688--223821 Score: 180
Period size: 53 Copynumber: 2.4 Consensus size: 54
223678 GACCATGGCA
* * *
223688 TCGATATATGTGTGCGAGTAAGACTACGTTTAATACGTTGGCATCGGTATGTGATT
1 TCGATATA--TGTGCGAGTAAGACCACGTTTAATACATTGGCATCGATATGTGATT
* *
223744 TTGAT-TATGTGCGAGTAAGACCACGTTTAATACATTGGCATCGATATGTGGTT
1 TCGATATATGTGCGAGTAAGACCACGTTTAATACATTGGCATCGATATGTGATT
223797 TCGATATATGTGTACGAGTAAGACC
1 TCGATATATGTG--CGAGTAAGACC
223822 CTATCTGGGA
Statistics
Matches: 69, Mismatches: 6, Indels: 6
0.85 0.07 0.07
Matches are distributed among these distances:
53 46 0.67
54 6 0.09
55 2 0.03
56 15 0.22
ACGTcount: A:0.27, C:0.13, G:0.25, T:0.34
Consensus pattern (54 bp):
TCGATATATGTGCGAGTAAGACCACGTTTAATACATTGGCATCGATATGTGATT
Found at i:225014 original size:55 final size:55
Alignment explanation
Indices: 224953--225064 Score: 197
Period size: 55 Copynumber: 2.0 Consensus size: 55
224943 TGTGTAAGAT
*
224953 TTGTGTTTTGGGTATATATCTATATTTAGTTAATGACATGAATATTATAAATAGC
1 TTGTGTTGTGGGTATATATCTATATTTAGTTAATGACATGAATATTATAAATAGC
* *
225008 TTGTGTTGTGGGTATATATCTATATTTGGTTAATGACATGAATATTATAAGTAGC
1 TTGTGTTGTGGGTATATATCTATATTTAGTTAATGACATGAATATTATAAATAGC
225063 TT
1 TT
225065 TAAGTAAGCT
Statistics
Matches: 54, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
55 54 1.00
ACGTcount: A:0.30, C:0.05, G:0.19, T:0.46
Consensus pattern (55 bp):
TTGTGTTGTGGGTATATATCTATATTTAGTTAATGACATGAATATTATAAATAGC
Found at i:227426 original size:27 final size:27
Alignment explanation
Indices: 227386--227514 Score: 179
Period size: 27 Copynumber: 4.8 Consensus size: 27
227376 CGAAACATAA
*
227386 GGGCATTACGGTCATTTTACCCTATAG
1 GGGCATTACAGTCATTTTACCCTATAG
**
227413 GGATATTACAGTCATTTTACCCTATAG
1 GGGCATTACAGTCATTTTACCCTATAG
* *
227440 GGGTATTACAGTCATTTTACCCTACAG
1 GGGCATTACAGTCATTTTACCCTATAG
* *
227467 GGGCATTAC-GATCATTTTACCCTACAA
1 GGGCATTACAG-TCATTTTACCCTATAG
227494 GGGCATTACAGTCATTTTACC
1 GGGCATTACAGTCATTTTACC
227515 AATTTTGGTG
Statistics
Matches: 93, Mismatches: 7, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
26 1 0.01
27 91 0.98
28 1 0.01
ACGTcount: A:0.26, C:0.22, G:0.18, T:0.33
Consensus pattern (27 bp):
GGGCATTACAGTCATTTTACCCTATAG
Found at i:229876 original size:20 final size:19
Alignment explanation
Indices: 229849--229887 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 19
229839 CAAATCAAAT
229849 ACATTACA-AATATATCATA
1 ACATTACATAA-ATATCATA
229868 ACATATACATAAATATCATA
1 ACAT-TACATAAATATCATA
229888 TCAAAATATT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 4 0.22
20 12 0.67
21 2 0.11
ACGTcount: A:0.54, C:0.15, G:0.00, T:0.31
Consensus pattern (19 bp):
ACATTACATAAATATCATA
Found at i:231263 original size:45 final size:42
Alignment explanation
Indices: 231146--231264 Score: 118
Period size: 41 Copynumber: 2.8 Consensus size: 42
231136 TGCTATCTCT
*
231146 TATCGATGCC-ACTGTCCCAGACAAGGTCTTACACGAATCAAA
1 TATCGATGCCAAC-GTCCCAGACAAGGTCTTACACGAACCAAA
* * *
231188 TA-CGATGTCAATGTCCCAGACATA-GTCTTACACATAACCACATA
1 TATCGATGCCAACGTCCCAGACA-AGGTCTTACAC-GAACCA-A-A
* *
231232 TATCGATGCCAACGTCTCAGATAAGGTCTTACA
1 TATCGATGCCAACGTCCCAGACAAGGTCTTACA
231265 TGAGAACACA
Statistics
Matches: 62, Mismatches: 8, Indels: 11
0.77 0.10 0.14
Matches are distributed among these distances:
41 25 0.40
42 8 0.13
43 1 0.02
44 4 0.06
45 24 0.39
ACGTcount: A:0.34, C:0.27, G:0.15, T:0.24
Consensus pattern (42 bp):
TATCGATGCCAACGTCCCAGACAAGGTCTTACACGAACCAAA
Found at i:231881 original size:15 final size:15
Alignment explanation
Indices: 231858--231888 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
231848 TCAAAAATTC
231858 CAATACAAAACATAT
1 CAATACAAAACATAT
*
231873 CAATTCAAAACATAT
1 CAATACAAAACATAT
231888 C
1 C
231889 TTTCATCTAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.55, C:0.23, G:0.00, T:0.23
Consensus pattern (15 bp):
CAATACAAAACATAT
Done.