Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A10
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: 110302803
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1825971 characters in sequence are not A, C, G, or T
File 270 of 343
Found at i:89526743 original size:244 final size:244
Alignment explanation
Indices: 89526314--89526800 Score: 974
Period size: 244 Copynumber: 2.0 Consensus size: 244
89526304 AGATTCGCTA
89526314 TTATCGATGAAGGAAAGATGAACAAAAAGGGAATAATTTATAAAAGCCAAAATTAAAACAACAAA
1 TTATCGATGAAGGAAAGATGAACAAAAAGGGAATAATTTATAAAAGCCAAAATTAAAACAACAAA
89526379 TACGGTACTTAATGGTTATTAAAAATTCTTTCTAATTTCAAATTCCCTTACTTTGCTCCATGAAT
66 TACGGTACTTAATGGTTATTAAAAATTCTTTCTAATTTCAAATTCCCTTACTTTGCTCCATGAAT
89526444 TAGGCATTTGAAATTCATCCAACCACCTAACAGCCTTATCCACCGTTTGACCGCTTCAGCCTGCT
131 TAGGCATTTGAAATTCATCCAACCACCTAACAGCCTTATCCACCGTTTGACCGCTTCAGCCTGCT
89526509 GCTTGGGAAGAGTTTTGGTCCAACTCTACTACTCTCCTACACGCATGCC
196 GCTTGGGAAGAGTTTTGGTCCAACTCTACTACTCTCCTACACGCATGCC
89526558 TTATCGATGAAGGAAAGATGAACAAAAAGGGAATAATTTATAAAAGCCAAAATTAAAACAACAAA
1 TTATCGATGAAGGAAAGATGAACAAAAAGGGAATAATTTATAAAAGCCAAAATTAAAACAACAAA
89526623 TACGGTACTTAATGGTTATTAAAAATTCTTTCTAATTTCAAATTCCCTTACTTTGCTCCATGAAT
66 TACGGTACTTAATGGTTATTAAAAATTCTTTCTAATTTCAAATTCCCTTACTTTGCTCCATGAAT
89526688 TAGGCATTTGAAATTCATCCAACCACCTAACAGCCTTATCCACCGTTTGACCGCTTCAGCCTGCT
131 TAGGCATTTGAAATTCATCCAACCACCTAACAGCCTTATCCACCGTTTGACCGCTTCAGCCTGCT
89526753 GCTTGGGAAGAGTTTTGGTCCAACTCTACTACTCTCCTACACGCATGC
196 GCTTGGGAAGAGTTTTGGTCCAACTCTACTACTCTCCTACACGCATGC
89526801 AGCAAAAAGG
Statistics
Matches: 243, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
244 243 1.00
ACGTcount: A:0.34, C:0.22, G:0.14, T:0.30
Consensus pattern (244 bp):
TTATCGATGAAGGAAAGATGAACAAAAAGGGAATAATTTATAAAAGCCAAAATTAAAACAACAAA
TACGGTACTTAATGGTTATTAAAAATTCTTTCTAATTTCAAATTCCCTTACTTTGCTCCATGAAT
TAGGCATTTGAAATTCATCCAACCACCTAACAGCCTTATCCACCGTTTGACCGCTTCAGCCTGCT
GCTTGGGAAGAGTTTTGGTCCAACTCTACTACTCTCCTACACGCATGCC
Found at i:89539296 original size:28 final size:28
Alignment explanation
Indices: 89539259--89539319 Score: 106
Period size: 28 Copynumber: 2.2 Consensus size: 28
89539249 TAAAGCGTTC
89539259 TTATA-TTTTTTATTAAAAATTAAGTTG
1 TTATATTTTTTTATTAAAAATTAAGTTG
89539286 TTATATTTTTTTATTAAAAATTAAGTTG
1 TTATATTTTTTTATTAAAAATTAAGTTG
*
89539314 GTATAT
1 TTATAT
89539320 GTAAATATTA
Statistics
Matches: 32, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
27 5 0.16
28 27 0.84
ACGTcount: A:0.36, C:0.00, G:0.08, T:0.56
Consensus pattern (28 bp):
TTATATTTTTTTATTAAAAATTAAGTTG
Found at i:89539328 original size:28 final size:28
Alignment explanation
Indices: 89539269--89539329 Score: 77
Period size: 28 Copynumber: 2.2 Consensus size: 28
89539259 TTATATTTTT
* * ***
89539269 TATTAAAAATTAAGTTGTTATATTTTTT
1 TATTAAAAATTAAGTTGGTATATGTAAA
89539297 TATTAAAAATTAAGTTGGTATATGTAAA
