Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr11 124536837
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: 124536837
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 312 characters in sequence are not A, C, G, or T
File 303 of 427
Found at i:87797496 original size:47 final size:48
Alignment explanation
Indices: 87797396--87797538 Score: 202
Period size: 47 Copynumber: 3.0 Consensus size: 48
87797386 GAGGAAGTGA
87797396 AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTT-TTC
1 AAAAGGGCTTATGCCCCAGTTAT-AAAAGGGCTTATGCCCCAGTTATTC
87797444 AAAAGGGCTTATGCCCCAGTTATAAAAGGGCTTATGCCCCAGTTATT-
1 AAAAGGGCTTATGCCCCAGTTATAAAAGGGCTTATGCCCCAGTTATTC
* * *
87797491 GAAAGGGCTTTTGCCCCAGTTATTAAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAGGGCTTATGCCCCAGTTA-TAAAAG-GGCTTATGCC-CCAGTTAT
87797539 ATGATAAAGC
Statistics
Matches: 88, Mismatches: 3, Indels: 7
0.90 0.03 0.07
Matches are distributed among these distances:
47 41 0.47
48 36 0.41
49 11 0.12
ACGTcount: A:0.28, C:0.22, G:0.22, T:0.27
Consensus pattern (48 bp):
AAAAGGGCTTATGCCCCAGTTATAAAAGGGCTTATGCCCCAGTTATTC
Found at i:87797519 original size:71 final size:72
Alignment explanation
Indices: 87797396--87797539 Score: 213
Period size: 71 Copynumber: 2.0 Consensus size: 72
87797386 GAGGAAGTGA
*
87797396 AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTTTCAAAAG-GGCTTATGCC-
1 AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTTTCAAAAGAGGC-TAGGCCT
87797459 CCAGTTAT
65 CCAGTTAT
** *
87797467 AAAAGGGCTTATGCCCCAGTTATTGAAAGGGCTTTTGCCCCAGTTATT-AAAAGAGGCTAGGCCT
1 AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTT-TTCAAAAGAGGCTAGGCCT
87797531 CCAGTTAT
65 CCAGTTAT
87797539 A
1 A
87797540 TGATAAAGCA
Statistics
Matches: 66, Mismatches: 4, Indels: 5
0.88 0.05 0.07
Matches are distributed among these distances:
71 52 0.79
72 14 0.21
ACGTcount: A:0.28, C:0.22, G:0.22, T:0.27
Consensus pattern (72 bp):
AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTTTCAAAAGAGGCTAGGCCTC
CAGTTAT
Found at i:87797765 original size:31 final size:31
Alignment explanation
Indices: 87797730--87797793 Score: 101
Period size: 31 Copynumber: 2.1 Consensus size: 31
87797720 CGTTTACAGT
87797730 AAAGGCTTCGGCCCAGTAATATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
** *
87797761 AAAGGCTTCGGCCCAGTGTTATGGAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
87797792 AA
1 AA
87797794 CATGAAAAGG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.36, C:0.16, G:0.25, T:0.23
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTAATATGAAATATGA
Found at i:87799622 original size:12 final size:12
Alignment explanation
Indices: 87799605--87799629 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
87799595 AGTTCAGGTG
87799605 TTATTTTATTAA
1 TTATTTTATTAA
87799617 TTATTTTATTAA
1 TTATTTTATTAA
87799629 T
1 T
87799630 AATGTATTTT
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:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (12 bp):
TTATTTTATTAA
Found at i:87803232 original size:21 final size:21
Alignment explanation
Indices: 87803208--87803257 Score: 91
Period size: 21 Copynumber: 2.4 Consensus size: 21
87803198 CAGCGAGGCT
87803208 GCCAGATATTGTGACGAAGTC
1 GCCAGATATTGTGACGAAGTC
87803229 GCCAGATATTGTGACGAAGTC
1 GCCAGATATTGTGACGAAGTC
*
87803250 ACCAGATA
1 GCCAGATA
87803258 CAGATATTGT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.32, C:0.20, G:0.26, T:0.22
Consensus pattern (21 bp):
GCCAGATATTGTGACGAAGTC
Found at i:87803279 original size:27 final size:27
Alignment explanation
Indices: 87803231--87803335 Score: 126
Period size: 27 Copynumber: 3.9 Consensus size: 27
87803221 ACGAAGTCGC
* *
87803231 CAGATATTGTGAC-GAAGTCACCAGATA
1 CAGATATTGTGGCAG-AGCCACCAGATA
87803258 CAGATATTGTGGCAGAGCCACCAGA-A
1 CAGATATTGTGGCAGAGCCACCAGATA
87803284 CAGATATATGTGGCAGAGCCACCAGAT-
1 CAGATAT-TGTGGCAGAGCCACCAGATA
* *
87803311 TAGATAATTGTGGCATAGCCACCAG
1 CAGAT-ATTGTGGCAGAGCCACCAG
87803336 GACGCTTCCT
Statistics
Matches: 70, Mismatches: 4, Indels: 8
0.85 0.05 0.10
Matches are distributed among these distances:
26 8 0.11
27 59 0.84
28 3 0.04
ACGTcount: A:0.34, C:0.21, G:0.25, T:0.20
Consensus pattern (27 bp):
CAGATATTGTGGCAGAGCCACCAGATA
Found at i:87808221 original size:22 final size:22
Alignment explanation
Indices: 87808196--87808237 Score: 68
Period size: 22 Copynumber: 1.9 Consensus size: 22
87808186 TTACAGAAGA
87808196 AGAAGATAGAAAG-AAAGAAAGG
1 AGAAGA-AGAAAGAAAAGAAAGG
87808218 AGAAGAAGAAAGAAAAGAAA
1 AGAAGAAGAAAGAAAAGAAA
87808238 ATGTAATTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
21 6 0.32
22 13 0.68
ACGTcount: A:0.69, C:0.00, G:0.29, T:0.02
Consensus pattern (22 bp):
AGAAGAAGAAAGAAAAGAAAGG
Found at i:87815254 original size:142 final size:142
Alignment explanation
Indices: 87814625--87815799 Score: 1702
Period size: 142 Copynumber: 8.1 Consensus size: 142
87814615 TATTTTGGTA
* *
87814625 TTTATTTTATTTTCGGATTTTATTTTTTAAAATATATTATTTTTGTATTTTA-TTTTTATATTAT
1 TTTATTTTATTTTCGGATTTTATTTTTTAAAATATACTATTTTCGTATTTTATTTTTTATATTAT
* *
87814689 TTTAGTACATAATGTTTCAAATGTATTATTTTTGTATTTTTTATATTAATTTAATAAAAAACTCT
66 TTTAGTACATAATGTTTC-AATGTATTATTTTAGT-TTTTTTATATTAATTTAGTAAAAAACTCT
* *
87814754 GATTTTAGCCGTTTGTTTT
129 GATTTTGGCC-----CTTT
* *
87814773 TTTATTTTATTTTCGGATTTTACTTTTTAAAATATACTATTTTTGTATTTTATTTTTTATATTAT
1 TTTATTTTATTTTCGGATTTTATTTTTTAAAATATACTATTTTCGTATTTTATTTTTTATATTAT
*
87814838 TTTAGTACATAATGTTTCAAATGTATTATTTTAGTTTTTTTATATTAATTTAATAAAAAACTCTG
66 TTTAGTACATAATGTTTC-AATGTATTATTTTAGTTTTTTTATATTAATTTAGTAAAAAACTCTG
**
87814903 ATTTTGGCTGTTTATTT
130 ATTTTGGC----CCTTT
87814920 TTTATTTTATTTTCGGATTTTATTTTTTAAAATATACTATTTTCGTATTTTATTTTTTTATATTA
1 TTTATTTTATTTTCGGATTTTATTTTTTAAAATATACTATTTTCGTATTTTA-TTTTTTATATTA
* * *
87814985 TTTTAGTACATAATGTTTAAATGTATTATTTTAGTTTTTTTATATTAATTTAGAAAAAAACTCTA
65 TTTTAGTACATAATGTTTCAATGTATTATTTTAGTTTTTTTATATTAATTTAGTAAAAAACTCTG
*
87815050 ATTTTTGCCCTTT
130 ATTTTGGCCCTTT
* *
87815063 TTTATTTTTATTTTTGGATTTTAATTTTTAAAATATACTATTTTCGTATTTTATTTTTTTATATT
1 TTTA-TTTTATTTTCGGATTTTATTTTTTAAAATATACTATTTTCGTATTTTA-TTTTTTATATT
* *
87815128 ATTTTAGTACATAATGTTTC-ATGTATTATTTTAGTTTTTTTATATTAATTTAGTAAAAATCTGT
64 ATTTTAGTACATAATGTTTCAATGTATTATTTTAGTTTTTTTATATTAATTTAGTAAAAAACTCT
87815192 GATTTTGGCCCTTT
129 GATTTTGGCCCTTT
*
87815206 TTTATTTTGTTTTCGGATTTTATTTTTTAAAATATACTATTTTCGTATTTTATTTTTTATATTAT
1 TTTATTTTATTTTCGGATTTTATTTTTTAAAATATACTATTTTCGTATTTTATTTTTTATATTAT
* * *
87815271 TTTAGTACATAATATTTCAAATGTATTATTTTA--TTTTTTATATTAATTTAGAAAAAAACTTTG
66 TTTAGTACATAATGTTTC-AATGTATTATTTTAGTTTTTTTATATTAATTTAGTAAAAAACTCTG
87815334 ATTTTGGCCCTTT
130 ATTTTGGCCCTTT
*
87815347 TTTATTTTTATTTTCGGATTTTATTTTTTAAAATATACTATTTTCGTATTTTGTTTTTTTATATT
1 TTTA-TTTTATTTTCGGATTTTATTTTTTAAAATATACTATTTTCGTATTTT-ATTTTTTATATT
* *
87815412 ATTTTAGTACATAATGTTTC-ATGTATTATTTTA-TTATTTTATATTAATTTAGTAAAAATA-TG
64 ATTTTAGTACATAATGTTTCAATGTATTATTTTAGTTTTTTTATATTAATTTAGTAAAAA-ACTC
* *
87815474 TGACTTTGGCCTTTT
128 TGATTTTGGCCCTTT
* *
87815489 TTTATTTTGTTTTCCTGAATTTTATTTTTTAAAATATACTATTTTCGTATTTTATTTTTTATATT
1 TTTATTTTATTTT-C-GGATTTTATTTTTTAAAATATACTATTTTCGTATTTTATTTTTTATATT
87815554 ATTTTAGTACATAATGTTTCAAATGTATTATTTTAGTTTTTTTATATTAATTTAGTAAAAAAACT
64 ATTTTAGTACATAATGTTTC-AATGTATTATTTTAGTTTTTTTATATTAATTTAGT-AAAAAACT
*
87815619 CTGATTTTGGCCGTTTATT
127 CTGATTTTGGCC--CT-TT
*
87815638 TTTATTTTATTTTCGGATTTTATTTTTCAAAATATACTATTTTCGTATTTTATTTTTT-TATTAT
1 TTTATTTTATTTTCGGATTTTATTTTTTAAAATATACTATTTTCGTATTTTATTTTTTATATTAT
* * * * *
87815702 TTTAGTACATAATATTTCCTATGTATTATTTTAGTATATTTATATTAATTTAGTAAAAAACTCTA
66 TTTAGTACATAATGTTT-CAATGTATTATTTTAGTTTTTTTATATTAATTTAGTAAAAAACTCTG
*
87815767 ATTTT-GACCTTT
130 ATTTTGGCCCTTT
87815779 TTTATTTTATTTTCGGATTTT
1 TTTATTTTATTTTCGGATTTT
87815800 TTAAAATATA
Statistics
Matches: 949, Mismatches: 54, Indels: 55
0.90 0.05 0.05
Matches are distributed among these distances:
141 118 0.12
142 164 0.17
143 144 0.15
144 92 0.10
145 35 0.04
146 70 0.07
147 146 0.15
148 120 0.13
149 60 0.06
ACGTcount: A:0.27, C:0.06, G:0.07, T:0.59
Consensus pattern (142 bp):
TTTATTTTATTTTCGGATTTTATTTTTTAAAATATACTATTTTCGTATTTTATTTTTTATATTAT
TTTAGTACATAATGTTTCAATGTATTATTTTAGTTTTTTTATATTAATTTAGTAAAAAACTCTGA
TTTTGGCCCTTT
Found at i:87815644 original size:285 final size:285
Alignment explanation
Indices: 87814625--87815799 Score: 1671
Period size: 290 Copynumber: 4.1 Consensus size: 285
87814615 TATTTTGGTA
* *
87814625 TTTATTTTATTTTCGGATTTTATTTTTTAAAATATATTATTTTTGTATTTTA-TTTTTATATTAT
1 TTTATTTTATTTTCGGATTTTATTTTTTAAAATATACTATTTTCGTATTTTATTTTTTATATTAT
*
87814689 TTTAGTACATAATGTTTCAAATGTATTATTTTTGTATTTTTTATATTAATTTA-ATAAAAAACTC
66 TTTAGTACATAATGTTTCAAATGTATTATTTTAGT-TTTTTTATATTAATTTAGA-AAAAAACTC
* * * *
87814753 TGATTTTAGCCGTTTGTTTTTTTATTTTATTTTCGGATTTTACTTTTTAAAATATACTATTTTTG
129 TGATTTTGGCC---TG--TTTATATTTTATTTTCGGATTTTATTTTTTAAAATATACTATTTTCG
*
87814818 TATTTTATTTTTTATATTATTTTAGTACATAATGTTTCAAATGTATTATTTTAGTTTTTTTATAT
189 TATTTTATTTTTTATATTATTTTAGTACATAATGTTTC-AATGTATTATTTTAGTTATTTTATAT
* * *
87814883 TAATTTAATAAAAA-ACTCTGATTTTGGCTGTTTATTT
253 TAATTTAGTAAAAATA-TGTGATTTTGGC---CT-TTT
87814920 TTTATTTTATTTTCGGATTTTATTTTTTAAAATATACTATTTTCGTATTTTATTTTTTTATATTA
1 TTTATTTTATTTTCGGATTTTATTTTTTAAAATATACTATTTTCGTATTTTA-TTTTTTATATTA
87814985 TTTTAGTACATAATGTTT-AAATGTATTATTTTAGTTTTTTTATATTAATTTAGAAAAAAACTCT
65 TTTTAGTACATAATGTTTCAAATGTATTATTTTAGTTTTTTTATATTAATTTAGAAAAAAACTCT
* * * * *
87815049 AATTTTTGCCCT-TTTTTATTTTTATTTTTGGATTTTAATTTTTAAAATATACTATTTTCGTATT
130 GA-TTTTGGCCTGTTTATA-TTTTATTTTCGGATTTTATTTTTTAAAATATACTATTTTCGTATT
*
87815113 TTATTTTTTTATATTATTTTAGTACATAATGTTTC-ATGTATTATTTTAGTTTTTTTATATTAAT
193 TTA-TTTTTTATATTATTTTAGTACATAATGTTTCAATGTATTATTTTAGTTATTTTATATTAAT
* *
87815177 TTAGTAAAAATCTGTGATTTTGGCCCTTT
257 TTAGTAAAAATATGTGATTTTGGCCTTTT
*
87815206 TTTATTTTGTTTTCGGATTTTATTTTTTAAAATATACTATTTTCGTATTTTATTTTTTATATTAT
1 TTTATTTTATTTTCGGATTTTATTTTTTAAAATATACTATTTTCGTATTTTATTTTTTATATTAT
* *
87815271 TTTAGTACATAATATTTCAAATGTATTATTTTA--TTTTTTATATTAATTTAGAAAAAAACTTTG
66 TTTAGTACATAATGTTTCAAATGTATTATTTTAGTTTTTTTATATTAATTTAGAAAAAAACTCTG
*
87815334 ATTTTGGCCCT-TTTTTATTTTTATTTTCGGATTTTATTTTTTAAAATATACTATTTTCGTATTT
131 ATTTTGG-CCTGTTTATA-TTTTATTTTCGGATTTTATTTTTTAAAATATACTATTTTCGTATTT
*
87815398 TGTTTTTTTATATTATTTTAGTACATAATGTTTC-ATGTATTATTTTA-TTATTTTATATTAATT
194 T-ATTTTTTATATTATTTTAGTACATAATGTTTCAATGTATTATTTTAGTTATTTTATATTAATT
*
87815461 TAGTAAAAATATGTGACTTTGGCCTTTT
258 TAGTAAAAATATGTGATTTTGGCCTTTT
* *
87815489 TTTATTTTGTTTTCCTGAATTTTATTTTTTAAAATATACTATTTTCGTATTTTATTTTTTATATT
1 TTTATTTTATTTT-C-GGATTTTATTTTTTAAAATATACTATTTTCGTATTTTATTTTTTATATT
87815554 ATTTTAGTACATAATGTTTCAAATGTATTATTTTAGTTTTTTTATATTAATTTAGTAAAAAAACT
64 ATTTTAGTACATAATGTTTCAAATGTATTATTTTAGTTTTTTTATATTAATTTAG-AAAAAAACT
*
87815619 CTGATTTTGGCC-GTTTATTTTTATTTTATTTTCGGATTTTATTTTTCAAAATATACTATTTTCG
128 CTGATTTTGGCCTGTTTA----TATTTTATTTTCGGATTTTATTTTTTAAAATATACTATTTTCG
* *
87815683 TATTTTATTTTTT-TATTATTTTAGTACATAATATTTCCTATGTATTATTTTAG-TATATTTATA
189 TATTTTATTTTTTATATTATTTTAGTACATAATGTTT-CAATGTATTATTTTAGTTAT-TTTATA
* * *
87815746 TTAATTTAGTAAAAA-ACTCTAATTTTGACC-TTT
252 TTAATTTAGTAAAAATA-TGTGATTTTGGCCTTTT
87815779 TTTATTTTATTTTCGGATTTT
1 TTTATTTTATTTTCGGATTTT
87815800 TTAAAATATA
Statistics
Matches: 816, Mismatches: 39, Indels: 57
0.89 0.04 0.06
Matches are distributed among these distances:
283 58 0.07
284 129 0.16
285 111 0.14
286 69 0.08
287 23 0.03
288 46 0.06
289 8 0.01
290 133 0.16
291 77 0.09
292 31 0.04
293 1 0.00
295 78 0.10
296 23 0.03
297 29 0.04
ACGTcount: A:0.27, C:0.06, G:0.07, T:0.59
Consensus pattern (285 bp):
TTTATTTTATTTTCGGATTTTATTTTTTAAAATATACTATTTTCGTATTTTATTTTTTATATTAT
TTTAGTACATAATGTTTCAAATGTATTATTTTAGTTTTTTTATATTAATTTAGAAAAAAACTCTG
ATTTTGGCCTGTTTATATTTTATTTTCGGATTTTATTTTTTAAAATATACTATTTTCGTATTTTA
TTTTTTATATTATTTTAGTACATAATGTTTCAATGTATTATTTTAGTTATTTTATATTAATTTAG
TAAAAATATGTGATTTTGGCCTTTT
Found at i:87815812 original size:14 final size:14
Alignment explanation
Indices: 87815795--87815823 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