1 TATTAAAAATTAAGTTGGTATATGTAAA
89539325 TATTA
1 TATTA
89539330 TTTAAATACT
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.41, C:0.00, G:0.10, T:0.49
Consensus pattern (28 bp):
TATTAAAAATTAAGTTGGTATATGTAAA
Found at i:89541421 original size:6 final size:6
Alignment explanation
Indices: 89541410--89541441 Score: 64
Period size: 6 Copynumber: 5.3 Consensus size: 6
89541400 TTGAGTCAAA
89541410 AATTTG AATTTG AATTTG AATTTG AATTTG AA
1 AATTTG AATTTG AATTTG AATTTG AATTTG AA
89541442 AATTTAAAAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 26 1.00
ACGTcount: A:0.38, C:0.00, G:0.16, T:0.47
Consensus pattern (6 bp):
AATTTG
Found at i:89546117 original size:17 final size:16
Alignment explanation
Indices: 89546091--89546122 Score: 55
Period size: 17 Copynumber: 1.9 Consensus size: 16
89546081 TGTAAAAGTG
89546091 AAGTTCTATTAGCTAA
1 AAGTTCTATTAGCTAA
89546107 AAGTATCTATTAGCTA
1 AAGT-TCTATTAGCTA
89546123 TAGAACCTTA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 4 0.27
17 11 0.73
ACGTcount: A:0.38, C:0.12, G:0.12, T:0.38
Consensus pattern (16 bp):
AAGTTCTATTAGCTAA
Found at i:89546540 original size:21 final size:20
Alignment explanation
Indices: 89546503--89546542 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
89546493 TATGTATGAT
89546503 TTTTGATGATTGATGATAGA
1 TTTTGATGATTGATGATAGA
* *
89546523 TTTTGAATGGTTGTTGATAG
1 TTTTG-ATGATTGATGATAG
89546543 TTAAACAAGT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 5 0.29
21 12 0.71
ACGTcount: A:0.25, C:0.00, G:0.28, T:0.47
Consensus pattern (20 bp):
TTTTGATGATTGATGATAGA
Found at i:89547187 original size:29 final size:28
Alignment explanation
Indices: 89547154--89547209 Score: 85
Period size: 29 Copynumber: 2.0 Consensus size: 28
89547144 TGAGAGGTAA
*
89547154 ACTGATTTGGATTTGGGCCATGCATATCG
1 ACTGATTTGGATTCGGGCCATG-ATATCG
*
89547183 ACTGATTTGGCTTCGGGCCATGATATC
1 ACTGATTTGGATTCGGGCCATGATATC
89547210 AATATTTCAG
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
28 5 0.20
29 20 0.80
ACGTcount: A:0.20, C:0.20, G:0.27, T:0.34
Consensus pattern (28 bp):
ACTGATTTGGATTCGGGCCATGATATCG
Found at i:89553258 original size:13 final size:13
Alignment explanation
Indices: 89553242--89553266 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
89553232 GGCCAACAGA
89553242 CACGGCCGTGTGC
1 CACGGCCGTGTGC
89553255 CACGGCCGTGTG
1 CACGGCCGTGTG
89553267 ATACTTAGCT
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:0.08, C:0.36, G:0.40, T:0.16
Consensus pattern (13 bp):
CACGGCCGTGTGC
Found at i:89554347 original size:42 final size:43
Alignment explanation
Indices: 89554252--89554360 Score: 123
Period size: 42 Copynumber: 2.6 Consensus size: 43
89554242 AATGCCGACA
* * **
89554252 TCCCAGACGTGGTCTTACATGTAATTCAGTATCGATGCCTCTG
1 TCCCAGACATGGTCTTACATGTAATTCAGTATCGATACCAATG
* * *