87815785 TTATTTTCGG
87815795 ATTTTTTAAAATAT
1 ATTTTTTAAAATAT
87815809 ATTTTTTAAAATAT
1 ATTTTTTAAAATAT
87815823 A
1 A
87815824 CTATTAAGCT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (14 bp):
ATTTTTTAAAATAT
Found at i:87816429 original size:22 final size:22
Alignment explanation
Indices: 87816399--87816443 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
87816389 CAAAAGAAAA
* *
87816399 GGCAGTGAGCAGTCCTGTCGGT
1 GGCAATGAGCAGTCCCGTCGGT
*
87816421 GGCAATGAGGAGTCCCGTCGGT
1 GGCAATGAGCAGTCCCGTCGGT
87816443 G
1 G
87816444 CAGAGCAGTG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.16, C:0.22, G:0.42, T:0.20
Consensus pattern (22 bp):
GGCAATGAGCAGTCCCGTCGGT
Found at i:87816492 original size:27 final size:27
Alignment explanation
Indices: 87816454--87816510 Score: 96
Period size: 27 Copynumber: 2.1 Consensus size: 27
87816444 CAGAGCAGTG
*
87816454 ACCGGTGCCGCCTGTGGGGTACCCTCC
1 ACCGGTGCCGCCTGTCGGGTACCCTCC
*
87816481 ACCGGTGCCGCCTGTCGGGTATCCTCC
1 ACCGGTGCCGCCTGTCGGGTACCCTCC
87816508 ACC
1 ACC
87816511 CTTATTTTAT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.09, C:0.42, G:0.30, T:0.19
Consensus pattern (27 bp):
ACCGGTGCCGCCTGTCGGGTACCCTCC
Found at i:87817295 original size:13 final size:13
Alignment explanation
Indices: 87817277--87817301 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
87817267 ATTATTTTTA
87817277 TTTAAATTTAATC
1 TTTAAATTTAATC
87817290 TTTAAATTTAAT
1 TTTAAATTTAAT
87817302 AATTATTCTT
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:0.40, C:0.04, G:0.00, T:0.56
Consensus pattern (13 bp):
TTTAAATTTAATC
Found at i:87830049 original size:3 final size:3
Alignment explanation
Indices: 87830041--87830078 Score: 76
Period size: 3 Copynumber: 12.7 Consensus size: 3
87830031 CTGCCATGGC
87830041 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
87830079 AGGATTTTGG
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:87831321 original size:21 final size:20
Alignment explanation
Indices: 87831288--87831330 Score: 59
Period size: 21 Copynumber: 2.1 Consensus size: 20
87831278 TCTTTTTGAG
*
87831288 AATATTACAATTATAAATAT
1 AATACTACAATTATAAATAT
*
87831308 AATACTACTAATTATATATAT
1 AATACTAC-AATTATAAATAT
87831329 AA
1 AA
87831331 AATCAACCCA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
20 7 0.35
21 13 0.65
ACGTcount: A:0.53, C:0.07, G:0.00, T:0.40
Consensus pattern (20 bp):
AATACTACAATTATAAATAT
Found at i:87832023 original size:23 final size:22
Alignment explanation
Indices: 87831988--87832036 Score: 62
Period size: 23 Copynumber: 2.2 Consensus size: 22
87831978 CTCCAACAAT
*
87831988 AAAAAAAATTGAAAAAGAAAAA
1 AAAAAAAACTGAAAAAGAAAAA
* *
87832010 GAAAAAACACTGAAAACGAAAAA
1 -AAAAAAAACTGAAAAAGAAAAA
87832033 AAAA
1 AAAA
87832037 GGTCATGTTG
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
22 4 0.17
23 19 0.83
ACGTcount: A:0.78, C:0.06, G:0.10, T:0.06
Consensus pattern (22 bp):
AAAAAAAACTGAAAAAGAAAAA
Found at i:87832083 original size:27 final size:27
Alignment explanation
Indices: 87832052--87832120 Score: 120
Period size: 27 Copynumber: 2.6 Consensus size: 27
87832042 TGTTGGTGCT
*
87832052 AGAGGCGGCACCAGTGTTGCCTCTGGC
1 AGAGGCGGCACCAGTCTTGCCTCTGGC
*
87832079 AGAGGCGGCACCAGTCTTGCCTTTGGC
1 AGAGGCGGCACCAGTCTTGCCTCTGGC
87832106 AGAGGCGGCACCAGT
1 AGAGGCGGCACCAGT
87832121 TGTGTGGGTC
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
27 40 1.00
ACGTcount: A:0.17, C:0.29, G:0.36, T:0.17
Consensus pattern (27 bp):
AGAGGCGGCACCAGTCTTGCCTCTGGC
Found at i:87832404 original size:23 final size:24
Alignment explanation
Indices: 87832378--87832436 Score: 66
Period size: 26 Copynumber: 2.4 Consensus size: 24
87832368 TAGTTATTAA
* **
87832378 TATTGTTAGTAAAAAATCCTTGTTAT
1 TATTGTTAGTAAAAAA-CCATAAT-T
87832404 TATTGTTAGTAAAAAACCATAA-T
1 TATTGTTAGTAAAAAACCATAATT
87832427 TATTGTTAGT
1 TATTGTTAGT
87832437 TATTATTATT
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
23 11 0.37
25 3 0.10
26 16 0.53
ACGTcount: A:0.37, C:0.07, G:0.12, T:0.44
Consensus pattern (24 bp):
TATTGTTAGTAAAAAACCATAATT
Found at i:87832429 original size:26 final size:26
Alignment explanation
Indices: 87832373--87832430 Score: 73
Period size: 26 Copynumber: 2.2 Consensus size: 26
87832363 GTTGTTAGTT
* *
87832373 ATTAATATTGTTAGTAAAAAATCCTT
1 ATTATTATTGTTAGTAAAAAATCCTA
*
87832399 GTTATTATTGTTAGTAAAAAA-CCATA
1 ATTATTATTGTTAGTAAAAAATCC-TA
87832425 ATTATT
1 ATTATT
87832431 GTTAGTTATT
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
25 2 0.07
26 25 0.93
ACGTcount: A:0.41, C:0.07, G:0.09, T:0.43
Consensus pattern (26 bp):
ATTATTATTGTTAGTAAAAAATCCTA
Found at i:87837824 original size:72 final size:72
Alignment explanation
Indices: 87837707--87837847 Score: 221
Period size: 72 Copynumber: 2.0 Consensus size: 72
87837697 GCCCCCCGAT
* * *
87837707 GAGCCCGGGAAATTGTCATTGCCCGCCAAATCCAGATGATAAGAAGTATCAG-CTGATTGTGAAT
1 GAGCCCGGGAAATAGTCATTGCCCGCCAAATCCAGATGATAAGAAGTATCAGTC-GAATGCGAAT
87837771 GCGATGAC
65 GCGATGAC
* *
87837779 GAGCCCGGGAAATAGTCATTGCCTGCCAAATCCGGATGATAAGAAGTATCAGTCGAATGCGAATG
1 GAGCCCGGGAAATAGTCATTGCCCGCCAAATCCAGATGATAAGAAGTATCAGTCGAATGCGAATG
87837844 CGAT
66 CGAT
87837848 CGCTCGTACT
Statistics
Matches: 63, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
72 62 0.98
73 1 0.02
ACGTcount: A:0.31, C:0.21, G:0.27, T:0.21
Consensus pattern (72 bp):
GAGCCCGGGAAATAGTCATTGCCCGCCAAATCCAGATGATAAGAAGTATCAGTCGAATGCGAATG
CGATGAC
Found at i:87839882 original size:146 final size:148
Alignment explanation
Indices: 87839720--87840933 Score: 1273
Period size: 153 Copynumber: 8.2 Consensus size: 148
87839710 ATAAGTAAAA
*
87839720 TATTTTCGTATATTA-TTTTTATATTATTTTAGCA-AAAATGTTTCAAATGTATTATGTAAGTGT
1 TATTTTCGTAT-TTATTTTTTATATTATTTTAGCACAAAATGTTTCAAATGTATTATTTAAGTGT
* * *
87839783 TTTTTATATTAATTTAATAAATAACACTGGTTTTGACACTTTTTTCGTATTTTTTTATTTTCGTA
65 TTTTTATATTAATTTAATAAATAACCCTGATTTTGACACTTTATTCGTA-TTTTTTATTTTCGTA
*
87839848 TCTTATTTTTTAAAATATAT
129 TATTATTTTTTAAAATATAT
* * * *
87839868 TACTTTCGTATTATTTTATTTCTTTATATTATTTTAGTACATAATGTTTCAAATGTATTATGTAA
1 TATTTTCG---TA-TTTATTT-TTTATATTATTTTAGCACAAAATGTTTCAAATGTATTATTTAA
* * * * *
87839933 GTGTTTTTTATATTAGTTTAATAAATAACACTGATTTTGGCATTTTTTTCGTATTTTTTATTTTC
61 GTGTTTTTTATATTAATTTAATAAATAACCCTGATTTTGACACTTTATTCGTATTTTTTATTTTC
* *
87839998 TTATCTTATTTTTTAAAATATAT
126 GTATATTATTTTTTAAAATATAT
* * * *
87840021 TACTTTCGTATTATTTTATTTCTTTATATTATTTTAGTATATAATGTTTCAAATGTATTATTTAA
1 TATTTTCG---TA-TTTATTT-TTTATATTATTTTAGCACAAAATGTTTCAAATGTATTATTTAA
* *
87840086 GTGTTTTTTATATT-TTTTAATAAATAACCCTGATTTT-AGTACTTTATTCGTA----TT-TTTT
61 GTGTTTTTTATATTAATTTAATAAATAACCCTGATTTTGA-CACTTTATTCGTATTTTTTATTTT
87840144 --TATATTATTTTTTAAAATATAT
125 CGTATATTATTTTTTAAAATATAT
*
87840166 TATTTTCGTATTTTATTTTTTATATTATTTGAGCA-AAAATTGTTTCAAATGTATTAGGTATATT
1 TATTTTCGTA-TTTATTTTTTATATTATTTTAGCACAAAA-TGTTTCAAATG---TA--T-TA-T
* *
87840230 ATGTAAGTGTTTTTTTATACTAATTTAATAAATAACCCTGATTTTGACACTTTCTTCGTA---TT
57 -T-TAAGTG-TTTTTTATATTAATTTAATAAATAACCCTGATTTTGACACTTTATTCGTATTTTT
*
87840292 T-TTTTCGTATCTTATTTTTTAAAATATAT
119 TATTTTCGTATATTATTTTTTAAAATATAT
* * * *
87840321 TATTTTCGTATTTTATTTCTTCATATTATTTTAGTACATAATGTTTCAAATGTATTATTTAAGTA
1 TATTTTCGTA-TTTATTT-TTTATATTATTTTAGCACAAAATGTTTCAAATGTATTATTTAAGTG
** * *
87840386 TTTTTTATATTTTTTTAATAAATAACCCTGATTTT-AGCACTTTATTC--ATATTTTA--TTAGT
64 TTTTTTATATTAATTTAATAAATAACCCTGATTTTGA-CACTTTATTCGTATTTTTTATTTTCGT
87840446 ATATTATTTTTTAAAATATAT
128 ATATTATTTTTTAAAATATAT
* * *** *
87840467 TATTTTCTTATTTTATTTTTTATATTATTTTAGCAAAAAAAAATTCAAATGTATTACTTAAGTGT
1 TATTTTCGTA-TTTATTTTTTATATTATTTTAGCACAAAATGTTTCAAATGTATTATTTAAGTGT
* * *
87840532 TTCTTTATATTAATTTACTAAATAACCCTGATTTTGATACTTTCTTCGTAATTTTTTTATTTTCG
65 TT-TTTATATTAATTTAATAAATAACCCTGATTTTGACACTTTATTCGT-A-TTTTTTATTTTCG
87840597 TATATTATTTTTTAAAATATAT
127 TATATTATTTTTTAAAATATAT
* *
87840619 TATTTTCGTATTTTATTTCTTTATATTATTTTAGTACATAATGTTTCAAATGTATTATTTAAGTG
1 TATTTTCGTA-TTTATTT-TTTATATTATTTTAGCACAAAATGTTTCAAATGTATTATTTAAGTG
* *
87840684 TTTTTTTATATT-TTTTAATAAATAACCCTGATTTT-AGCACTTTATTCGTA---TTT-TTTTCT
64 -TTTTTTATATTAATTTAATAAATAACCCTGATTTTGA-CACTTTATTCGTATTTTTTATTTTCG
87840743 TATATTATTTTTTAAAATATAT
127 TATATTATTTTTTAAAATATAT
* * * *
87840765 TATTTT-G---GTA-----T-T-TTATTTTAGCATAAAATCTTTCAAATGTATTATTTAAGTTTT
1 TATTTTCGTATTTATTTTTTATATTATTTTAGCACAAAATGTTTCAAATGTATTATTTAAGTGTT
* * * * **
87840819 TTTTATATTAATTTAATAAATAA-CCTGACTTTGGCACCTTGTTCGTATTTTTTTATTTTCAAAT
66 TTTTATATTAATTTAATAAATAACCCTGATTTTGACACTTTATTCGTA-TTTTTTATTTTCGTAT
* *
87840883 TTTATTTTTTAAAATATAC
130 ATTATTTTTTAAAATATAT
*
87840902 TATTTTCATATTTTATTTTTTATATTATTTTA
1 TATTTTCGTA-TTTATTTTTTATATTATTTTA
87840934 ACAAAAAACT
Statistics
Matches: 921, Mismatches: 84, Indels: 121
0.82 0.07 0.11
Matches are distributed among these distances:
132 30 0.03
133 47 0.05
134 1 0.00
135 1 0.00
136 3 0.00
137 30 0.03
140 3 0.00
141 28 0.03
142 12 0.01
144 3 0.00
145 70 0.08
146 153 0.17
147 19 0.02
148 12 0.01
149 11 0.01
150 14 0.02
151 18 0.02
152 140 0.15
153 183 0.20
154 76 0.08
155 39 0.04
156 25 0.03
157 3 0.00
ACGTcount: A:0.29, C:0.07, G:0.07, T:0.56
Consensus pattern (148 bp):
TATTTTCGTATTTATTTTTTATATTATTTTAGCACAAAATGTTTCAAATGTATTATTTAAGTGTT
TTTTATATTAATTTAATAAATAACCCTGATTTTGACACTTTATTCGTATTTTTTATTTTCGTATA
TTATTTTTTAAAATATAT
Found at i:87840494 original size:12 final size:13
Alignment explanation
Indices: 87840462--87840497 Score: 56
Period size: 12 Copynumber: 2.8 Consensus size: 13
87840452 TTTTTTAAAA
87840462 TATATTATTTTCT
1 TATATTATTTTCT
*
87840475 TATTTTATTTT-T
1 TATATTATTTTCT
87840487 TATATTATTTT
1 TATATTATTTT
87840498 AGCAAAAAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
12 11 0.52
13 10 0.48
ACGTcount: A:0.22, C:0.03, G:0.00, T:0.75
Consensus pattern (13 bp):
TATATTATTTTCT
Found at i:87840627 original size:298 final size:296
Alignment explanation
Indices: 87839720--87840933 Score: 1471
Period size: 298 Copynumber: 4.1 Consensus size: 296
87839710 ATAAGTAAAA
* * * *
87839720 TATTTTCGTATATTA-TT-TTTATATTATTTTAGCA-AAAATGTTTCAAATGTATTATGTAAGTG
1 TATTTTCGTATTTTATTTCTTTATATTATTTTAGTACATAATGTTTCAAATGTATTATTTAAGTG
** * * * *
87839782 TTTTTTATATTAATTTAATAAATAACACTGGTTTT-GACACTTTTTTCGTATTTTTTTATTTTCG
66 TTTTTTATATTTTTTTAATAAATAACCCTGATTTTAG-CACTTTATTC--A-TATTTTA--TTCG
* * * * *
87839846 TATCTTATTTTTTAAAATATATTACTTTCGTATTATTTTATTTCTTTATATTATTTTAGTACATA
125 TATATTATTTTTTAAAATATATTA-TTT--TCTTATTTTATTT-TTTATATTATTTTAGCAAAAA
* * *
87839911 ATGTTTCAAATGTATTATGTAAGTG-TTTTTTATATTAGTTTAATAAATAACACTGATTTTGGCA
186 ATGTTTCAAATGTATTATGTAAGTGTTTTTTTATATTAATTTAATAAATAACCCTGATTTTGACA
* * *
87839975 TTTTTTTCGTATTTTTTATTTTCTTATCTTATTTTTTAAAATATAT
251 CTTTCTTCGTATTTTTTATTTTCGTATCTTATTTTTTAAAATATAT
* *
87840021 TACTTTCGTATTATTTTATTTCTTTATATTATTTTAGTATATAATGTTTCAAATGTATTATTTAA
1 TATTTTCG---TATTTTATTTCTTTATATTATTTTAGTACATAATGTTTCAAATGTATTATTTAA
* *
87840086 GTGTTTTTTATA-TTTTTTAATAAATAACCCTGATTTTAGTACTTTATTCGTATTTT-TT--TAT
63 GTGTTTTTTATATTTTTTTAATAAATAACCCTGATTTTAGCACTTTATTCATATTTTATTCGTAT
* * *
87840147 ATTATTTTTTAAAATATATTATTTTCGTATTTTATTTTTTATATTATTTGAGCAAAAATTGTTTC
128 ATTATTTTTTAAAATATATTATTTTCTTATTTTATTTTTTATATTATTTTAGCAAAAAATGTTTC
*
87840212 AAATGTATTAGGTATATTATGTAAGTGTTTTTTTATACTAATTTAATAAATAACCCTGATTTTGA
193 -AA---A-T--G--TATTATGTAAGTGTTTTTTTATATTAATTTAATAAATAACCCTGATTTTGA
87840277 CACTTTCTTCGTA---TTT-TTTTCGTATCTTATTTTTTAAAATATAT
249 CACTTTCTTCGTATTTTTTATTTTCGTATCTTATTTTTTAAAATATAT
* *
87840321 TATTTTCGTATTTTATTTCTTCATATTATTTTAGTACATAATGTTTCAAATGTATTATTTAAGTA
1 TATTTTCGTATTTTATTTCTTTATATTATTTTAGTACATAATGTTTCAAATGTATTATTTAAGTG
*
87840386 TTTTTTATATTTTTTTAATAAATAACCCTGATTTTAGCACTTTATTCATATTTTATTAGTATATT
66 TTTTTTATATTTTTTTAATAAATAACCCTGATTTTAGCACTTTATTCATATTTTATTCGTATATT
***
87840451 ATTTTTTAAAATATATTATTTTCTTATTTTATTTTTTATATTATTTTAGCAAAAAAAAATTCAAA
131 ATTTTTTAAAATATATTATTTTCTTATTTTATTTTTTATATTATTTTAGCAAAAAATGTTTCAAA
* * *
87840516 TGTATTACT-TAAGTGTTTCTTTATATTAATTTACTAAATAACCCTGATTTTGATACTTTCTTCG
196 TGTATTA-TGTAAGTGTTTTTTTATATTAATTTAATAAATAACCCTGATTTTGACACTTTCTTCG
*
87840580 TAATTTTTTTATTTTCGTATATTATTTTTTAAAATATAT
260 T-A-TTTTTTATTTTCGTATCTTATTTTTTAAAATATAT
87840619 TATTTTCGTATTTTATTTCTTTATATTATTTTAGTACATAATGTTTCAAATGTATTATTTAAGTG
1 TATTTTCGTATTTTATTTCTTTATATTATTTTAGTACATAATGTTTCAAATGTATTATTTAAGTG
* * *
87840684 TTTTTT-TATATTTTTTAATAAATAACCCTGATTTTAGCACTTTATTCGTATTTTTTTCTTATAT
66 TTTTTTATAT-TTTTTTAATAAATAACCCTGATTTTAGCACTTTATTCATATTTTATTCGTATAT
** * *
87840748 TATTTTTTAAAATATATTA---T-TT-TGGTA-----T-T-TTATTTTAGCATAAAATCTTTCAA
130 TATTTTTTAAAATATATTATTTTCTTATTTTATTTTTTATATTATTTTAGCAAAAAATGTTTCAA
* * * * *
87840801 ATGTATTATTTAAGT-TTTTTTTATATTAATTTAATAAATAA-CCTGACTTTGGCACCTTGTTCG
195 ATGTATTATGTAAGTGTTTTTTTATATTAATTTAATAAATAACCCTGATTTTGACACTTTCTTCG
** * *
87840864 TATTTTTTTATTTTCAAATTTTATTTTTTAAAATATAC
260 TA-TTTTTTATTTTCGTATCTTATTTTTTAAAATATAT
*
87840902 TATTTTCATATTTTATTT-TTTATATTATTTTA
1 TATTTTCGTATTTTATTTCTTTATATTATTTTA
87840934 ACAAAAAACT
Statistics
Matches: 814, Mismatches: 69, Indels: 79
0.85 0.07 0.08
Matches are distributed among these distances:
282 14 0.02
283 50 0.06
284 18 0.02
285 25 0.03
286 33 0.04
287 1 0.00
288 1 0.00
292 57 0.07
293 5 0.01
294 26 0.03
295 14 0.02
296 1 0.00
297 73 0.09
298 231 0.28
299 3 0.00
300 38 0.05
301 73 0.09
303 18 0.02
304 50 0.06
305 2 0.00
306 45 0.06
307 36 0.04
ACGTcount: A:0.29, C:0.07, G:0.07, T:0.56
Consensus pattern (296 bp):
TATTTTCGTATTTTATTTCTTTATATTATTTTAGTACATAATGTTTCAAATGTATTATTTAAGTG
TTTTTTATATTTTTTTAATAAATAACCCTGATTTTAGCACTTTATTCATATTTTATTCGTATATT
ATTTTTTAAAATATATTATTTTCTTATTTTATTTTTTATATTATTTTAGCAAAAAATGTTTCAAA
TGTATTATGTAAGTGTTTTTTTATATTAATTTAATAAATAACCCTGATTTTGACACTTTCTTCGT
ATTTTTTATTTTCGTATCTTATTTTTTAAAATATAT
Found at i:87840800 original size:133 final size:135
Alignment explanation
Indices: 87840644--87840920 Score: 364
Period size: 133 Copynumber: 2.1 Consensus size: 135
87840634 TTTCTTTATA
* * * *
87840644 TTATTTTAGTACATAATGTTTCAAATGTATTATTTAAGTGTTTTTTTATATT-TTTTAATAAATA
1 TTATTTTAGCACAAAATCTTTCAAATGTATTATTTAAGT-TTTTTTTATATTAATTTAATAAATA
* * *
87840708 ACCCTGATTTTAGCACTTTATTCGTA-TTTTTT-TCTT-ATATTATTTTTTAAAATATATTATTT
65 A-CCTGACTTTAGCACCTTATTCGTATTTTTTTATCTTAATATTATTTTTTAAAATATACTATTT
**
87840770 TGGTATT
129 TCATATT
*
87840777 TTATTTTAGCATAAAATCTTTCAAATGTATTATTTAAGTTTTTTTTATATTAATTTAATAAATAA
1 TTATTTTAGCACAAAATCTTTCAAATGTATTATTTAAGTTTTTTTTATATTAATTTAATAAATAA
* * * *
87840842 CCTGACTTTGGCACCTTGTTCGTATTTTTTTATTTTCAAATTTTATTTTTTAAAATATACTATTT
66 CCTGACTTTAGCACCTTATTCGTATTTTTTTATCTT--AATATTATTTTTTAAAATATACTATTT
87840907 TCATATT
129 TCATATT
87840914 TTATTTT
1 TTATTTT
87840921 TTATATTATT
Statistics
Matches: 124, Mismatches: 14, Indels: 8
0.85 0.10 0.05
Matches are distributed among these distances:
132 32 0.26
133 53 0.43
134 3 0.02
137 36 0.29
ACGTcount: A:0.29, C:0.08, G:0.06, T:0.56
Consensus pattern (135 bp):
TTATTTTAGCACAAAATCTTTCAAATGTATTATTTAAGTTTTTTTTATATTAATTTAATAAATAA
CCTGACTTTAGCACCTTATTCGTATTTTTTTATCTTAATATTATTTTTTAAAATATACTATTTTC
ATATT
Found at i:87841300 original size:6 final size:6
Alignment explanation
Indices: 87841289--87841316 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
87841279 CCTTGCAAAG
87841289 AAATAA AAATAA AAATAA AAATAA AAAT
1 AAATAA AAATAA AAATAA AAATAA AAAT
87841317 TATATCTGAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.82, C:0.00, G:0.00, T:0.18
Consensus pattern (6 bp):
AAATAA
Found at i:87841407 original size:14 final size:14
Alignment explanation
Indices: 87841388--87841449 Score: 56
Period size: 14 Copynumber: 4.4 Consensus size: 14
87841378 AAAAATTACA
87841388 TTTTTCTTTCCTTC
1 TTTTTCTTTCCTTC
* *
87841402 TTTTTCCTTCCCTC
1 TTTTTCTTTCCTTC
*
87841416 TTCTTCTTTTCCTTCTC
1 TTTTTC-TTTCC-T-TC
87841433 TTTTTCTTT--TTC
1 TTTTTCTTTCCTTC
87841445 TTTTT
1 TTTTT
87841450 TCTTCTCTCA
Statistics
Matches: 39, Mismatches: 6, Indels: 8
0.74 0.11 0.15
Matches are distributed among these distances:
12 7 0.18
13 1 0.03
14 17 0.44
15 4 0.10
16 3 0.08
17 7 0.18
ACGTcount: A:0.00, C:0.29, G:0.00, T:0.71
Consensus pattern (14 bp):
TTTTTCTTTCCTTC
Found at i:87841420 original size:17 final size:18
Alignment explanation
Indices: 87841398--87841444 Score: 51
Period size: 19 Copynumber: 2.6 Consensus size: 18
87841388 TTTTTCTTTC
87841398 CTTCTTTTTCCTTC-CCT
1 CTTCTTTTTCCTTCTCCT
*
87841415 CTTCTTCTTTTCCTTCTCTT
1 CTTC-T-TTTTCCTTCTCCT
*
87841435 TTTCTTTTTC
1 CTTCTTTTTC
87841445 TTTTTTCTTC
Statistics
Matches: 25, Mismatches: 2, Indels: 5
0.78 0.06 0.16
Matches are distributed among these distances:
17 4 0.16
18 6 0.24
19 10 0.40
20 5 0.20
ACGTcount: A:0.00, C:0.34, G:0.00, T:0.66
Consensus pattern (18 bp):
CTTCTTTTTCCTTCTCCT
Found at i:87841505 original size:3 final size:3
Alignment explanation
Indices: 87841486--87841545 Score: 61
Period size: 3 Copynumber: 20.0 Consensus size: 3
87841476 TCCTCCTCTC
* *
87841486 CTT CTT TTT CTTT CTT CTT CTT C-T CTT CTT -TC CTT CTT CTCT CTT
1 CTT CTT CTT C-TT CTT CTT CTT CTT CTT CTT CTT CTT CTT CT-T CTT
*
87841531 TTT CTT CTT CTT CTT
1 CTT CTT CTT CTT CTT
87841546 TGTTCCCGAA
Statistics
Matches: 47, Mismatches: 6, Indels: 8
0.77 0.10 0.13
Matches are distributed among these distances:
2 3 0.06
3 38 0.81
4 6 0.13
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (3 bp):
CTT
Found at i:87841507 original size:16 final size:16
Alignment explanation
Indices: 87841486--87841542 Score: 62
Period size: 16 Copynumber: 3.4 Consensus size: 16
87841476 TCCTCCTCTC
87841486 CTTCTTTTTCTTTCTT
1 CTTCTTTTTCTTTCTT
87841502 CTTCTTCTCTTCTTTCCTT
1 CTTCTT-T-TTCTTT-CTT
*
87841521 CTTCTCTCTT-TTTCTT
1 CTTCT-TTTTCTTTCTT
87841537 CTTCTT
1 CTTCTT
87841543 CTTTGTTCCC
Statistics
Matches: 36, Mismatches: 1, Indels: 9
0.78 0.02 0.20
Matches are distributed among these distances:
15 1 0.03
16 14 0.39
17 4 0.11
18 8 0.22
19 8 0.22
20 1 0.03
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (16 bp):
CTTCTTTTTCTTTCTT
Found at i:87841514 original size:38 final size:38
Alignment explanation
Indices: 87841472--87841545 Score: 98
Period size: 38 Copynumber: 1.9 Consensus size: 38
87841462 CGACGGCCTC
87841472 CTTCTCCTCC-TCTCCT-TCTTTTTCTTTCTTCTTCTTCT
1 CTTCT-CTCCTTCTCCTCTCTTTTTC-TTCTTCTTCTTCT
* *
87841510 CTTCTTTCCTTCTTCTCTCTTTTTCTTCTTCTTCTT
1 CTTCTCTCCTTCTCCTCTCTTTTTCTTCTTCTTCTT
87841546 TGTTCCCGAA
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
37 3 0.09
38 21 0.66
39 8 0.25
ACGTcount: A:0.00, C:0.36, G:0.00, T:0.64
Consensus pattern (38 bp):
CTTCTCTCCTTCTCCTCTCTTTTTCTTCTTCTTCTTCT
Found at i:87841695 original size:19 final size:18
Alignment explanation
Indices: 87841671--87841713 Score: 59
Period size: 19 Copynumber: 2.3 Consensus size: 18
87841661 CATTTTTTTA
*
87841671 TTTTTTTCATTTTCAGTGT
1 TTTTTTTCATTTTCAAT-T
*
87841690 TTTTTTTCTTTTTCAATT
1 TTTTTTTCATTTTCAATT
87841708 TTTTTT
1 TTTTTT
87841714 CTGTCGGAGG
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
18 7 0.32
19 15 0.68
ACGTcount: A:0.09, C:0.09, G:0.05, T:0.77
Consensus pattern (18 bp):
TTTTTTTCATTTTCAATT
Found at i:87843536 original size:14 final size:15
Alignment explanation
Indices: 87843517--87843555 Score: 53
Period size: 14 Copynumber: 2.7 Consensus size: 15
87843507 TCACATATTG
87843517 TATAAATAAACAAC-
1 TATAAATAAACAACA
*
87843531 TATAAATATACAACA
1 TATAAATAAACAACA
*
87843546 TAAAAATAAA
1 TATAAATAAA
87843556 TAAAATGTAT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
14 13 0.62
15 8 0.38
ACGTcount: A:0.67, C:0.10, G:0.00, T:0.23
Consensus pattern (15 bp):
TATAAATAAACAACA
Found at i:87849454 original size:31 final size:31
Alignment explanation
Indices: 87849393--87849454 Score: 88
Period size: 31 Copynumber: 2.0 Consensus size: 31
87849383 TCCCATAATT
* *
87849393 CTTTTTAATCTTTATTATAATTATTTTTTTC
1 CTTTTTAATCTTTATTATAATTAATATTTTC
* *
87849424 CTTTTTACTCTTTATTGTAATTAATATTTTC
1 CTTTTTAATCTTTATTATAATTAATATTTTC
87849455 ATATTAAGAT
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
31 27 1.00
ACGTcount: A:0.23, C:0.11, G:0.02, T:0.65
Consensus pattern (31 bp):
CTTTTTAATCTTTATTATAATTAATATTTTC
Found at i:87849748 original size:2 final size:2
Alignment explanation
Indices: 87849743--87849786 Score: 88
Period size: 2 Copynumber: 22.0 Consensus size: 2
87849733 GCCAACACAC
87849743 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
87849785 AT
1 AT
87849787 CATTACATCC
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 42 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:87851330 original size:2 final size:2
Alignment explanation
Indices: 87851323--87851357 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
87851313 TAAACTTAAA
87851323 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
87851358 GAAAGTCATA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:87859332 original size:17 final size:17
Alignment explanation
Indices: 87859310--87859343 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
87859300 TATTATTAGC
87859310 CCCAATTCCCAGAGGGT
1 CCCAATTCCCAGAGGGT
* *
87859327 CCCAATTTCTAGAGGGT
1 CCCAATTCCCAGAGGGT
87859344 TGTGGACTAC
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.24, C:0.29, G:0.24, T:0.24
Consensus pattern (17 bp):
CCCAATTCCCAGAGGGT
Found at i:87859583 original size:16 final size:17
Alignment explanation
Indices: 87859562--87859594 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
87859552 TCAATATCAA
*
87859562 AATATTA-AAGTTTATT
1 AATATTAGAACTTTATT
87859578 AATATTAGAACTTTATT
1 AATATTAGAACTTTATT
87859595 TTATTGTGAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 7 0.47
17 8 0.53
ACGTcount: A:0.42, C:0.03, G:0.06, T:0.48
Consensus pattern (17 bp):
AATATTAGAACTTTATT
Found at i:87862318 original size:50 final size:50
Alignment explanation
Indices: 87862247--87862494 Score: 325
Period size: 50 Copynumber: 4.9 Consensus size: 50
87862237 TAAGACGGTT
** *
87862247 TTAGGTCATGTGTGTAGTACTAAGTGCAAGCTACTACGTGTACCAGATTG
1 TTAGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTG
* * * * ** *
87862297 TTAGGTCGCATGTGTAGTACTAAGTGCATGCTACTATGCGTACTTGATAG
1 TTAGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTG
* * * *
87862347 CTTCGATCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATGG
1 -TTAGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTG
*
87862398 TTAGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACTAGATTG
1 TTAGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTG
* * *
87862448 TTAGGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGA
1 TTAGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGA
87862495 GAGCTTCGGT
Statistics
Matches: 169, Mismatches: 28, Indels: 2
0.85 0.14 0.01
Matches are distributed among these distances:
50 129 0.76
51 40 0.24
ACGTcount: A:0.25, C:0.18, G:0.27, T:0.31
Consensus pattern (50 bp):
TTAGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTG
Found at i:87862382 original size:101 final size:100
Alignment explanation
Indices: 87862247--87862494 Score: 343
Period size: 101 Copynumber: 2.5 Consensus size: 100
87862237 TAAGACGGTT
* * * * *
87862247 TTAGGTCATGTGTGTAGTACTAAGTGCAAGCTACTACGTGTACCAGATTGTTAGGTCGCATGTGT
1 TTAGATCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATGGTTAGGTCACATGTGT
* * *
87862312 AGTACTAAGTGCATGCTACTATGCGTACTTGATAG
66 AGTACTAAGTGCAGGCTACTACGCGTACTAGATAG
*
87862347 CTTCGATCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATGGTTAGGTCACATGTG
1 -TTAGATCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATGGTTAGGTCACATGTG
* *
87862412 TAGTACTAAGTGCAGGCTACTACGTGTACTAGATTG
65 TAGTACTAAGTGCAGGCTACTACGCGTACTAGATAG
* * * * *
87862448 TTAGGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGA
1 TTAGATCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGA
87862495 GAGCTTCGGT
Statistics
Matches: 130, Mismatches: 17, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
100 41 0.32
101 89 0.68
ACGTcount: A:0.25, C:0.18, G:0.27, T:0.31
Consensus pattern (100 bp):
TTAGATCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATGGTTAGGTCACATGTGT
AGTACTAAGTGCAGGCTACTACGCGTACTAGATAG
Found at i:87862529 original size:151 final size:151