89554295 TCTCGGACATGGTCTTACATG-AGTTCAG-ATACGATACCAATG
1 TCCCAGACATGGTCTTACATGTAATTCAGTAT-CGATACCAATG
*
89554337 TCCCAGACATGGTCTTACACGTAA
1 TCCCAGACATGGTCTTACATGTAA
89554361 ATCTCAAATC
Statistics
Matches: 53, Mismatches: 11, Indels: 4
0.78 0.16 0.06
Matches are distributed among these distances:
41 2 0.04
42 32 0.60
43 19 0.36
ACGTcount: A:0.26, C:0.25, G:0.20, T:0.29
Consensus pattern (43 bp):
TCCCAGACATGGTCTTACATGTAATTCAGTATCGATACCAATG
Found at i:89565243 original size:25 final size:25
Alignment explanation
Indices: 89565206--89565254 Score: 89
Period size: 25 Copynumber: 2.0 Consensus size: 25
89565196 AAAACCCTTT
*
89565206 CTTTTTTTTTTTTTCAATCTTAACC
1 CTTTTTTTATTTTTCAATCTTAACC
89565231 CTTTTTTTATTTTTCAATCTTAAC
1 CTTTTTTTATTTTTCAATCTTAAC
89565255 TATGTTTTGG
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.18, C:0.18, G:0.00, T:0.63
Consensus pattern (25 bp):
CTTTTTTTATTTTTCAATCTTAACC
Found at i:89565262 original size:25 final size:25
Alignment explanation
Indices: 89565209--89565262 Score: 72
Period size: 25 Copynumber: 2.2 Consensus size: 25
89565199 ACCCTTTCTT
* * *
89565209 TTTTTTTTTTTCAATCTTAACCCTT
1 TTTTTATTTTTCAATCTTAACCATG
*
89565234 TTTTTATTTTTCAATCTTAACTATG
1 TTTTTATTTTTCAATCTTAACCATG
89565259 TTTT
1 TTTT
89565263 GGAGTAAAAG
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.19, C:0.15, G:0.02, T:0.65
Consensus pattern (25 bp):
TTTTTATTTTTCAATCTTAACCATG
Found at i:89566511 original size:17 final size:17
Alignment explanation
Indices: 89566470--89566512 Score: 52
Period size: 17 Copynumber: 2.5 Consensus size: 17
89566460 TCAAAATTTT
*
89566470 TTACTTTC-TTTGAAAT
1 TTACTTTCATTTGAAAA
*
89566486 TTAATTTTCATTTGAAAA
1 TT-ACTTTCATTTGAAAA
89566504 TTACTTTCA
1 TTACTTTCA
89566513 CATAAATATT
Statistics
Matches: 22, Mismatches: 3, Indels: 3
0.79 0.11 0.11
Matches are distributed among these distances:
16 2 0.09
17 11 0.50
18 9 0.41
ACGTcount: A:0.30, C:0.12, G:0.05, T:0.53
Consensus pattern (17 bp):
TTACTTTCATTTGAAAA
Found at i:89567730 original size:20 final size:21
Alignment explanation
Indices: 89567707--89567780 Score: 71
Period size: 20 Copynumber: 3.5 Consensus size: 21
89567697 AATCAAAACG
*
89567707 TTTATTAAAAATT-ATAAAAT
1 TTTATAAAAAATTCATAAAAT
89567727 TTTATAAAAAATTCATAAAAT
1 TTTATAAAAAATTCATAAAAT
* *
89567748 AAAATTATATAAAATT-ATAAAAT
1 ---TTTATAAAAAATTCATAAAAT
*
89567771 TATATAAAAA
1 TTTATAAAAA
89567781 TGTTAAATTT
Statistics
Matches: 44, Mismatches: 6, Indels: 8
0.76 0.10 0.14
Matches are distributed among these distances:
20 19 0.43
21 7 0.16
23 7 0.16
24 11 0.25
ACGTcount: A:0.61, C:0.01, G:0.00, T:0.38
Consensus pattern (21 bp):
TTTATAAAAAATTCATAAAAT
Found at i:89567789 original size:18 final size:18
Alignment explanation
Indices: 89567746--89567781 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
89567736 AATTCATAAA
*
89567746 ATAAAATTATATAAAATT