Alignment explanation
Indices: 87862247--87862529 Score: 413
Period size: 151 Copynumber: 1.9 Consensus size: 151
87862237 TAAGACGGTT
**
87862247 TTAGGTCATGTGTGTAGTACTAAGTGCAAGCTACTACGTGTACCAGATTGTTAGGTCGCATGTGT
1 TTAGGTCACATGTGTAGTACTAAGTGCAAGCTACTACGTGTACCAGATTGTTAGGTCGCATGTGT
* ** * ** * * *
87862312 AGTACTAAGTGCATGCTACTATGCGTACTTGATAGCTTCGATCACGTGTGTAGTACTAAGTGCAG
66 AGTACTAAGTGCAGGCTACTATGCGTACCAGAGAGCTTCGATCACAAGGGTAGTAATAAGTACAG
87862377 GCTACTACGTGTACCAGATGG
131 GCTACTACGTGTACCAGATGG
* *
87862398 TTAGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACTAGATTGTTAGGTCGCATGTGT
1 TTAGGTCACATGTGTAGTACTAAGTGCAAGCTACTACGTGTACCAGATTGTTAGGTCGCATGTGT
* * * *
87862463 AGTACTAAGTGCAGGCTACTATGCGTACCAGAGAGCTTCGGTTACAAGGGTGGTAATATGTACAG
66 AGTACTAAGTGCAGGCTACTATGCGTACCAGAGAGCTTCGATCACAAGGGTAGTAATAAGTACAG
87862528 GC
131 GC
87862530 CACCGGGTAT
Statistics
Matches: 115, Mismatches: 17, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
151 115 1.00
ACGTcount: A:0.25, C:0.17, G:0.28, T:0.30
Consensus pattern (151 bp):
TTAGGTCACATGTGTAGTACTAAGTGCAAGCTACTACGTGTACCAGATTGTTAGGTCGCATGTGT
AGTACTAAGTGCAGGCTACTATGCGTACCAGAGAGCTTCGATCACAAGGGTAGTAATAAGTACAG
GCTACTACGTGTACCAGATGG
Found at i:87864030 original size:324 final size:325
Alignment explanation
Indices: 87863440--87864079 Score: 1219
Period size: 324 Copynumber: 2.0 Consensus size: 325
87863430 GGATATTGTC
87863440 AGAGGCAACATCACACTATCAAGCCAATACCTTTGGAGTATTTATACATAAGTTAGAAATATCAA
1 AGAGGCAACATCACACTATCAAGCCAATACCTTTGGAGTATTTATACATAAGTTAGAAATATCAA
*
87863505 GTGAGTGGCATGTATAGAGACCTAGTTCTATGACATGTGTTATTATGATTTGGCCAAATGTTTTG
66 GTGAGTGGCATGTATAGAGACCTAGTTCTATGACAGGTGTTATTATGATTTGGCCAAATGTTTTG
87863570 GCCTATATTGAGCTATTGATTACGACTTATAAATCTAACTATTCATGTTGTGTCTAATAATTGTG
131 GCCTATATTGAGCTATTGATTACGACTTATAAATCTAACTATTCATGTTGTGTCTAATAATTGTG
*
87863635 ATGTGAATATGTCTGTTTGCCATGCATGGTTGGTAATATGTCATGTGTGTTGAATGCATGTTTTA
196 ATATGAATATGTCTGTTTGCCATGCATGGTTGGTAATATGTCATGTGTGTTGAATGCATGTTTTA
* *
87863700 TGACCAATCAAGGTGGTCATGATCGTGAATTAAATGTGTAATGTAGAAATAAAATGGAGATCATT
261 TGACCAATCAAGCTGGTCATGACCGTGAATTAAATGTGTAATGTAGAAATAAAATGGAGATCATT
*
87863765 AGAGGCAACATCACACTATTAAGCCAATACCTTTGGAGTATTTATACA-AAGTTAGAAATATCAA
1 AGAGGCAACATCACACTATCAAGCCAATACCTTTGGAGTATTTATACATAAGTTAGAAATATCAA
87863829 GTGAGTGGCATGTATAGAGACCTAGTTCTATGACAGGTGTTATTATGATTTGGCCAAATGTTTTG
66 GTGAGTGGCATGTATAGAGACCTAGTTCTATGACAGGTGTTATTATGATTTGGCCAAATGTTTTG
87863894 GCCTATATTGAGCTATTGATTACGACTTATAAATCTAACTATTCATGTTGTGTCTAATAATTGTG
131 GCCTATATTGAGCTATTGATTACGACTTATAAATCTAACTATTCATGTTGTGTCTAATAATTGTG
87863959 ATATGAATATGTCTGTTTGCCATGCATGGTTGGTAATATGTCATGTGTGTTGAATGCATGTTTTA
196 ATATGAATATGTCTGTTTGCCATGCATGGTTGGTAATATGTCATGTGTGTTGAATGCATGTTTTA
*
87864024 TGACCAATCGAGCTGGTCATGACCGTGAATTAAATGTGTAATGTAGAAATAAAATG
261 TGACCAATCAAGCTGGTCATGACCGTGAATTAAATGTGTAATGTAGAAATAAAATG
87864080 ATAATGCCTT
Statistics
Matches: 309, Mismatches: 6, Indels: 1
0.98 0.02 0.00
Matches are distributed among these distances:
324 262 0.85
325 47 0.15
ACGTcount: A:0.31, C:0.12, G:0.21, T:0.35
Consensus pattern (325 bp):
AGAGGCAACATCACACTATCAAGCCAATACCTTTGGAGTATTTATACATAAGTTAGAAATATCAA
GTGAGTGGCATGTATAGAGACCTAGTTCTATGACAGGTGTTATTATGATTTGGCCAAATGTTTTG
GCCTATATTGAGCTATTGATTACGACTTATAAATCTAACTATTCATGTTGTGTCTAATAATTGTG
ATATGAATATGTCTGTTTGCCATGCATGGTTGGTAATATGTCATGTGTGTTGAATGCATGTTTTA
TGACCAATCAAGCTGGTCATGACCGTGAATTAAATGTGTAATGTAGAAATAAAATGGAGATCATT
Found at i:87885264 original size:25 final size:25
Alignment explanation
Indices: 87885222--87885269 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
87885212 AAGCTCTTCC
* *
87885222 GAGCTGAATAACGGGAAGTTCATGT
1 GAGCTGAATAACGAGAAGCTCATGT
*
87885247 GAGCTGAATAATGAGAAGCTCAT
1 GAGCTGAATAACGAGAAGCTCAT
87885270 ACAAGATGAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.35, C:0.12, G:0.29, T:0.23
Consensus pattern (25 bp):
GAGCTGAATAACGAGAAGCTCATGT
Found at i:87888355 original size:23 final size:21
Alignment explanation
Indices: 87888328--87888389 Score: 58
Period size: 19 Copynumber: 2.9 Consensus size: 21
87888318 TCATATTTTA
87888328 ATTAAATTATTATTTAATATTT
1 ATTAAA-TATTATTTAATATTT
*
87888350 ATTTAAA-A-TA-TTAGTATTTT
1 A-TTAAATATTATTTAATA-TTT
87888370 ATTAAATATTATTATAATAT
1 ATTAAATATTATT-TAATAT
87888390 AAATAAAAGA
Statistics
Matches: 32, Mismatches: 2, Indels: 12
0.70 0.04 0.26
Matches are distributed among these distances:
19 10 0.31
20 7 0.22
21 3 0.09
22 3 0.09
23 9 0.28
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.55
Consensus pattern (21 bp):
ATTAAATATTATTTAATATTT
Found at i:87890668 original size:31 final size:31
Alignment explanation
Indices: 87890624--87890694 Score: 97
Period size: 31 Copynumber: 2.3 Consensus size: 31
87890614 ATTCGGGAGA
* *
87890624 ATTTTCATTGGTTAAACTGTAGTTAGCTTAAT
1 ATTTT-ATCGGTTAAACTGTAGTTAGCTAAAT
*
87890656 ATTTTATCGGTTAAATTGTAGTTAGCTAAAT
1 ATTTTATCGGTTAAACTGTAGTTAGCTAAAT
*
87890687 AGTTTATC
1 ATTTTATC
87890695 ATGAAGTACT
Statistics
Matches: 35, Mismatches: 4, Indels: 1
0.88 0.10 0.03
Matches are distributed among these distances:
31 30 0.86
32 5 0.14
ACGTcount: A:0.30, C:0.08, G:0.15, T:0.46
Consensus pattern (31 bp):
ATTTTATCGGTTAAACTGTAGTTAGCTAAAT
Found at i:87893150 original size:18 final size:18
Alignment explanation
Indices: 87893105--87893142 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
87893095 ATTTTCAAAT
*
87893105 ATTAAAATAAAAAAGGAA
1 ATTAAAAGAAAAAAGGAA
*
87893123 ATTAAAAGAAAAAGGGAA
1 ATTAAAAGAAAAAAGGAA
87893141 AT
1 AT
87893143 AAGAAGAAGA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.68, C:0.00, G:0.16, T:0.16
Consensus pattern (18 bp):
ATTAAAAGAAAAAAGGAA
Found at i:87899469 original size:24 final size:24
Alignment explanation
Indices: 87899437--87899482 Score: 83
Period size: 24 Copynumber: 1.9 Consensus size: 24
87899427 ATCAAACCTA
*
87899437 TAAGAAAGAGTTTAGTTAGCAATG
1 TAAGAAAGAGTCTAGTTAGCAATG
87899461 TAAGAAAGAGTCTAGTTAGCAA
1 TAAGAAAGAGTCTAGTTAGCAA
87899483 CTCACTAATG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.43, C:0.07, G:0.24, T:0.26
Consensus pattern (24 bp):
TAAGAAAGAGTCTAGTTAGCAATG
Found at i:87903001 original size:40 final size:40
Alignment explanation
Indices: 87902956--87903123 Score: 185
Period size: 40 Copynumber: 4.2 Consensus size: 40
87902946 CGGAATATAA
87902956 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * *
87902996 CCGGATAGAATAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * *
87903036 CCGGATATAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * * *
87903076 CCGGATATAATTTCCAGCATAATTGTCTTCGGGGCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
87903116 CCGGATAT
1 CCGGATAT
87903124 CATTCAATTT
Statistics
Matches: 107, Mismatches: 20, Indels: 2
0.83 0.16 0.02
Matches are distributed among these distances:
39 1 0.01
40 106 0.99
ACGTcount: A:0.24, C:0.27, G:0.23, T:0.26
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:87907355 original size:33 final size:34
Alignment explanation
Indices: 87907281--87907355 Score: 100
Period size: 33 Copynumber: 2.3 Consensus size: 34
87907271 TGAATTTCTA
*
87907281 ATATTG-TACTGAATTGGGCTAAGGCCCACATTG
1 ATATTGCTACTGAAGTGGGCTAAGGCCCACATTG
* * *
87907314 TTACTGCTACTGTAGTGGGCTAAGG-CCACATTG
1 ATATTGCTACTGAAGTGGGCTAAGGCCCACATTG
87907347 ATATTGCTA
1 ATATTGCTA
87907356 TTGATATGGG
Statistics
Matches: 35, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
33 19 0.54
34 16 0.46
ACGTcount: A:0.25, C:0.19, G:0.24, T:0.32
Consensus pattern (34 bp):
ATATTGCTACTGAAGTGGGCTAAGGCCCACATTG
Found at i:87913947 original size:28 final size:29
Alignment explanation
Indices: 87913886--87913953 Score: 111
Period size: 28 Copynumber: 2.4 Consensus size: 29
87913876 TTCGGGCAAG
*
87913886 ATGGGCCATATGAATGTGATTTGGGCCTA
1 ATGGGCCATATGAATGAGATTTGGGCCTA
87913915 ATGGGCCATATGAATGAGA-TTGGGCCTA
1 ATGGGCCATATGAATGAGATTTGGGCCTA
*
87913943 GTGGGCCATAT
1 ATGGGCCATAT
87913954 ACATGGTTGT
Statistics
Matches: 37, Mismatches: 2, Indels: 1
0.93 0.05 0.03
Matches are distributed among these distances:
28 19 0.51
29 18 0.49
ACGTcount: A:0.25, C:0.15, G:0.32, T:0.28
Consensus pattern (29 bp):
ATGGGCCATATGAATGAGATTTGGGCCTA
Found at i:87919969 original size:52 final size:53
Alignment explanation
Indices: 87919893--87919996 Score: 131
Period size: 52 Copynumber: 2.0 Consensus size: 53
87919883 ATAACATGTA
* * * *
87919893 AAATAGTTTAAATTAAATACTATATATGAAA-ATTTT-GAATAAATAATATATC
1 AAATAGTTTAAAATAAAGACTATATA-AAAATATTTTAAAATAAATAATATATC
* *
87919945 AAATAGTTTAAAATAAAGAGTATATAAAAATATTTTAAAATGAATAATATAT
1 AAATAGTTTAAAATAAAGACTATATAAAAATATTTTAAAATAAATAATATAT
87919997 TGAAAGTTCA
Statistics
Matches: 44, Mismatches: 6, Indels: 3
0.83 0.11 0.06
Matches are distributed among these distances:
51 3 0.07
52 28 0.64
53 13 0.30
ACGTcount: A:0.55, C:0.02, G:0.07, T:0.37
Consensus pattern (53 bp):
AAATAGTTTAAAATAAAGACTATATAAAAATATTTTAAAATAAATAATATATC
Found at i:87920113 original size:28 final size:28
Alignment explanation
Indices: 87920082--87920203 Score: 101
Period size: 28 Copynumber: 4.5 Consensus size: 28
87920072 AAAAAAATAA
*
87920082 AAAATAGATAATATATATATAATAGTTT
1 AAAATAAATAATATATATATAATAGTTT
* * * * *
87920110 AAAATAAAAAATATATATAAAAAAAACTTC
1 AAAATAAATAATATATAT--ATAATAGTTT
* *
87920140 AAAACAAAT-A-ATATGTATAATAGTTT
1 AAAATAAATAATATATATATAATAGTTT
*
87920166 AAAATAAATAATATGTATA-AA-A-TTT
1 AAAATAAATAATATATATATAATAGTTT
*
87920191 AAAATGAATAATA
1 AAAATAAATAATA
87920204 GTTTAAAATA
Statistics
Matches: 73, Mismatches: 17, Indels: 11
0.72 0.17 0.11
Matches are distributed among these distances:
25 15 0.21
26 15 0.21
27 3 0.04
28 26 0.36
29 1 0.01
30 13 0.18
ACGTcount: A:0.61, C:0.02, G:0.05, T:0.32
Consensus pattern (28 bp):
AAAATAAATAATATATATATAATAGTTT
Found at i:87920123 original size:26 final size:26
Alignment explanation
Indices: 87920094--87920203 Score: 96
Period size: 26 Copynumber: 4.1 Consensus size: 26
87920084 AATAGATAAT
*
87920094 ATATATATAATAGTTTAAAATAAAAA
1 ATATATATAATAGTTTAAAATAAATA
* * * *
87920120 ATATATATAAAAAAAACTTCAAAACAAATA
1 ATATATAT----AATAGTTTAAAATAAATA
*
87920150 ATATGTATAATAGTTTAAAATAAATA
1 ATATATATAATAGTTTAAAATAAATA
* * *
87920176 ATATGTATAA-AATTTAAAATGAATA
1 ATATATATAATAGTTTAAAATAAATA
87920201 ATA
1 ATA
87920204 GTTTAAAATA
Statistics
Matches: 68, Mismatches: 12, Indels: 9
0.76 0.13 0.10
Matches are distributed among these distances:
25 16 0.24
26 32 0.47
30 20 0.29
ACGTcount: A:0.60, C:0.03, G:0.05, T:0.33
Consensus pattern (26 bp):
ATATATATAATAGTTTAAAATAAATA
Found at i:87920128 original size:56 final size:55
Alignment explanation
Indices: 87920068--87920187 Score: 143
Period size: 56 Copynumber: 2.1 Consensus size: 55
87920058 ACTAACTAAC
* *
87920068 ATATAAAAAAA-TAAAAAATAGATAATATATATATAATAGTTTAAAATAAAAAATAT
1 ATATAAAAAAACTAAAAAACAAAT-A-ATATATATAATAGTTTAAAATAAAAAATAT
** * *
87920124 ATATAAAAAAAACTTCAAAACAAATAATATGTATAATAGTTTAAAATAAATAATAT
1 ATAT-AAAAAAACTAAAAAACAAATAATATATATAATAGTTTAAAATAAAAAATAT
*
87920180 GTATAAAA
1 ATATAAAA
87920188 TTTAAAATGA
Statistics
Matches: 55, Mismatches: 7, Indels: 5
0.82 0.10 0.07
Matches are distributed among these distances:
55 4 0.07
56 35 0.64
57 8 0.15
58 8 0.15
ACGTcount: A:0.63, C:0.03, G:0.04, T:0.30
Consensus pattern (55 bp):
ATATAAAAAAACTAAAAAACAAATAATATATATAATAGTTTAAAATAAAAAATAT
Found at i:87920241 original size:22 final size:23
Alignment explanation
Indices: 87920216--87920297 Score: 76
Period size: 28 Copynumber: 3.3 Consensus size: 23
87920206 TTAAAATATG
*
87920216 TAAAAC-TTAAAATACATAATAA
1 TAAAACATTAAAATAAATAATAA
87920238 TAAAACGATTTAAAATAAATAATATGA
1 TAAAAC-A-TTAAAATAAATAATA--A
*
87920265 GAAAAACAACTTAAAATAAATAATAA
1 -TAAAAC-A-TTAAAATAAATAATAA
87920291 TAAAACA
1 TAAAACA
87920298 GCTCCTAAAA
Statistics
Matches: 49, Mismatches: 5, Indels: 10
0.77 0.08 0.16
Matches are distributed among these distances:
22 6 0.12
24 1 0.02
25 19 0.39
26 1 0.02
27 1 0.02
28 21 0.43
ACGTcount: A:0.65, C:0.07, G:0.04, T:0.24
Consensus pattern (23 bp):
TAAAACATTAAAATAAATAATAA
Found at i:87920254 original size:25 final size:25