1 ATAAAATTATATAAAAAT
89567764 ATAAAATTATATAAAAAT
1 ATAAAATTATATAAAAAT
89567782 GTTAAATTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (18 bp):
ATAAAATTATATAAAAAT
Found at i:89573038 original size:57 final size:58
Alignment explanation
Indices: 89572950--89573068 Score: 168
Period size: 57 Copynumber: 2.1 Consensus size: 58
89572940 ATAGAATGAT
** * *
89572950 AAAATAGAGAAATAAGAAACATTTGGAAATGATTATGATTTTTTCCAAAATTAAAATG
1 AAAATAGAGAAATAAGAAACATTTGGAAATGAGCATGATTTTCTCCAAAATAAAAATG
* * *
89573008 AAAATGGAGAAAT-AGAATCATTTGGAAATGAGCATGGTTTTCTCCAAAATAAAAATG
1 AAAATAGAGAAATAAGAAACATTTGGAAATGAGCATGATTTTCTCCAAAATAAAAATG
89573065 AAAA
1 AAAA
89573069 ATGAATTTAT
Statistics
Matches: 54, Mismatches: 7, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
57 42 0.78
58 12 0.22
ACGTcount: A:0.50, C:0.07, G:0.16, T:0.28
Consensus pattern (58 bp):
AAAATAGAGAAATAAGAAACATTTGGAAATGAGCATGATTTTCTCCAAAATAAAAATG
Found at i:89579527 original size:46 final size:46
Alignment explanation
Indices: 89579387--89579599 Score: 157
Period size: 46 Copynumber: 4.6 Consensus size: 46
89579377 TGTGCTAGTA
* * * * ** *
89579387 TAAGACATGCCTGGGACATGCATCGGCCACATTATGCGAGCCCGTG
1 TAAGACATGTCTGGGACATGCATCGGCCTCGTGATGTAAGCCAGTG
* * * * * * *
89579433 TAAAACCATGTCTAGGACATGGCATCGGCATTGAGA-CTAGAGCTAGTG
1 TAAGA-CATGTCTGGGACAT-GCATCGGCCTCGTGATGTA-AGCCAGTG
*
89579481 TAAGACATGTGTGGGACATGCATCGGCCTCGTGATGTAAGCCAGTG
1 TAAGACATGTCTGGGACATGCATCGGCCTCGTGATGTAAGCCAGTG
* * *
89579527 TAAGACATGTTTGGGACATGCATCGG-CTAC-TAGATGT--GTCAATG
1 TAAGACATGTCTGGGACATGCATCGGCCT-CGT-GATGTAAGCCAGTG
*
89579571 TAAGACCGTGTCTGGGACATGGCATCGGC
1 TAAGA-CATGTCTGGGACAT-GCATCGGC
89579600 ACATATGGAG
Statistics
Matches: 131, Mismatches: 27, Indels: 17
0.75 0.15 0.10
Matches are distributed among these distances:
44 10 0.08
45 15 0.11
46 61 0.47
47 26 0.20
48 19 0.15
ACGTcount: A:0.26, C:0.21, G:0.30, T:0.23
Consensus pattern (46 bp):
TAAGACATGTCTGGGACATGCATCGGCCTCGTGATGTAAGCCAGTG
Found at i:89579625 original size:48 final size:47
Alignment explanation
Indices: 89579523--89579746 Score: 190
Period size: 49 Copynumber: 4.7 Consensus size: 47
89579513 GATGTAAGCC
* *
89579523 AGTGTAAGA-CATGTTTGGGACAT-GCATCGGCTAC-TA--GATGTGTC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGC-ACATATGGA-GTGTT
* *
89579567 AATGTAAGACCGTGTCTGGGACATGGCATCGGCACATATGGAGGTGTT
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCACATATGGA-GTGTT
* * * *
89579615 AGTGTAAGACCATGTATGGGACATGGCATCGACACTGATATGGAGAGCT
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCAC--ATATGGAGTGTT
** * * * * *
89579664 AGTGTAAGACCATGTCTGGGACATGGTGTTGGCCTCAATTTCGA-TAGTC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGG-CAC-ATATGGAGT-GTT
*
89579713 AGTGTAAGACCATGTCTGGGACATAGCATCGGCA
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCA
89579747 TTATACCCTA
Statistics
Matches: 143, Mismatches: 28, Indels: 14
0.77 0.15 0.08
Matches are distributed among these distances:
44 8 0.06
45 14 0.10
46 10 0.07
48 38 0.27
49 64 0.45
50 9 0.06
ACGTcount: A:0.26, C:0.17, G:0.30, T:0.26
Consensus pattern (47 bp):
AGTGTAAGACCATGTCTGGGACATGGCATCGGCACATATGGAGTGTT
Found at i:89598086 original size:40 final size:40
Alignment explanation
Indices: 89597989--89598172 Score: 221
Period size: 40 Copynumber: 4.5 Consensus size: 40
89597979 TATTCGGATG
89597989 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTAGTTGCT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGC---TAGTTGCT
* *
89598032 ATACCCAGGCTAAGTCCCGAAGGCATTTGTGCTAG-TGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTTG-CT
* **
89598072 ATATCCGGGATAAGTCCCGAAGGCATTCATGCTAG-TGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTTG-CT
* *
89598112 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTTGCT
* *
89598152 ATATCC-GGCTAAATCTCGAAG
1 ATATCCGGGCTAAGTCCCGAAG
89598173 ATACTTGGGT
Statistics
Matches: 124, Mismatches: 15, Indels: 8
0.84 0.10 0.05
Matches are distributed among these distances:
39 14 0.11
40 78 0.63
41 2 0.02
43 30 0.24
ACGTcount: A:0.25, C:0.23, G:0.27, T:0.26
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTTGCT
Found at i:89606089 original size:40 final size:40
Alignment explanation
Indices: 89606034--89606214 Score: 267
Period size: 40 Copynumber: 4.5 Consensus size: 40
89606024 TATTCGGATG
* * *
89606034 ATATCCGGGCTAAGTCTCGAAGGCATTTGTGCAAGTTACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
89606074 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
**
89606114 ATATCCGGGCTAAGTCCCGAAGGCATTCATGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
* *
89606154 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-CT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAG-TGACT
*
89606194 ATATCC-GGCTAACTCCCGAAG
1 ATATCCGGGCTAAGTCCCGAAG
89606215 ATACTTGGGT
Statistics
Matches: 129, Mismatches: 11, Indels: 3
0.90 0.08 0.02
Matches are distributed among these distances:
39 13 0.10
40 114 0.88
41 2 0.02
ACGTcount: A:0.24, C:0.24, G:0.26, T:0.26
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
Found at i:89609728 original size:23 final size:22
Alignment explanation
Indices: 89609697--89609754 Score: 57
Period size: 23 Copynumber: 2.6 Consensus size: 22
89609687 TACTTTAGCT
89609697 ATTTA-TTTTTCTTGAAAT-TTA
1 ATTTATTTTTTCTT-AAATATTA
* **
89609718 ATTTCATTTTTTATTATTTATTA
1 ATTT-ATTTTTTCTTAAATATTA
89609741 ATTTATTTTTTCTT
1 ATTTATTTTTTCTT
89609755 CCTCTTGGCA
Statistics
Matches: 30, Mismatches: 4, Indels: 5
0.77 0.10 0.13
Matches are distributed among these distances:
21 4 0.13
22 12 0.40
23 14 0.47
ACGTcount: A:0.24, C:0.05, G:0.02, T:0.69
Consensus pattern (22 bp):
ATTTATTTTTTCTTAAATATTA
Found at i:89620942 original size:13 final size:13