Alignment explanation
Indices: 87920219--87920297 Score: 95
Period size: 25 Copynumber: 3.0 Consensus size: 25
87920209 AAATATGTAA
*
87920219 AACTTAAAATACATAATAATAAAAC
1 AACTTAAAATAAATAATAATAAAAC
* * *
87920244 GATTTAAAATAAATAATATGAGAAAAAC
1 AACTTAAAATAAATAATA--A-TAAAAC
87920272 AACTTAAAATAAATAATAATAAAAC
1 AACTTAAAATAAATAATAATAAAAC
87920297 A
1 A
87920298 GCTCCTAAAA
Statistics
Matches: 44, Mismatches: 7, Indels: 6
0.77 0.12 0.11
Matches are distributed among these distances:
25 21 0.48
26 1 0.02
27 1 0.02
28 21 0.48
ACGTcount: A:0.65, C:0.08, G:0.04, T:0.24
Consensus pattern (25 bp):
AACTTAAAATAAATAATAATAAAAC
Found at i:87922120 original size:133 final size:132
Alignment explanation
Indices: 87921983--87922268 Score: 337
Period size: 133 Copynumber: 2.1 Consensus size: 132
87921973 TATTCTCTGT
* *
87921983 AACTTCAGGAAGATAAGATTTGCTAG-CTTCAGCCTACTCCACTGCAACTTCAGCGAGATGAGAC
1 AACTTAAGG-AGATAAGATTTG-T-GTCTTCAACCTACTCCACTGCAACTTCAGCGAGATGAGAC
* *
87922047 TAG-TGGT-TTCTA-TCTGCTCCACTGCAACTTCAGGGAGATAAGACTTATAACTTCAACCTGCT
63 TAGCT-ATCTTC-AGTCTGCTCCACTGCAACTTCAAGGAGATAAGACTTATAACTTCAACCTGCT
87922109 CCACTGC
126 CCACTGC
* ** * * *
87922116 AACTTTAAGGAGATAAGTTTTGTGTCTTCAATTTACTCCACTGCAACTTCAGGGAGATGAGATTC
1 AAC-TTAAGGAGATAAGATTTGTGTCTTCAACCTACTCCACTGCAACTTCAGCGAGATGAGACTA
* * *
87922181 GCTATCTTCAGTCTGCTCTACTGCGACTTCAAGGAGATAAGACTTGTAACTTCAACCTGCTCCAC
65 GCTATCTTCAGTCTGCTCCACTGCAACTTCAAGGAGATAAGACTTATAACTTCAACCTGCTCCAC
*
87922246 TTC
130 TGC
* *
87922249 AACTTTAGGGAGATGAGATT
1 AAC-TTAAGGAGATAAGATT
87922269 CGTGGCTTTA
Statistics
Matches: 131, Mismatches: 17, Indels: 10
0.83 0.11 0.06
Matches are distributed among these distances:
131 1 0.01
132 38 0.29
133 87 0.66
134 5 0.04
ACGTcount: A:0.28, C:0.23, G:0.19, T:0.30
Consensus pattern (132 bp):
AACTTAAGGAGATAAGATTTGTGTCTTCAACCTACTCCACTGCAACTTCAGCGAGATGAGACTAG
CTATCTTCAGTCTGCTCCACTGCAACTTCAAGGAGATAAGACTTATAACTTCAACCTGCTCCACT
GC
Found at i:87922128 original size:44 final size:44
Alignment explanation
Indices: 87921866--87922262 Score: 258
Period size: 44 Copynumber: 9.0 Consensus size: 44
87921856 CAAAGATACT
* * * *
87921866 AGACTTGTAGCTTTAATCTGCTCCACTGCAACTTCAGTGAGATTA
1 AGACTTGTAACTTCAACCTGCTCCACTGCAACTTCAGGGAGA-TA
* * * ** * * *
87921911 A-ACTTGTAGCTTTAATCTGCTATACTGCAACTTTAGTGAGATG
1 AGACTTGTAACTTCAACCTGCTCCACTGCAACTTCAGGGAGATA
* ** ** ** * * * *
87921954 AGGCTTGTATTTTCAATTTTATTCTCTGTAACTTCAGGAAGATA
1 AGACTTGTAACTTCAACCTGCTCCACTGCAACTTCAGGGAGATA
* * * * * *
87921998 AGATTTGCTAGCTTCAGCCTACTCCACTGCAACTTCAGCGAGATG
1 AGACTTG-TAACTTCAACCTGCTCCACTGCAACTTCAGGGAGATA
* *** * *
87922043 AGACTAGTGGTTTCTATCTGCTCCACTGCAACTTCAGGGAGATA
1 AGACTTGTAACTTCAACCTGCTCCACTGCAACTTCAGGGAGATA
* * *
87922087 AGACTTATAACTTCAACCTGCTCCACTGCAACTTTAAGGAGATA
1 AGACTTGTAACTTCAACCTGCTCCACTGCAACTTCAGGGAGATA
** ** ** * *
87922131 AGTTTTGTGTCTTCAATTTACTCCACTGCAACTTCAGGGAGATG
1 AGACTTGTAACTTCAACCTGCTCCACTGCAACTTCAGGGAGATA
* ** * * *
87922175 AGA-TTCGCTATCTTCAGTCTGCTCTACTGCGACTTCAAGGAGATA
1 AGACTT-G-TAACTTCAACCTGCTCCACTGCAACTTCAGGGAGATA
* *
87922220 AGACTTGTAACTTCAACCTGCTCCACTTCAACTTTAGGGAGAT
1 AGACTTGTAACTTCAACCTGCTCCACTGCAACTTCAGGGAGAT
87922263 GAGATTCGTG
Statistics
Matches: 266, Mismatches: 81, Indels: 11
0.74 0.23 0.03
Matches are distributed among these distances:
43 4 0.02
44 197 0.74
45 63 0.24
46 2 0.01
ACGTcount: A:0.27, C:0.22, G:0.18, T:0.33
Consensus pattern (44 bp):
AGACTTGTAACTTCAACCTGCTCCACTGCAACTTCAGGGAGATA
Found at i:87922210 original size:45 final size:44
Alignment explanation
Indices: 87921983--87922313 Score: 216
Period size: 44 Copynumber: 7.5 Consensus size: 44
87921973 TATTCTCTGT
* * * * * *
87921983 AACTTCAGGAAGATAAGATTTGCTAGCTTCAGCCTACTCCACTGC
1 AACTTCAGGGAGATGAGATTCG-TAACTTCAACCTGCTCCACTGC
* * * *** * *
87922028 AACTTCAGCGAGATGAGACTAGTGGTTTCTATCTGCTCCACTGC
1 AACTTCAGGGAGATGAGATTCGTAACTTCAACCTGCTCCACTGC
* *
87922072 AACTTCAGGGAGATAAGACTT-ATAACTTCAACCTGCTCCACTGC
1 AACTTCAGGGAGATGAGA-TTCGTAACTTCAACCTGCTCCACTGC
* * * * * ** ** *
87922116 AACTTTAAGGAGATAAGTTTTGTGTCTTCAATTTACTCCACTGC
1 AACTTCAGGGAGATGAGATTCGTAACTTCAACCTGCTCCACTGC
* ** *
87922160 AACTTCAGGGAGATGAGATTCGCTATCTTCAGTCTGCTCTACTGC
1 AACTTCAGGGAGATGAGATTCG-TAACTTCAACCTGCTCCACTGC
* * * *
87922205 GACTTCAAGGAGATAAGACTT-GTAACTTCAACCTGCTCCACTTC
1 AACTTCAGGGAGATGAGA-TTCGTAACTTCAACCTGCTCCACTGC
* ** * ** * **
87922249 AACTTTAGGGAGATGAGATTCGTGGCTTTAATTTTCTCTGCTGC
1 AACTTCAGGGAGATGAGATTCGTAACTTCAACCTGCTCCACTGC
*
87922293 AACTTCAGGGAGATAAGATTC
1 AACTTCAGGGAGATGAGATTC
87922314 ACCATGGTGA
Statistics
Matches: 219, Mismatches: 62, Indels: 11
0.75 0.21 0.04
Matches are distributed among these distances:
43 4 0.02
44 162 0.74
45 51 0.23
46 2 0.01
ACGTcount: A:0.27, C:0.23, G:0.20, T:0.31
Consensus pattern (44 bp):
AACTTCAGGGAGATGAGATTCGTAACTTCAACCTGCTCCACTGC
Found at i:87922234 original size:89 final size:89
Alignment explanation
Indices: 87921983--87922270 Score: 294
Period size: 89 Copynumber: 3.2 Consensus size: 89
87921973 TATTCTCTGT
* * * * *
87921983 AACTTCAGGAAGATAAGATTTGCTAGCTTCAGCCTACTCCACTGCAACTTC-AGCGAGATGAGAC
1 AACTTCAGGGAGATAAGATTCGCTAACTTCAGCCTGCTCCACTGCAACTTCAAG-GAGATAAGAC
* ** *
87922047 TAGTGGTTTCTATCTGCTCCACTGC
65 TTGTGACTTCAATCTGCTCCACTGC
* * * **
87922072 AACTTCAGGGAGATAAGACTT--ATAACTTCAACCTGCTCCACTGCAACTTTAAGGAGATAAGTT
1 AACTTCAGGGAGATAAGA-TTCGCTAACTTCAGCCTGCTCCACTGCAACTTCAAGGAGATAAGAC
* * *
87922135 TTGTGTCTTCAATTTACTCCACTGC
65 TTGTGACTTCAATCTGCTCCACTGC
* * * * *
87922160 AACTTCAGGGAGATGAGATTCGCTATCTTCAGTCTGCTCTACTGCGACTTCAAGGAGATAAGACT
1 AACTTCAGGGAGATAAGATTCGCTAACTTCAGCCTGCTCCACTGCAACTTCAAGGAGATAAGACT
* * *
87922225 TGTAACTTCAACCTGCTCCACTTC
66 TGTGACTTCAATCTGCTCCACTGC
* *
87922249 AACTTTAGGGAGATGAGATTCG
1 AACTTCAGGGAGATAAGATTCG
87922271 TGGCTTTAAT
Statistics
Matches: 163, Mismatches: 32, Indels: 8
0.80 0.16 0.04
Matches are distributed among these distances:
87 2 0.01
88 67 0.41
89 92 0.56
90 2 0.01
ACGTcount: A:0.27, C:0.24, G:0.19, T:0.30
Consensus pattern (89 bp):
AACTTCAGGGAGATAAGATTCGCTAACTTCAGCCTGCTCCACTGCAACTTCAAGGAGATAAGACT
TGTGACTTCAATCTGCTCCACTGC
Found at i:87922243 original size:177 final size:176
Alignment explanation
Indices: 87921866--87922262 Score: 431
Period size: 177 Copynumber: 2.2 Consensus size: 176
87921856 CAAAGATACT
* * * * * *
87921866 AGACTTGTAGCTTTAATCTGCTCCACTGCAACTTCAGTGAGATTAAACTTGTAGCTTTAATCTGC
1 AGACTTGTAGCTTCAATCTGCTCCACTGCAACTTCAGGGAGA-TAAACTTATAACTTCAACCTGC
* * * * * *
87921931 TATACTGCAACTTTAGTGAGATGAGGCTTGTATTTTCAATTTTATTCTCTGTAACTTCAGGAAGA
65 TACACTGCAACTTTAGTGAGATAAGGCTTGTATCTTCAATTTTATCCACTGCAACTTCAGGAAGA
* *
87921996 TAAGATTTGCTAGCTTCAGCCTACTCCACTGCAACTTCAGCGAGATG
130 TAAGATTCGCTAGCTTCAGCCTACTCCACTGCAACTTCAGCGAGATA
* * * *
87922043 AGACTAGTGGTTTCTATCTGCTCCACTGCAACTTCAGGGAGATAAGACTTATAACTTCAACCTGC
1 AGACTTGTAGCTTCAATCTGCTCCACTGCAACTTCAGGGAGATAA-ACTTATAACTTCAACCTGC
* ** * *
87922108 TCCACTGCAACTTTAAG-GAGATAAGTTTTGTGTCTTCAA-TTTACTCCACTGCAACTTCAGGGA
65 TACACTGCAACTTT-AGTGAGATAAGGCTTGTATCTTCAATTTTA-TCCACTGCAACTTCAGGAA
* * * * * *
87922171 GATGAGATTCGCTATCTTCAGTCTGCTCTACTGCGACTTCAAG-GAGATA
128 GATAAGATTCGCTAGCTTCAGCCTACTCCACTGCAACTTC-AGCGAGATA
* * * *
87922220 AGACTTGTAACTTCAACCTGCTCCACTTCAACTTTAGGGAGAT
1 AGACTTGTAGCTTCAATCTGCTCCACTGCAACTTCAGGGAGAT
87922263 GAGATTCGTG
Statistics
Matches: 179, Mismatches: 37, Indels: 8
0.80 0.17 0.04
Matches are distributed among these distances:
176 7 0.04
177 168 0.94
178 4 0.02
ACGTcount: A:0.27, C:0.22, G:0.18, T:0.33
Consensus pattern (176 bp):
AGACTTGTAGCTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAACTTATAACTTCAACCTGCT
ACACTGCAACTTTAGTGAGATAAGGCTTGTATCTTCAATTTTATCCACTGCAACTTCAGGAAGAT
AAGATTCGCTAGCTTCAGCCTACTCCACTGCAACTTCAGCGAGATA
Found at i:87922282 original size:133 final size:132
Alignment explanation
Indices: 87922017--87922313 Score: 382
Period size: 133 Copynumber: 2.2 Consensus size: 132
87922007 AGCTTCAGCC
* * * * *
87922017 TACTCCACTGCAACTTCAGCGAGATGAGACTAGTGGTTTCTATCTGCTCCACTGCAACTTCAGGG
1 TACTCCACTGCAACTTCAGGGAGATGAGATTCGTGATTTCTATCTGCTCCACTGCAACTTCAAGG
* * *
87922082 AGATAAGACTTATAACTTCAACCTGCTCCACTGCAACTTTAAGGAGATAAGTTTTGTGTCTTCAA
66 AGATAAGACTTATAACTTCAACCTGCTCCACTGCAACTTTAAGGAGATAAGATTCGTGGCTTCAA
87922147 TT
131 TT
* *
87922149 TACTCCACTGCAACTTCAGGGAGATGAGATTCGCT-ATCTTC-AGTCTGCTCTACTGCGACTTCA
1 TACTCCACTGCAACTTCAGGGAGATGAGATTCG-TGAT-TTCTA-TCTGCTCCACTGCAACTTCA
* * * *
87922212 AGGAGATAAGACTTGTAACTTCAACCTGCTCCACTTCAACTTTAGGGAGATGAGATTCGTGGCTT
63 AGGAGATAAGACTTATAACTTCAACCTGCTCCACTGCAACTTTAAGGAGATAAGATTCGTGGCTT
*
87922277 TAATT
128 CAATT
* ** *
87922282 TTCTCTGCTGCAACTTCAGGGAGATAAGATTC
1 TACTCCACTGCAACTTCAGGGAGATGAGATTC
87922314 ACCATGGTGA
Statistics
Matches: 143, Mismatches: 19, Indels: 5
0.86 0.11 0.03
Matches are distributed among these distances:
132 32 0.22
133 111 0.78
ACGTcount: A:0.26, C:0.23, G:0.20, T:0.31
Consensus pattern (132 bp):
TACTCCACTGCAACTTCAGGGAGATGAGATTCGTGATTTCTATCTGCTCCACTGCAACTTCAAGG
AGATAAGACTTATAACTTCAACCTGCTCCACTGCAACTTTAAGGAGATAAGATTCGTGGCTTCAA
TT
Found at i:87925985 original size:12 final size:12
Alignment explanation
Indices: 87925968--87925999 Score: 64
Period size: 12 Copynumber: 2.7 Consensus size: 12
87925958 AACGTTCCCC
87925968 ATGTGGTTACGA
1 ATGTGGTTACGA
87925980 ATGTGGTTACGA
1 ATGTGGTTACGA
87925992 ATGTGGTT
1 ATGTGGTT
87926000 TTTTCCATGT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.22, C:0.06, G:0.34, T:0.38
Consensus pattern (12 bp):
ATGTGGTTACGA
Found at i:87930487 original size:19 final size:19
Alignment explanation
Indices: 87930449--87930487 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
87930439 GGGTCTTTTT
* * *
87930449 ATGAAATTTAATGCATATG
1 ATGAAATGTAACGCAGATG
87930468 ATGAAATGTAACGCAGATG
1 ATGAAATGTAACGCAGATG
87930487 A
1 A
87930488 ATAAATGCAA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.44, C:0.08, G:0.21, T:0.28
Consensus pattern (19 bp):
ATGAAATGTAACGCAGATG
Found at i:87932644 original size:20 final size:20
Alignment explanation
Indices: 87932619--87932661 Score: 86
Period size: 20 Copynumber: 2.1 Consensus size: 20
87932609 AAAATAAAGA
87932619 AATTTTGCAATTTAGTCCAC
1 AATTTTGCAATTTAGTCCAC
87932639 AATTTTGCAATTTAGTCCAC
1 AATTTTGCAATTTAGTCCAC
87932659 AAT
1 AAT
87932662 CTTTTCCTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.33, C:0.19, G:0.09, T:0.40
Consensus pattern (20 bp):
AATTTTGCAATTTAGTCCAC
Found at i:87935504 original size:23 final size:22
Alignment explanation
Indices: 87935477--87935562 Score: 63
Period size: 23 Copynumber: 3.8 Consensus size: 22
87935467 GAAACAACTA
87935477 TAAATAAATAATATAAAAAGTC
1 TAAATAAATAATATAAAAAGTC
* *
87935499 TCAAATGAATAAGGTAT-AAAACT-
1 T-AAATAAATAA--TATAAAAAGTC
*
87935522 TAAAATAAATAATA-AAAGAG-C
1 T-AAATAAATAATATAAAAAGTC
87935543 ATAAAGTAAATAATATAAAA
1 -TAAA-TAAATAATATAAAA
87935563 TTTCAAAATG
Statistics
Matches: 49, Mismatches: 7, Indels: 15
0.69 0.10 0.21
Matches are distributed among these distances:
21 8 0.16
22 11 0.22
23 22 0.45
24 5 0.10
25 3 0.06
ACGTcount: A:0.63, C:0.05, G:0.08, T:0.24
Consensus pattern (22 bp):
TAAATAAATAATATAAAAAGTC
Found at i:87935780 original size:26 final size:25
Alignment explanation
Indices: 87935622--87935982 Score: 143
Period size: 25 Copynumber: 13.4 Consensus size: 25
87935612 AAAATTTTGA
* * *
87935622 ATAAAATAGTTTAAAATAAAGAGTAT
1 ATAAAA-AATTTAAAATAAATAATAT
*
87935648 ATAAAAAATATTTTAAAATGAATAATAT
1 AT-AAAAA-A-TTTAAAATAAATAATAT
** * *
87935676 ATTGAAAGTTCAAAATAAATAATA-
1 ATAAAAAATTTAAAATAAATAATAT
* * *
87935700 ATAATAAGGAATTTAAAATGATTAACAT
1 ATAA-AA--AATTTAAAATAAATAATAT
* * * * *
87935728 ATAAAATA-GTATAACTAACTAACAT
1 ATAAAAAATTTA-AAATAAATAATAT
*
87935753 ATAAAAAATTTTAAAATAGATAATAT
1 ATAAAAAA-TTTAAAATAAATAATAT
87935779 ATATATAATAATTTAAAATAAAAAATATATAT
1 ATA-A-AA-AATTTAAAAT---AAATA-ATAT
* * *
87935811 ATAAAAACCTTCAAAATAAATTATAT
1 ATAAAAA-ATTTAAAATAAATAATAT
* *
87935837 ATATAATAGTTTAAAATAAATAATAT
1 ATA-AAAAATTTAAAATAAATAATAT
* * *
87935863 GTATAAAATTTAAAATGAATAATAGT
1 ATAAAAAATTTAAAATAAATAATA-T
* * *
87935889 TTAAAATATGTAAAACTTAAAATACATAAT
1 ATAAAAAATTTAAAA--T-AAATA-AT-AT
* *
87935919 AATAAAACGATTTAAAATAAATAATTT
1 -ATAAAA-AATTTAAAATAAATAATAT
* *
87935946 CAAAAAAACAACTTAAAATAAATAATA-
1 --ATAAAA-AATTTAAAATAAATAATAT
87935973 ATAATAAAAT
1 ATAA-AAAAT
87935983 AGTTCCTATA
Statistics
Matches: 251, Mismatches: 55, Indels: 59
0.69 0.15 0.16
Matches are distributed among these distances:
24 4 0.02
25 56 0.22
26 53 0.21
27 33 0.13
28 55 0.22
29 12 0.05
30 13 0.05
31 11 0.04
32 14 0.06
ACGTcount: A:0.59, C:0.04, G:0.05, T:0.32
Consensus pattern (25 bp):
ATAAAAAATTTAAAATAAATAATAT
Found at i:87935785 original size:30 final size:29
Alignment explanation
Indices: 87935751--87935981 Score: 120
Period size: 28 Copynumber: 8.3 Consensus size: 29
87935741 ACTAACTAAC
*
87935751 ATATAAAAAATTTTAAAATAGATAATATAT
1 ATATAAAAAA-TTTAAAATAAATAATATAT
* *
87935781 ATAT-AATAATTTAAAATAAAAAATATAT
1 ATATAAAAAATTTAAAATAAATAATATAT
* *
87935809 ATATAAAAACCTTCAAAATAAAT--TATAT
1 ATATAAAAA-ATTTAAAATAAATAATATAT
* *
87935837 ATAT-AATAGTTTAAAATAAAT-A-ATAT
1 ATATAAAAAATTTAAAATAAATAATATAT
* * *
87935863 GTAT--AAAATTTAAAATGAATAATA-GT
1 ATATAAAAAATTTAAAATAAATAATATAT
* *
87935889 -T-TAAAATATGTAAAACTTAAAATACATA-AT
1 ATATAAAAAATTTAAAA--T-AAATA-ATATAT
*
87935919 A-ATAAAACGATTTAAAATAAATAAT-T-T
1 ATATAAAA-AATTTAAAATAAATAATATAT
* *
87935946 CA-AAAAAACAACTTAAAATAAATAATA-AT
1 -ATATAAAA-AATTTAAAATAAATAATATAT
87935975 A-ATAAAA
1 ATATAAAA
87935982 TAGTTCCTAT
Statistics
Matches: 158, Mismatches: 25, Indels: 38
0.71 0.11 0.17
Matches are distributed among these distances:
24 1 0.01
25 14 0.09
26 29 0.18
27 5 0.03
28 61 0.39
29 17 0.11
30 19 0.12
31 5 0.03
32 7 0.04
ACGTcount: A:0.61, C:0.04, G:0.03, T:0.32
Consensus pattern (29 bp):
ATATAAAAAATTTAAAATAAATAATATAT
Found at i:87935793 original size:28 final size:28
Alignment explanation
Indices: 87935626--87935886 Score: 140
Period size: 28 Copynumber: 9.8 Consensus size: 28
87935616 TTTTGAATAA
* * * * *
87935626 AATAGTTTAAAATAAAGAGTATATAAAA
1 AATAATTTAAAATAAATAATATATATAT
* * *
87935654 AATATTTTAAAATGAATAATATAT-T-G
1 AATAATTTAAAATAAATAATATATATAT
* *
87935680 AA-AGTTCAAAATAAATAATA-ATA-AT
1 AATAATTTAAAATAAATAATATATATAT
* * * *
87935705 AAGGAATTTAAAATGATTAACATATA-A-
1 AA-TAATTTAAAATAAATAATATATATAT
* * * * *
87935732 AATAGTAT-AACTAACTAACATATA-A-
1 AATAATTTAAAATAAATAATATATATAT
*
87935757 AA-AATTTTAAAATAGATAATATATATAT
1 AATAA-TTTAAAATAAATAATATATATAT
*
87935785 AATAATTTAAAATAAAAAATATATATAT
1 AATAATTTAAAATAAATAATATATATAT
* *
87935813 AAAAACCTTCAAAATAAAT--TATATATAT
1 AATAA--TTTAAAATAAATAATATATATAT
* *
87935841 AATAGTTTAAAATAAAT-A-ATATGTAT
1 AATAATTTAAAATAAATAATATATATAT
*
87935867 AA-AATTTAAAATGAATAATA
1 AATAATTTAAAATAAATAATA
87935887 GTTTAAAATA
Statistics
Matches: 180, Mismatches: 38, Indels: 31
0.72 0.15 0.12
Matches are distributed among these distances:
24 3 0.02
25 47 0.26
26 38 0.21
27 17 0.09
28 63 0.35
29 2 0.01
30 10 0.06
ACGTcount: A:0.58, C:0.03, G:0.05, T:0.33
Consensus pattern (28 bp):
AATAATTTAAAATAAATAATATATATAT
Found at i:87938167 original size:21 final size:20
Alignment explanation
Indices: 87938143--87938182 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
87938133 GTTGAAATGT
*
87938143 CACACGGGCGTGTTGCCCCTC
1 CACACGGACGTG-TGCCCCTC
*
87938164 CACATGGACGTGTGCCCCT
1 CACACGGACGTGTGCCCCT
87938183 GTGTTAAGAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 7 0.41
21 10 0.59
ACGTcount: A:0.12, C:0.40, G:0.28, T:0.20
Consensus pattern (20 bp):
CACACGGACGTGTGCCCCTC
Found at i:87938918 original size:15 final size:15
Alignment explanation
Indices: 87938898--87938927 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
87938888 GCGTTACTTA
87938898 GACCCTTGTTTATGT
1 GACCCTTGTTTATGT
87938913 GACCCTTGTTTATGT
1 GACCCTTGTTTATGT
87938928 AATTTGAATA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.13, C:0.20, G:0.20, T:0.47
Consensus pattern (15 bp):
GACCCTTGTTTATGT
Found at i:87939320 original size:2 final size:2
Alignment explanation
Indices: 87939313--87939351 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
87939303 AAGGCCCTAT
87939313 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
87939352 CTGATTCTGC
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:87949961 original size:41 final size:41
Alignment explanation
Indices: 87949904--87950002 Score: 155
Period size: 41 Copynumber: 2.4 Consensus size: 41
87949894 TCCAAATTCT
*
87949904 TGAAAAGGTTGAAAAGGAAGTTACCCGAAAAGAATAACACA
1 TGAAAAGGTTGAAAAGGAAATTACCCGAAAAGAATAACACA
* * *
87949945 TGAAAAGGTTGAAAAGGAAATTACCTGAAAGGGATAACACA
1 TGAAAAGGTTGAAAAGGAAATTACCCGAAAAGAATAACACA
87949986 TGAAAA-GTTGAAAAGGA
1 TGAAAAGGTTGAAAAGGA
87950003 TATATCTAAA
Statistics
Matches: 54, Mismatches: 4, Indels: 1
0.92 0.07 0.02
Matches are distributed among these distances:
40 11 0.20
41 43 0.80
ACGTcount: A:0.51, C:0.09, G:0.24, T:0.16
Consensus pattern (41 bp):
TGAAAAGGTTGAAAAGGAAATTACCCGAAAAGAATAACACA
Found at i:87964987 original size:16 final size:16
Alignment explanation
Indices: 87964933--87964987 Score: 51
Period size: 16 Copynumber: 3.5 Consensus size: 16
87964923 TAATATTATC
*
87964933 TTTACTAATTTAAAAT
1 TTTACTAAATTAAAAT
87964949 TTTA-TAAATTATAAA-
1 TTTACTAAATTA-AAAT
***
87964964 TGGCCTAAATTAAAAT
1 TTTACTAAATTAAAAT
87964980 TTTACTAA
1 TTTACTAA
87964988 GAGGCCATGG
Statistics
Matches: 29, Mismatches: 7, Indels: 6
0.69 0.17 0.14
Matches are distributed among these distances:
15 10 0.34
16 19 0.66
ACGTcount: A:0.45, C:0.07, G:0.04, T:0.44
Consensus pattern (16 bp):
TTTACTAAATTAAAAT
Found at i:87965943 original size:10 final size:10
Alignment explanation
Indices: 87965905--87965949 Score: 54
Period size: 10 Copynumber: 4.2 Consensus size: 10
87965895 TAAAAAAAAT
87965905 AAAGAAAGAA
1 AAAGAAAGAA
87965915 AGATAGAAACGAA
1 A-A-AGAAA-GAA
*
87965928 ACAGAAAGAA
1 AAAGAAAGAA
87965938 AAAGAAAGAA
1 AAAGAAAGAA
87965948 AA
1 AA
87965950 GGGAGAAAGA
Statistics
Matches: 30, Mismatches: 2, Indels: 6
0.79 0.05 0.16
Matches are distributed among these distances:
10 15 0.50
11 6 0.20
12 5 0.17
13 4 0.13
ACGTcount: A:0.73, C:0.04, G:0.20, T:0.02
Consensus pattern (10 bp):
AAAGAAAGAA
Found at i:87966448 original size:41 final size:40
Alignment explanation
Indices: 87966391--87966531 Score: 128
Period size: 40 Copynumber: 3.6 Consensus size: 40
87966381 CAACGTCAAG
87966391 TCGATGAGACACTGGGTGTCAAATTATTACTTCGGATTAAT
1 TCGATGAGACACTGGGTGTCAAATTATTACTTCGGATT-AT
* *
87966432 TCGATGAGACACTGGGTG-CCAA-T-TTACTTCGGTTTA-
1 TCGATGAGACACTGGGTGTCAAATTATTACTTCGGATTAT
* * ** * *
87966468 GCAGATAAGACACTATGTATCAAATTATTACTTCGAATTAT
1 TC-GATGAGACACTGGGTGTCAAATTATTACTTCGGATTAT
* * * *
87966509 CCTATGAGGCACTGGATGTCAAA
1 TCGATGAGACACTGGGTGTCAAA
87966532 CTGGTGTGTT
Statistics
Matches: 77, Mismatches: 18, Indels: 11
0.73 0.17 0.10
Matches are distributed among these distances:
36 1 0.01
37 13 0.17
38 14 0.18
39 2 0.03
40 28 0.36
41 19 0.25
ACGTcount: A:0.30, C:0.17, G:0.21, T:0.32
Consensus pattern (40 bp):
TCGATGAGACACTGGGTGTCAAATTATTACTTCGGATTAT
Found at i:87967676 original size:30 final size:29
Alignment explanation
Indices: 87967630--87967703 Score: 89
Period size: 30 Copynumber: 2.5 Consensus size: 29
87967620 AGAAAGCAGT
*
87967630 AAAG-AAG-AAGAGAATGAGAGGAAAAAAA
1 AAAGAAAGAAAGA-AATGAGAAGAAAAAAA
*
87967658 GAAAGAAAGAAAGAAATGAGAAGAAAAAGA
1 -AAAGAAAGAAAGAAATGAGAAGAAAAAAA
87967688 AAAGAAAAGAAAGAAA
1 AAAG-AAAGAAAGAAA
87967704 AAAGATAAAT
Statistics
Matches: 40, Mismatches: 2, Indels: 5
0.85 0.04 0.11
Matches are distributed among these distances:
29 8 0.20
30 28 0.70
31 4 0.10
ACGTcount: A:0.72, C:0.00, G:0.26, T:0.03
Consensus pattern (29 bp):
AAAGAAAGAAAGAAATGAGAAGAAAAAAA
Found at i:87967686 original size:16 final size:16
Alignment explanation
Indices: 87967654--87967708 Score: 51
Period size: 16 Copynumber: 3.4 Consensus size: 16
87967644 TGAGAGGAAA
87967654 AAAAG-AAAGAAAGAAAG
1 AAAAGAAAAG-AA-AAAG
* *
87967671 AAATGAGAAGAAAAAG
1 AAAAGAAAAGAAAAAG
87967687 AAAAGAAAAGAAAGAA-
1 AAAAGAAAAGAAA-AAG
87967703 AAAAGA
1 AAAAGA
87967709 TAAATCTATT
Statistics
Matches: 32, Mismatches: 4, Indels: 5
0.78 0.10 0.12
Matches are distributed among these distances:
16 21 0.66
17 8 0.25
18 3 0.09
ACGTcount: A:0.76, C:0.00, G:0.22, T:0.02
Consensus pattern (16 bp):
AAAAGAAAAGAAAAAG
Found at i:87967686 original size:20 final size:20
Alignment explanation
Indices: 87967654--87967705 Score: 65
Period size: 20 Copynumber: 2.7 Consensus size: 20
87967644 TGAGAGGAAA
87967654 AAAAGAAAG--AAAG-AAAG
1 AAAAGAAAGAAAAAGAAAAG
*
87967671 AAATGAGAAGAAAAAGAAAAG
1 AAAAGA-AAGAAAAAGAAAAG
87967692 AAAAGAAAGAAAAA
1 AAAAGAAAGAAAAA
87967706 AGATAAATCT
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
17 5 0.17
18 3 0.10
20 12 0.41
21 9 0.31
ACGTcount: A:0.77, C:0.00, G:0.21, T:0.02
Consensus pattern (20 bp):
AAAAGAAAGAAAAAGAAAAG
Found at i:87971254 original size:33 final size:33
Alignment explanation
Indices: 87971163--87971246 Score: 141
Period size: 33 Copynumber: 2.5 Consensus size: 33
87971153 AACTTAGGCC
87971163 AGGAGGAGTGGAGTATTGCAGTGGTAATGGGCT
1 AGGAGGAGTGGAGTATTGCAGTGGTAATGGGCT
* *
87971196 AGGAGGAGTAGAGTATTGCGGTGGTAATGGGCT
1 AGGAGGAGTGGAGTATTGCAGTGGTAATGGGCT
*
87971229 AGGAGGAGTGGAATATTG
1 AGGAGGAGTGGAGTATTG
87971247 TTGTGGTAGT
Statistics
Matches: 47, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
33 47 1.00
ACGTcount: A:0.26, C:0.05, G:0.45, T:0.24
Consensus pattern (33 bp):
AGGAGGAGTGGAGTATTGCAGTGGTAATGGGCT
Found at i:87973981 original size:15 final size:15
Alignment explanation
Indices: 87973961--87974012 Score: 52
Period size: 15 Copynumber: 3.4 Consensus size: 15
87973951 GATTTTACAC
87973961 ATTATTATGTTGTAT
1 ATTATTATGTTGTAT
* *
87973976 ATTATTTTTTTGTAT
1 ATTATTATGTTGTAT
*
87973991 A-TATTATTGATTTTAT
1 ATTATTA-TG-TTGTAT
87974007 ATTATT
1 ATTATT
87974013 TTATGTAAAT
Statistics
Matches: 29, Mismatches: 5, Indels: 4
0.76 0.13 0.11
Matches are distributed among these distances:
14 4 0.14
15 15 0.52
16 6 0.21
17 4 0.14
ACGTcount: A:0.27, C:0.00, G:0.08, T:0.65
Consensus pattern (15 bp):
ATTATTATGTTGTAT
Found at i:87974041 original size:16 final size:16
Alignment explanation
Indices: 87974022--87974074 Score: 54
Period size: 16 Copynumber: 3.3 Consensus size: 16
87974012 TTTATGTAAA
87974022 TATTTTCTTTTAAATC
1 TATTTTCTTTTAAATC
* * * *
87974038 TATTTAT-GTATATATA
1 TATTT-TCTTTTAAATC
87974054 TATTTTCTTTTAAATC
1 TATTTTCTTTTAAATC
87974070 TATTT
1 TATTT
87974075 ATGTATATAG
Statistics
Matches: 27, Mismatches: 8, Indels: 4
0.69 0.21 0.10
Matches are distributed among these distances:
15 1 0.04
16 25 0.93
17 1 0.04
ACGTcount: A:0.28, C:0.08, G:0.02, T:0.62
Consensus pattern (16 bp):
TATTTTCTTTTAAATC
Found at i:87974043 original size:28 final size:30
Alignment explanation
Indices: 87974012--87974098 Score: 115
Period size: 32 Copynumber: 2.8 Consensus size: 30
87974002 TTTATATTAT
87974012 TTTATGTA-A-ATATTTTCTTTTAAATCTA
1 TTTATGTATATATATTTTCTTTTAAATCTA
87974040 TTTATGTATATATATATTTTCTTTTAAATCTA
1 TTTATG--TATATATATTTTCTTTTAAATCTA
*
87974072 TTTATGTATATAGTTTATTTCTTTTAA
1 TTTATGTATATA-TAT-TTTCTTTTAA
87974099 GGACCCTATT
Statistics
Matches: 52, Mismatches: 1, Indels: 8
0.85 0.02 0.13
Matches are distributed among these distances:
28 6 0.12
30 8 0.15
31 3 0.06
32 35 0.67
ACGTcount: A:0.30, C:0.06, G:0.05, T:0.60
Consensus pattern (30 bp):
TTTATGTATATATATTTTCTTTTAAATCTA
Found at i:87974062 original size:32 final size:33
Alignment explanation
Indices: 87974021--87974098 Score: 133
Period size: 32 Copynumber: 2.4 Consensus size: 33
87974011 TTTTATGTAA
87974021 ATATTTTCTTTTAAATCTATTTATGTATATA-T
1 ATATTTTCTTTTAAATCTATTTATGTATATAGT
87974053 ATATTTTCTTTTAAATCTATTTATGTATATAGT
1 ATATTTTCTTTTAAATCTATTTATGTATATAGT
*
87974086 TTA-TTTCTTTTAA
1 ATATTTTCTTTTAA
87974099 GGACCCTATT
Statistics
Matches: 44, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
32 41 0.93
33 3 0.07
ACGTcount: A:0.29, C:0.06, G:0.04, T:0.60
Consensus pattern (33 bp):
ATATTTTCTTTTAAATCTATTTATGTATATAGT
Found at i:87974482 original size:34 final size:36