Alignment explanation
Indices: 89620926--89620950 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
89620916 GAAATAAGAA
89620926 TAATTAATAAATT
1 TAATTAATAAATT
89620939 TAATTAATAAAT
1 TAATTAATAAAT
89620951 AAACTTACAT
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:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (13 bp):
TAATTAATAAATT
Found at i:89621042 original size:21 final size:23
Alignment explanation
Indices: 89621002--89621044 Score: 63
Period size: 21 Copynumber: 2.0 Consensus size: 23
89620992 AGCATAAATA
*
89621002 AAAATATAATATATAAACATATT
1 AAAATATAACATATAAACATATT
89621025 AAAATAT-ACATA-AAACATAT
1 AAAATATAACATATAAACATAT
89621045 CAATATATGA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 8 0.42
22 4 0.21
23 7 0.37
ACGTcount: A:0.63, C:0.07, G:0.00, T:0.30
Consensus pattern (23 bp):
AAAATATAACATATAAACATATT
Found at i:89621278 original size:22 final size:23
Alignment explanation
Indices: 89621253--89621307 Score: 69
Period size: 23 Copynumber: 2.4 Consensus size: 23
89621243 GAAATGAAGG
89621253 TTTATATTTTCATTTT-T-ATTTT
1 TTTATATTTTC-TTTTATGATTTT
*
89621275 TTTATATTTGCTTTTATGATTTT
1 TTTATATTTTCTTTTATGATTTT
*
89621298 TTTTTATTTT
1 TTTATATTTT
89621308 TAAAATTTAA
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
21 4 0.14
22 11 0.39
23 13 0.46
ACGTcount: A:0.16, C:0.04, G:0.04, T:0.76
Consensus pattern (23 bp):
TTTATATTTTCTTTTATGATTTT
Found at i:89621857 original size:20 final size:20
Alignment explanation
Indices: 89621834--89621873 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
89621824 CTATTTAAAC
*
89621834 AATATTA-ATTGAATAGTTAT
1 AATATTAGA-TGAATAATTAT
89621854 AATATTAGATGAATAATTAT
1 AATATTAGATGAATAATTAT
89621874 GGGTCTTTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 17 0.94
21 1 0.06
ACGTcount: A:0.47, C:0.00, G:0.10, T:0.42
Consensus pattern (20 bp):
AATATTAGATGAATAATTAT
Found at i:89623861 original size:17 final size:17
Alignment explanation
Indices: 89623828--89623861 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
89623818 TCAAAATAGT
* *
89623828 ATTTTTTTGTTACTTTA
1 ATTTTTTTATTAATTTA
89623845 ATTTTTTTATTAATTTA
1 ATTTTTTTATTAATTTA
89623862 GTCATTCTGA
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:0.03, G:0.03, T:0.71
Consensus pattern (17 bp):
ATTTTTTTATTAATTTA
Found at i:89639898 original size:18 final size:18
Alignment explanation
Indices: 89639875--89639916 Score: 75
Period size: 18 Copynumber: 2.3 Consensus size: 18
89639865 CACTGTTTTA
*
89639875 TGTGTTTAATCACTGACT
1 TGTGTTTAATCACTAACT
89639893 TGTGTTTAATCACTAACT
1 TGTGTTTAATCACTAACT
89639911 TGTGTT
1 TGTGTT
89639917 GTTAATGGTG
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.21, C:0.14, G:0.17, T:0.48
Consensus pattern (18 bp):
TGTGTTTAATCACTAACT
Found at i:89652346 original size:19 final size:19
Alignment explanation