Alignment explanation
Indices: 87974411--87974484 Score: 98
Period size: 36 Copynumber: 2.1 Consensus size: 36
87974401 TTGACTCCCA
* * *
87974411 GTTTTCATATTATTTTGTATATTATGTGTTGTTTTT
1 GTTTTCATATCATTTTATATATTATGTGTTGTCTTT
*
87974447 GTTTTCATATCGTTTTATATATTAT-TGTT-TCTTT
1 GTTTTCATATCATTTTATATATTATGTGTTGTCTTT
87974481 GTTT
1 GTTT
87974485 ATTAGTCTTT
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
34 8 0.24
35 4 0.12
36 22 0.65
ACGTcount: A:0.16, C:0.05, G:0.12, T:0.66
Consensus pattern (36 bp):
GTTTTCATATCATTTTATATATTATGTGTTGTCTTT
Found at i:87979671 original size:17 final size:17
Alignment explanation
Indices: 87979651--87979711 Score: 59
Period size: 17 Copynumber: 3.4 Consensus size: 17
87979641 ATTTCAAGAC
87979651 TTATGTAATGTTTTTAA
1 TTATGTAATGTTTTTAA
* ***
87979668 TTATGTAGTGATTCAAAGA
1 TTATGTAATG-TTTTTA-A
87979687 CTTATGTAATGTTTTTAA
1 -TTATGTAATGTTTTTAA
87979705 TTATGTA
1 TTATGTA
87979712 TTGATTCAAT
Statistics
Matches: 33, Mismatches: 8, Indels: 6
0.70 0.17 0.13
Matches are distributed among these distances:
17 16 0.48
18 4 0.12
19 4 0.12
20 9 0.27
ACGTcount: A:0.31, C:0.03, G:0.15, T:0.51
Consensus pattern (17 bp):
TTATGTAATGTTTTTAA
Found at i:87979687 original size:37 final size:37
Alignment explanation
Indices: 87979646--87979720 Score: 141
Period size: 37 Copynumber: 2.0 Consensus size: 37
87979636 TGTTAATTTC
87979646 AAGACTTATGTAATGTTTTTAATTATGTAGTGATTCA
1 AAGACTTATGTAATGTTTTTAATTATGTAGTGATTCA
*
87979683 AAGACTTATGTAATGTTTTTAATTATGTATTGATTCA
1 AAGACTTATGTAATGTTTTTAATTATGTAGTGATTCA
87979720 A
1 A
87979721 TTCGGTTAAT
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.33, C:0.05, G:0.15, T:0.47
Consensus pattern (37 bp):
AAGACTTATGTAATGTTTTTAATTATGTAGTGATTCA
Found at i:87982346 original size:21 final size:22
Alignment explanation
Indices: 87982299--87982355 Score: 64
Period size: 21 Copynumber: 2.7 Consensus size: 22
87982289 GAGCCGAGAT
* *
87982299 ATTTTTATCATAAAAATTATAA
1 ATTTTTATAAAAAAAATTATAA
87982321 A-TTTTATAAAAAAAATT-TAA
1 ATTTTTATAAAAAAAATTATAA
* *
87982341 ATTTTTTTTAAAAAA
1 ATTTTTATAAAAAAA
87982356 TCTTTTATAT
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
20 4 0.13
21 25 0.83
22 1 0.03
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.46
Consensus pattern (22 bp):
ATTTTTATAAAAAAAATTATAA
Found at i:87982356 original size:20 final size:21
Alignment explanation
Indices: 87982301--87982345 Score: 65
Period size: 21 Copynumber: 2.2 Consensus size: 21
87982291 GCCGAGATAT
* *
87982301 TTTTATCATAAAAATTATAAA
1 TTTTATAAAAAAAATTATAAA
87982322 TTTTATAAAAAAAATT-TAAA
1 TTTTATAAAAAAAATTATAAA
87982342 TTTT
1 TTTT
87982346 TTTTAAAAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 8 0.36
21 14 0.64
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (21 bp):
TTTTATAAAAAAAATTATAAA
Found at i:87987827 original size:16 final size:16
Alignment explanation
Indices: 87987806--87987847 Score: 57
Period size: 16 Copynumber: 2.6 Consensus size: 16
87987796 CGCGAATTTA
* *
87987806 AATATTTAATTATTAT
1 AATATTAAATAATTAT
87987822 AATATTAAATAATTAT
1 AATATTAAATAATTAT
*
87987838 TATATTAAAT
1 AATATTAAAT
87987848 GTATGTATTG
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
16 23 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (16 bp):
AATATTAAATAATTAT
Found at i:87988964 original size:29 final size:29
Alignment explanation
Indices: 87988904--87988964 Score: 70
Period size: 29 Copynumber: 2.1 Consensus size: 29
87988894 TTTTTTTTCA
* * *
87988904 TAAAATATTTAATGTGGTATTTATATTTT
1 TAAAATATTTAATGTGATATTGATATTAT
*
87988933 TAAATTATTTAATGTGATACTTGA-ATTAT
1 TAAAATATTTAATGTGATA-TTGATATTAT
87988962 TAA
1 TAA
87988965 TATGTGTTTT
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
29 24 0.89
30 3 0.11
ACGTcount: A:0.38, C:0.02, G:0.10, T:0.51
Consensus pattern (29 bp):
TAAAATATTTAATGTGATATTGATATTAT
Found at i:87989394 original size:19 final size:17
Alignment explanation
Indices: 87989372--87989414 Score: 50
Period size: 19 Copynumber: 2.4 Consensus size: 17
87989362 TAATAATATG
87989372 TTTAGTTATTTGTTTTTAA
1 TTTAGTTATTTG-TTTT-A
* *
87989391 TTTAATTTTTTGTTTTA
1 TTTAGTTATTTGTTTTA
87989408 TTTAGTT
1 TTTAGTT
87989415 TTTCGCATAA
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
17 7 0.33
18 4 0.19
19 10 0.48
ACGTcount: A:0.19, C:0.00, G:0.09, T:0.72
Consensus pattern (17 bp):
TTTAGTTATTTGTTTTA
Found at i:87996846 original size:11 final size:11
Alignment explanation
Indices: 87996830--87996855 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
87996820 CGAAGCCCAC
87996830 ATCACAATAAT
1 ATCACAATAAT
87996841 ATCACAATAAT
1 ATCACAATAAT
87996852 ATCA
1 ATCA
87996856 TACATGTAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.54, C:0.19, G:0.00, T:0.27
Consensus pattern (11 bp):
ATCACAATAAT
Found at i:88000474 original size:29 final size:29
Alignment explanation
Indices: 88000379--88000480 Score: 118
Period size: 28 Copynumber: 3.6 Consensus size: 29
88000369 AAGTCTACAT
* *
88000379 ACATGCATATGGCCCACTAGGCCC-AATC
1 ACATTCATATGGCCCATTAGGCCCAAATC
** * *
88000407 TTATTCATATGACCCATTA-GCTCAAATC
1 ACATTCATATGGCCCATTAGGCCCAAATC
*
88000435 ACATTCGTATGGCCCATTAGGCCCAAATC
1 ACATTCATATGGCCCATTAGGCCCAAATC
*
88000464 ACGTTCATATGGCCCAT
1 ACATTCATATGGCCCAT
88000481 CCAGCCTAAA
Statistics
Matches: 59, Mismatches: 13, Indels: 3
0.79 0.17 0.04
Matches are distributed among these distances:
27 3 0.05
28 33 0.56
29 23 0.39
ACGTcount: A:0.28, C:0.30, G:0.15, T:0.26
Consensus pattern (29 bp):
ACATTCATATGGCCCATTAGGCCCAAATC
Found at i:88000491 original size:29 final size:29
Alignment explanation
Indices: 88000379--88000497 Score: 95
Period size: 28 Copynumber: 4.2 Consensus size: 29
88000369 AAGTCTACAT
*
88000379 ACATGCATATGGCCCA-CTAGGCCC-AATC
1 ACATTCATATGGCCCATC-AGGCCCAAATC
** * * *
88000407 TTATTCATATGACCCATTA-GCTCAAATC
1 ACATTCATATGGCCCATCAGGCCCAAATC
* *
88000435 ACATTCGTATGGCCCATTAGGCCCAAATC
1 ACATTCATATGGCCCATCAGGCCCAAATC
* *
88000464 ACGTTCATATGGCCCATCCA-GCCTAAATC
1 ACATTCATATGGCCCAT-CAGGCCCAAATC
88000493 A-ATTC
1 ACATTC
88000498 CAAACAATGT
Statistics
Matches: 71, Mismatches: 16, Indels: 8
0.75 0.17 0.08
Matches are distributed among these distances:
27 3 0.04
28 35 0.49
29 32 0.45
30 1 0.01
ACGTcount: A:0.29, C:0.31, G:0.13, T:0.26
Consensus pattern (29 bp):
ACATTCATATGGCCCATCAGGCCCAAATC
Found at i:88002044 original size:36 final size:36
Alignment explanation
Indices: 88001997--88002067 Score: 124
Period size: 36 Copynumber: 2.0 Consensus size: 36
88001987 AGAGCGCATT
* *
88001997 AGTTAGAATAGATTCGAAAGGCTACTGAACTGAATC
1 AGTTAGAATAGATCCAAAAGGCTACTGAACTGAATC
88002033 AGTTAGAATAGATCCAAAAGGCTACTGAACTGAAT
1 AGTTAGAATAGATCCAAAAGGCTACTGAACTGAAT
88002068 AAAGTTTACT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
36 33 1.00
ACGTcount: A:0.41, C:0.14, G:0.21, T:0.24
Consensus pattern (36 bp):
AGTTAGAATAGATCCAAAAGGCTACTGAACTGAATC
Found at i:88005228 original size:38 final size:38
Alignment explanation
Indices: 88005177--88005253 Score: 154
Period size: 38 Copynumber: 2.0 Consensus size: 38
88005167 CATGGTAGAA
88005177 TAGGTCATAGGCATGATTAATTGGTTCGACTAATGTTT
1 TAGGTCATAGGCATGATTAATTGGTTCGACTAATGTTT
88005215 TAGGTCATAGGCATGATTAATTGGTTCGACTAATGTTT
1 TAGGTCATAGGCATGATTAATTGGTTCGACTAATGTTT
88005253 T
1 T
88005254 GCATAGGTGA
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 39 1.00
ACGTcount: A:0.26, C:0.10, G:0.23, T:0.40
Consensus pattern (38 bp):
TAGGTCATAGGCATGATTAATTGGTTCGACTAATGTTT
Found at i:88017451 original size:20 final size:20
Alignment explanation
Indices: 88017426--88017463 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
88017416 GTCACATATA
*
88017426 TCATGAACTCATATCACAAC
1 TCATGAACTCAGATCACAAC
*
88017446 TCATGAGCTCAGATCACA
1 TCATGAACTCAGATCACA
88017464 TAGTTCCTAG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.37, C:0.29, G:0.11, T:0.24
Consensus pattern (20 bp):
TCATGAACTCAGATCACAAC
Found at i:88021839 original size:41 final size:41
Alignment explanation
Indices: 88021794--88021903 Score: 114
Period size: 41 Copynumber: 2.7 Consensus size: 41
88021784 GATGAAGGCT
* * *
88021794 TGATTCAATACACTGACGCAAAGCTTGCCAGGCTTAACGCC
1 TGATTCAATACACTGACACAAAGCCTGCCAGGCTCAACGCC
* ** *
88021835 TGATTCAATACATTGGTACAAAGCCTGCCAGGCTCAAGGCC
1 TGATTCAATACACTGACACAAAGCCTGCCAGGCTCAACGCC
* * *
88021876 TGACAT-AATATACCGACACAAAGCCTGC
1 TGA-TTCAATACACTGACACAAAGCCTGC
88021904 TGGGTTCAAG
Statistics
Matches: 55, Mismatches: 13, Indels: 2
0.79 0.19 0.03
Matches are distributed among these distances:
41 54 0.98
42 1 0.02
ACGTcount: A:0.32, C:0.28, G:0.19, T:0.21
Consensus pattern (41 bp):
TGATTCAATACACTGACACAAAGCCTGCCAGGCTCAACGCC
Found at i:88023231 original size:46 final size:43
Alignment explanation
Indices: 88023164--88023292 Score: 159
Period size: 43 Copynumber: 2.9 Consensus size: 43
88023154 AGTTATGTAA
* *
88023164 GAATCAAATTACTAAAAGATAATAATCCTTAATAATATCCTATTTG
1 GAATCAAATTGCTAAAAGATAAT-ATCC-T-ATAATATCCTATTAG
* *
88023210 GAATCAAATTGCTAAGAGATAATATCCTCTAATATCCTATTAG
1 GAATCAAATTGCTAAAAGATAATATCCTATAATATCCTATTAG
* * *
88023253 GAATCAAATTGTTAAAAGCTAATATCCGATAATAATCCTA
1 GAATCAAATTGCTAAAAGATAATATCCTATAAT-ATCCTA
88023293 ACACCCCCTC
Statistics
Matches: 73, Mismatches: 9, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
43 41 0.56
44 7 0.10
45 4 0.05
46 21 0.29
ACGTcount: A:0.43, C:0.15, G:0.09, T:0.33
Consensus pattern (43 bp):
GAATCAAATTGCTAAAAGATAATATCCTATAATATCCTATTAG
Found at i:88027694 original size:46 final size:46
Alignment explanation
Indices: 88027622--88027749 Score: 149
Period size: 43 Copynumber: 2.8 Consensus size: 46
88027612 AGTTACGTAG
*
88027622 GAATCAAATTACTAAAAGATAATATCCCATAATAATATCAG-ACTAA
1 GAATCAAATTGCTAAAAGATAATATCCCATAATAATATC-GTACTAA
* * * **
88027668 GAATAAAATTGCTAAGACATAATAT-CC-T-ATAATATCGTGTTAA
1 GAATCAAATTGCTAAAAGATAATATCCCATAATAATATCGTACTAA
88027711 -AACTCAAATTGCTAAAAGATAATATCCCATAATAATATC
1 GAA-TCAAATTGCTAAAAGATAATATCCCATAATAATATC
88027750 CAAACACATA
Statistics
Matches: 68, Mismatches: 9, Indels: 10
0.78 0.10 0.11
Matches are distributed among these distances:
42 3 0.04
43 30 0.44
44 3 0.04
45 3 0.04
46 29 0.43
ACGTcount: A:0.48, C:0.15, G:0.08, T:0.29
Consensus pattern (46 bp):
GAATCAAATTGCTAAAAGATAATATCCCATAATAATATCGTACTAA
Found at i:88028030 original size:20 final size:20
Alignment explanation
Indices: 88028005--88028076 Score: 67
Period size: 20 Copynumber: 3.4 Consensus size: 20
88027995 GTGTAAGATT
88028005 ATTTAACCACTTTAAAATTA
1 ATTTAACCACTTTAAAATTA
*
88028025 ATTTAACC-TTTGTGGAATAAGATT-
1 ATTTAACCACTT-T---A-AA-ATTA
88028049 ATTTAACCACTTTAAAATTA
1 ATTTAACCACTTTAAAATTA
88028069 ATTTAACC
1 ATTTAACC
88028077 TTTGTGGAAT
Statistics
Matches: 42, Mismatches: 2, Indels: 16
0.70 0.03 0.27
Matches are distributed among these distances:
19 5 0.12
20 19 0.45
21 1 0.02
23 1 0.02
24 11 0.26
25 5 0.12
ACGTcount: A:0.40, C:0.14, G:0.06, T:0.40
Consensus pattern (20 bp):
ATTTAACCACTTTAAAATTA
Found at i:88028048 original size:44 final size:44
Alignment explanation
Indices: 88027998--88028087 Score: 180
Period size: 44 Copynumber: 2.0 Consensus size: 44
88027988 GAACGAGGTG
88027998 TAAGATTATTTAACCACTTTAAAATTAATTTAACCTTTGTGGAA
1 TAAGATTATTTAACCACTTTAAAATTAATTTAACCTTTGTGGAA
88028042 TAAGATTATTTAACCACTTTAAAATTAATTTAACCTTTGTGGAA
1 TAAGATTATTTAACCACTTTAAAATTAATTTAACCTTTGTGGAA
88028086 TA
1 TA
88028088 TTACTCAAAA
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
44 46 1.00
ACGTcount: A:0.39, C:0.11, G:0.09, T:0.41
Consensus pattern (44 bp):
TAAGATTATTTAACCACTTTAAAATTAATTTAACCTTTGTGGAA
Found at i:88028452 original size:17 final size:18
Alignment explanation
Indices: 88028422--88028455 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
88028412 GTTGAACTAA
88028422 TTTTTAAAATATTTTTAT
1 TTTTTAAAATATTTTTAT
*
88028440 TTTTTATAA-ATTTTTA
1 TTTTTAAAATATTTTTA
88028456 GTGATTTATT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 7 0.47
18 8 0.53
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (18 bp):
TTTTTAAAATATTTTTAT
Found at i:88029212 original size:26 final size:26
Alignment explanation
Indices: 88029181--88029243 Score: 117
Period size: 26 Copynumber: 2.4 Consensus size: 26
88029171 TATAAACTTA
88029181 GTTTATTTTATTATTAAAAAAAGTTG
1 GTTTATTTTATTATTAAAAAAAGTTG
88029207 GTTTATTTTATTATTAAAAAAAGTTG
1 GTTTATTTTATTATTAAAAAAAGTTG
*
88029233 GTTTAATTTAT
1 GTTTATTTTAT
88029244 AGTATGGACT
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 36 1.00
ACGTcount: A:0.37, C:0.00, G:0.11, T:0.52
Consensus pattern (26 bp):
GTTTATTTTATTATTAAAAAAAGTTG
Found at i:88034680 original size:40 final size:40
Alignment explanation
Indices: 88034597--88034749 Score: 143
Period size: 40 Copynumber: 3.8 Consensus size: 40
88034587 TCGAATGATG
* *
88034597 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTGACCAAA
* **
88034637 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTCCCAAA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTGACCAAA
* **
88034677 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGCT-ATTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAG-TGACCA-AA
* * *
88034718 -CCGGGCTATGTCCCGAAGGCTTTTGAGCGAGT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGT
88034750 CGCTATACCC
Statistics
Matches: 94, Mismatches: 14, Indels: 11
0.79 0.12 0.09
Matches are distributed among these distances:
39 2 0.02
40 81 0.86
41 11 0.12
ACGTcount: A:0.23, C:0.24, G:0.28, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACCAAA
Found at i:88040433 original size:20 final size:20
Alignment explanation
Indices: 88040408--88040448 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
88040398 TCCTTCATAA
88040408 TCCAGCAACGGTCTTTTCCT
1 TCCAGCAACGGTCTTTTCCT
88040428 TCCAGCAACGGTCTTTTCCT
1 TCCAGCAACGGTCTTTTCCT
88040448 T
1 T
88040449 TATCATATTC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.15, C:0.34, G:0.15, T:0.37
Consensus pattern (20 bp):
TCCAGCAACGGTCTTTTCCT
Found at i:88042739 original size:14 final size:15
Alignment explanation
Indices: 88042685--88042741 Score: 55
Period size: 14 Copynumber: 3.7 Consensus size: 15
88042675 CACTTTTTCA
88042685 AAAAGAAAAG-AGAGG
1 AAAA-AAAAGAAGAGG
*
88042700 AAACAAAAAGGAAAAGG
1 AAA-AAAAA-GAAGAGG
*
88042717 AAAAGAAAGAAGA-G
1 AAAAAAAAGAAGAGG
88042731 AAAAAAAAGAA
1 AAAAAAAAGAA
88042742 AAAAGAAATT
Statistics
Matches: 35, Mismatches: 4, Indels: 7
0.76 0.09 0.15
Matches are distributed among these distances:
14 11 0.31
15 11 0.31
16 6 0.17
17 7 0.20
ACGTcount: A:0.74, C:0.02, G:0.25, T:0.00
Consensus pattern (15 bp):
AAAAAAAAGAAGAGG
Found at i:88042746 original size:31 final size:32
Alignment explanation
Indices: 88042685--88042749 Score: 82
Period size: 30 Copynumber: 2.1 Consensus size: 32
88042675 CACTTTTTCA
*
88042685 AAAAGAAAAGAGAGGAAACAAAAAGGAAAAGG
1 AAAAGAAAAGAGAGGAAACAAAAAGAAAAAGG
*
88042717 AAAAG-AAAGA-AGAGAAA-AAAAAGAAAAAAG
1 AAAAGAAAAGAGAG-GAAACAAAAAGAAAAAGG
88042747 AAA
1 AAA
88042750 TTGTCCAGCC
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
30 16 0.53
31 9 0.30
32 5 0.17
ACGTcount: A:0.75, C:0.02, G:0.23, T:0.00
Consensus pattern (32 bp):
AAAAGAAAAGAGAGGAAACAAAAAGAAAAAGG
Found at i:88042799 original size:12 final size:12
Alignment explanation
Indices: 88042775--88042808 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
88042765 AAAAAAAAAG
*
88042775 AAAATCAAAATC
1 AAAATCAATATC
88042787 AAAATCAATATC
1 AAAATCAATATC
*
88042799 AAAATAAATA
1 AAAATCAATA
88042809 ATTGTAAATA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.68, C:0.12, G:0.00, T:0.21
Consensus pattern (12 bp):
AAAATCAATATC
Found at i:88046632 original size:20 final size:21
Alignment explanation
Indices: 88046597--88046637 Score: 66
Period size: 20 Copynumber: 2.0 Consensus size: 21
88046587 GTTAGAAAGG
88046597 GGAAGATGAAAAAAAAAGTAA
1 GGAAGATGAAAAAAAAAGTAA
*
88046618 GGAAGA-GATAAAAAAAGTAA
1 GGAAGATGAAAAAAAAAGTAA
88046638 AGAAAAAACT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 13 0.68
21 6 0.32
ACGTcount: A:0.66, C:0.00, G:0.24, T:0.10
Consensus pattern (21 bp):
GGAAGATGAAAAAAAAAGTAA
Found at i:88046650 original size:21 final size:20
Alignment explanation
Indices: 88046607--88046655 Score: 62
Period size: 20 Copynumber: 2.4 Consensus size: 20
88046597 GGAAGATGAA
* * *
88046607 AAAAAAAGTAAGGAAGAGAT
1 AAAAAAAGTAAAGAAAAAAT
88046627 AAAAAAAGTAAAGAAAAAACT
1 AAAAAAAGTAAAGAAAAAA-T
88046648 AAAAAAAG
1 AAAAAAAG
88046656 GGAACGAGAG
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
20 16 0.64
21 9 0.36
ACGTcount: A:0.73, C:0.02, G:0.16, T:0.08
Consensus pattern (20 bp):
AAAAAAAGTAAAGAAAAAAT
Found at i:88048467 original size:46 final size:46
Alignment explanation
Indices: 88048372--88048515 Score: 197
Period size: 46 Copynumber: 3.2 Consensus size: 46
88048362 GTCTCCCAGT
* * * *
88048372 CATGGTCTTATTTATTTT-CGGCATGATGACATA---TCTTTCAAC
1 CATGGTCTTATTCATTTTCCGTCATGTTGCCATAGTGTCTTTCAAC
*
88048414 TATGGTCTTATTCATTTTCCGTCATGTTGCCATAGTGTCTTTCAAC
1 CATGGTCTTATTCATTTTCCGTCATGTTGCCATAGTGTCTTTCAAC
*
88048460 CATGGTCTTATTCATTTCCCGTCATGTTGCCATAGTGTCTTTCAAC
1 CATGGTCTTATTCATTTTCCGTCATGTTGCCATAGTGTCTTTCAAC
*
88048506 TATGGTCTTA
1 CATGGTCTTA
88048516 CACATCTGAA
Statistics
Matches: 90, Mismatches: 8, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
42 16 0.18
43 12 0.13
46 62 0.69
ACGTcount: A:0.19, C:0.22, G:0.15, T:0.44
Consensus pattern (46 bp):
CATGGTCTTATTCATTTTCCGTCATGTTGCCATAGTGTCTTTCAAC
Found at i:88048606 original size:90 final size:90
Alignment explanation
Indices: 88048497--88048688 Score: 215
Period size: 90 Copynumber: 2.1 Consensus size: 90
88048487 TGCCATAGTG
* * * * * *
88048497 TCTTTCAACTATGGTCTTACACATCTGAACCGTGATGCGATAACATCTTTTAGCTATGGTCTTAC
1 TCTTTCAACTATAGTCTTACACATCTAAACCGTAAGGCCATAACATCTGTTAGCTATGGTCTTAC
*
88048562 TCATTTGAATCGTGAT-TCCATAGCA
66 TCATCTGAATCGTGATGT-CATAGCA
* * * * ***
88048587 TCTTTCAGCTATAGTCTTACTCGTCTAAATCGTAAGGCCATAGTGTCTGTTAGCTATGGTCTTAC
1 TCTTTCAACTATAGTCTTACACATCTAAACCGTAAGGCCATAACATCTGTTAGCTATGGTCTTAC
* *
88048652 TCGTCTGAATCGTGATGTCATAGCG
66 TCATCTGAATCGTGATGTCATAGCA
*
88048677 TGTTTCAACTAT
1 TCTTTCAACTAT
88048689 GGCCTTACTC
Statistics
Matches: 83, Mismatches: 18, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
90 82 0.99
91 1 0.01
ACGTcount: A:0.23, C:0.21, G:0.18, T:0.38
Consensus pattern (90 bp):
TCTTTCAACTATAGTCTTACACATCTAAACCGTAAGGCCATAACATCTGTTAGCTATGGTCTTAC
TCATCTGAATCGTGATGTCATAGCA
Found at i:88048697 original size:45 final size:45
Alignment explanation
Indices: 88048490--88048699 Score: 192
Period size: 45 Copynumber: 4.7 Consensus size: 45
88048480 GTCATGTTGC
* * * *
88048490 CATAGTGTCTTTCAACTATGGTCTTACACATCTGAACCGTGATG-
1 CATAGCGTCTTTCAGCTATGGTCTTACTCATCTGAATCGTGATGT
* * * *
88048534 CGATAACATCTTTTAGCTATGGTCTTACTCATTTGAATCGTGAT-T
1 C-ATAGCGTCTTTCAGCTATGGTCTTACTCATCTGAATCGTGATGT
* * * * * * *
88048579 CCATAGCATCTTTCAGCTATAGTCTTACTCGTCTAAATCGTAAGGC
1 -CATAGCGTCTTTCAGCTATGGTCTTACTCATCTGAATCGTGATGT
* *
88048625 CATAGTGTCTGTT-AGCTATGGTCTTACTCGTCTGAATCGTGATGT
1 CATAGCGTCT-TTCAGCTATGGTCTTACTCATCTGAATCGTGATGT
* * *
88048670 CATAGCGTGTTTCAACTATGGCCTTACTCA
1 CATAGCGTCTTTCAGCTATGGTCTTACTCA
88048700 ATTCCGATAT
Statistics
Matches: 131, Mismatches: 29, Indels: 11
0.77 0.17 0.06
Matches are distributed among these distances:
44 3 0.02
45 125 0.95
46 3 0.02
ACGTcount: A:0.23, C:0.22, G:0.18, T:0.37
Consensus pattern (45 bp):
CATAGCGTCTTTCAGCTATGGTCTTACTCATCTGAATCGTGATGT
Found at i:88058648 original size:77 final size:78
Alignment explanation
Indices: 88058563--88058742 Score: 220
Period size: 77 Copynumber: 2.3 Consensus size: 78
88058553 TAGTGATGTT
* * * *
88058563 TATCCGGACTTAGGGTCCGCAGGTTATGTGCTGGAATTATATCCGGAC-TAGGGTCCGCAGGCTA
1 TATCCGGACTTAAGGTCCGCAGGCTATGTGCTGGAATTATAACCGGACTTAAGGTCCGCAGGCTA
* *
88058627 TGTGCTGGAATTA
66 CGTGCTGGAAATA
* * * *
88058640 TATCCGGACTTAAGGTTCGCAGGCTATGTGCTGGAATTATAACTGGACTTAAGGTCCGCATGTTA
1 TATCCGGACTTAAGGTCCGCAGGCTATGTGCTGGAATTATAACCGGACTTAAGGTCCGCAGGCTA
88058705 CGTGCTGGAAATA
66 CGTGCTGGAAATA
* * *
88058718 TGTCCGGGC-TAAAGTCCCGCAGGCT
1 TATCCGGACTTAAGGT-CCGCAGGCT
88058743 TCGAGATGGT
Statistics
Matches: 87, Mismatches: 14, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
77 48 0.55
78 39 0.45
ACGTcount: A:0.22, C:0.21, G:0.29, T:0.28
Consensus pattern (78 bp):
TATCCGGACTTAAGGTCCGCAGGCTATGTGCTGGAATTATAACCGGACTTAAGGTCCGCAGGCTA
CGTGCTGGAAATA
Found at i:88058672 original size:39 final size:39
Alignment explanation
Indices: 88058563--88058742 Score: 220
Period size: 39 Copynumber: 4.6 Consensus size: 39
88058553 TAGTGATGTT
* *
88058563 TATCCGGACTTAGGGTCCGCAGGTTATGTGCTGGAATTA
1 TATCCGGACTTAAGGTCCGCAGGCTATGTGCTGGAATTA
*
88058602 TATCCGGAC-TAGGGTCCGCAGGCTATGTGCTGGAATTA
1 TATCCGGACTTAAGGTCCGCAGGCTATGTGCTGGAATTA
*
88058640 TATCCGGACTTAAGGTTCGCAGGCTATGTGCTGGAATTA
1 TATCCGGACTTAAGGTCCGCAGGCTATGTGCTGGAATTA
* * * * * *
88058679 TAACTGGACTTAAGGTCCGCATGTTACGTGCTGGAAATA
1 TATCCGGACTTAAGGTCCGCAGGCTATGTGCTGGAATTA
* * *
88058718 TGTCCGGGC-TAAAGTCCCGCAGGCT
1 TATCCGGACTTAAGGT-CCGCAGGCT
88058743 TCGAGATGGT
Statistics
Matches: 122, Mismatches: 17, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
38 42 0.34
39 80 0.66
ACGTcount: A:0.22, C:0.21, G:0.29, T:0.28
Consensus pattern (39 bp):
TATCCGGACTTAAGGTCCGCAGGCTATGTGCTGGAATTA
Found at i:88066709 original size:39 final size:39
Alignment explanation
Indices: 88066646--88066826 Score: 229
Period size: 39 Copynumber: 4.6 Consensus size: 39
88066636 TAGTGATGTT
*
88066646 TATCCGGACTTAGGGTCCGCAGGCTATGTGCTGGAATTA
1 TATCCGGACTTAAGGTCCGCAGGCTATGTGCTGGAATTA
* * *
88066685 TATTCGGACTTAGGGTCCGTAGGCTATGTGCTGGAATTA
1 TATCCGGACTTAAGGTCCGCAGGCTATGTGCTGGAATTA
* * *
88066724 TATCCGGACTTAAGATCTGCAGGCTATGTACTGGAATTA
1 TATCCGGACTTAAGGTCCGCAGGCTATGTGCTGGAATTA
* * *
88066763 TAGCCGGACTTAAGGTCCGCAGGCTACGTGCTGGAAATA
1 TATCCGGACTTAAGGTCCGCAGGCTATGTGCTGGAATTA
* * *
88066802 TGTCCGGGC-TAAAGTCCCGCAGGCT
1 TATCCGGACTTAAGGT-CCGCAGGCT
88066827 TCGAGCTAGT
Statistics
Matches: 123, Mismatches: 18, Indels: 2
0.86 0.13 0.01
Matches are distributed among these distances:
38 5 0.04
39 118 0.96
ACGTcount: A:0.23, C:0.21, G:0.29, T:0.27
Consensus pattern (39 bp):
TATCCGGACTTAAGGTCCGCAGGCTATGTGCTGGAATTA
Found at i:88082484 original size:9 final size:9
Alignment explanation
Indices: 88082470--88082506 Score: 56
Period size: 9 Copynumber: 4.1 Consensus size: 9
88082460 TATAGTTTGA
88082470 TATTCGAAT
1 TATTCGAAT
88082479 TATTCGAAT
1 TATTCGAAT
* *
88082488 CATTCGAGT
1 TATTCGAAT
88082497 TATTCGAAT
1 TATTCGAAT
88082506 T
1 T
88082507 TGAAAACTCA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
9 24 1.00
ACGTcount: A:0.30, C:0.14, G:0.14, T:0.43
Consensus pattern (9 bp):
TATTCGAAT
Found at i:88096996 original size:28 final size:28
Alignment explanation
Indices: 88096929--88097000 Score: 92
Period size: 29 Copynumber: 2.5 Consensus size: 28
88096919 ATAGTGAATC
* * *
88096929 CGCACACTTAGTGCTATATATTTTCAGCT
1 CGCACACTTAGTGCTATAGA-TATCAACT
88096958 CGCACACTTAGTGCTATAGA-ATCAAACT
1 CGCACACTTAGTGCTATAGATATC-AACT
88096986 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
88097001 GTACAATTTT
Statistics
Matches: 39, Mismatches: 3, Indels: 3
0.87 0.07 0.07
Matches are distributed among these distances:
27 2 0.05
28 18 0.46
29 19 0.49
ACGTcount: A:0.28, C:0.26, G:0.15, T:0.31
Consensus pattern (28 bp):
CGCACACTTAGTGCTATAGATATCAACT
Found at i:88104970 original size:29 final size:29
Alignment explanation
Indices: 88104938--88105037 Score: 109
Period size: 29 Copynumber: 3.5 Consensus size: 29
88104928 ATAGTGAATC
* *
88104938 CGCACACTTAGTGCTATATATTTTCAGCT
1 CGCACACTTAGTGCTATAAATTTTCAACT
88104967 CGCACACTTAGTGCTATAGAA---TCAAACT
1 CGCACACTTAGTGCTATA-AATTTTC-AACT
* *
88104995 CGCACACTTAGTGCTGTACAATTTT-AACC
1 CGCACACTTAGTGCTATA-AATTTTCAACT
88105024 CGCACACTTAGTGC
1 CGCACACTTAGTGC
88105038 CAATCTTGTC
Statistics
Matches: 61, Mismatches: 5, Indels: 10
0.80 0.07 0.13
Matches are distributed among these distances:
27 2 0.03
28 22 0.36
29 35 0.57
30 1 0.02
31 1 0.02
ACGTcount: A:0.28, C:0.27, G:0.15, T:0.30
Consensus pattern (29 bp):
CGCACACTTAGTGCTATAAATTTTCAACT
Done.