Indices: 89652309--89652346 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
89652299 GGTTTCCAGT
*
89652309 GTCCAATTTTCGATCTCAA
1 GTCCAATTTTCAATCTCAA
*
89652328 GTCCAATTTTCAATTTCAA
1 GTCCAATTTTCAATCTCAA
89652347 TTACCCATTG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.29, C:0.24, G:0.08, T:0.39
Consensus pattern (19 bp):
GTCCAATTTTCAATCTCAA
Found at i:89654331 original size:17 final size:18
Alignment explanation
Indices: 89654309--89654344 Score: 65
Period size: 17 Copynumber: 2.1 Consensus size: 18
89654299 TAGATGAGTT
89654309 AATTAGGAT-TAAATTGG
1 AATTAGGATATAAATTGG
89654326 AATTAGGATATAAATTGG
1 AATTAGGATATAAATTGG
89654344 A
1 A
89654345 TAGAAATTCA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
17 9 0.50
18 9 0.50
ACGTcount: A:0.44, C:0.00, G:0.22, T:0.33
Consensus pattern (18 bp):
AATTAGGATATAAATTGG
Found at i:89660817 original size:46 final size:47
Alignment explanation
Indices: 89660741--89660830 Score: 119
Period size: 46 Copynumber: 1.9 Consensus size: 47
89660731 TTGCACATAG
*
89660741 TCACATATCACACACCGAAGCCATAGCTCAGCCATGGTCTTACATGGA
1 TCACATAT-ACACACCGAAGCCATAGCTCAGACATGGTCTTACATGGA
* * * *
89660789 TCACATAT-CACACTGATGCCATATCTCAGATATGGTCTTACA
1 TCACATATACACACCGAAGCCATAGCTCAGACATGGTCTTACA
89660831 CAGAAGCACA
Statistics
Matches: 37, Mismatches: 5, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
46 29 0.78
48 8 0.22
ACGTcount: A:0.31, C:0.29, G:0.14, T:0.26
Consensus pattern (47 bp):
TCACATATACACACCGAAGCCATAGCTCAGACATGGTCTTACATGGA
Found at i:89660859 original size:47 final size:46
Alignment explanation
Indices: 89660742--89660869 Score: 130
Period size: 47 Copynumber: 2.7 Consensus size: 46
89660732 TGCACATAGT
* ** * * *
89660742 CACATATCACACACCGAAGCCATAGCTCAGCCATGGTCTTACATGGAT
1 CACATAT--CACACCGAAGCCATATCTCAGATATGGTCTTACAAGAAG
* *
89660790 CACATATCACACTGATGCCATATCTCAGATATGGTCTTACACAGAAG
1 CACATATCACACCGAAGCCATATCTCAGATATGGTCTTACA-AGAAG
* * *
89660837 CACATATTACACCGACGCCATATCCCAGATATG
1 CACATATCACACCGAAGCCATATCTCAGATATG
89660870 AGGGCAAATT
Statistics
Matches: 67, Mismatches: 12, Indels: 3
0.82 0.15 0.04
Matches are distributed among these distances:
46 29 0.43
47 31 0.46
48 7 0.10
ACGTcount: A:0.33, C:0.30, G:0.15, T:0.23
Consensus pattern (46 bp):
CACATATCACACCGAAGCCATATCTCAGATATGGTCTTACAAGAAG
Found at i:89662103 original size:13 final size:13
Alignment explanation
Indices: 89662081--89662166 Score: 50
Period size: 13 Copynumber: 6.2 Consensus size: 13
89662071 TTTAATAATA
*
89662081 TAATAAATTATTT
1 TAATATATTATTT
89662094 TAATATATTATTTAT
1 TAATATATTA-TT-T
*
89662109 TATTACTATTTATTT
1 TAATA-TA-TTATTT
*
89662124 TTATATTAATT-TTT
1 TAATA-T-ATTATTT
* *
89662138 TAAAATAATAATTT
1 TAATAT-ATTATTT
89662152 TAA-ATATTATTT
1 TAATATATTATTT
89662164 TAA
1 TAA
89662167 AAATACCAAC
Statistics
Matches: 58, Mismatches: 9, Indels: 13
0.73 0.11 0.16
Matches are distributed among these distances:
12 9 0.16
13 15 0.26
14 14 0.24
15 12 0.21
16 5 0.09
17 3 0.05
ACGTcount: A:0.41, C:0.01, G:0.00, T:0.58
Consensus pattern (13 bp):
TAATATATTATTT
Found at i:89662331 original size:22 final size:22
Alignment explanation
Indices: 89662304--89662379 Score: 77
Period size: 22 Copynumber: 3.5 Consensus size: 22
89662294 AATATTATTA
89662304 ATTTAATTAAATCAATATGAGT
1 ATTTAATTAAATCAATATGAGT
* * *
89662326 ATTTAAAT-AA--AATATTATT
1 ATTTAATTAAATCAATATGAGT
*
89662345 AATTTAATTAAATCAATCTGAGT
1 -ATTTAATTAAATCAATATGAGT
*
89662368 ATTTATTTAAAT
1 ATTTAATTAAAT
89662380 ATTTTTTGCT
Statistics
Matches: 42, Mismatches: 8, Indels: 8
0.72 0.14 0.14
Matches are distributed among these distances:
19 7 0.17
20 7 0.17
21 4 0.10
22 18 0.43
23 6 0.14
ACGTcount: A:0.46, C:0.04, G:0.05, T:0.45
Consensus pattern (22 bp):
ATTTAATTAAATCAATATGAGT
Found at i:89662349 original size:42 final size:42
Alignment explanation
Indices: 89662290--89662372 Score: 157
Period size: 42 Copynumber: 2.0 Consensus size: 42
89662280 ACTTTATAGT
89662290 ATAAAATATTATTAATTTAATTAAATCAATATGAGTATTTAA
1 ATAAAATATTATTAATTTAATTAAATCAATATGAGTATTTAA
*
89662332 ATAAAATATTATTAATTTAATTAAATCAATCTGAGTATTTA
1 ATAAAATATTATTAATTTAATTAAATCAATATGAGTATTTA
89662373 TTTAAATATT
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
42 40 1.00
ACGTcount: A:0.48, C:0.04, G:0.05, T:0.43
Consensus pattern (42 bp):
ATAAAATATTATTAATTTAATTAAATCAATATGAGTATTTAA
Found at i:89666136 original size:22 final size:22
Alignment explanation
Indices: 89666111--89666171 Score: 59
Period size: 22 Copynumber: 2.7 Consensus size: 22
89666101 GAATTAAATT
89666111 GTATATTTTTATAATAGTAAAA
1 GTATATTTTTATAATAGTAAAA
* * ** *
89666133 GTATAATTTTATTATTTTAATA
1 GTATATTTTTATAATAGTAAAA
89666155 GCCTATATTTTTATAAT
1 G--TATATTTTTATAAT
89666172 TTTTAAAAAA
Statistics
Matches: 30, Mismatches: 7, Indels: 2
0.77 0.18 0.05
Matches are distributed among these distances:
22 18 0.60
24 12 0.40
ACGTcount: A:0.38, C:0.03, G:0.07, T:0.52
Consensus pattern (22 bp):
GTATATTTTTATAATAGTAAAA
Found at i:89666775 original size:21 final size:21
Alignment explanation
Indices: 89666751--89666792 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
89666741 AAATAGAAAC
89666751 ACACAAATACAA-AAAAAAATT
1 ACAC-AATACAATAAAAAAATT
*
89666772 ACACAATTCAATAAAAAAATT
1 ACACAATACAATAAAAAAATT
89666793 CCAAAGATGA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 6 0.32
21 13 0.68
ACGTcount: A:0.67, C:0.14, G:0.00, T:0.19
Consensus pattern (21 bp):
ACACAATACAATAAAAAAATT
Found at i:89685602 original size:66 final size:66
Alignment explanation
Indices: 89685496--89685624 Score: 206
Period size: 66 Copynumber: 2.0 Consensus size: 66
89685486 TTGCACACGA
* *
89685496 TGCATTTGGGGATTTTCAGAATGCTTCAAAACCGAGCACAACT-GCATTTCCTTCTAGCAGTTTC
1 TGCATTTGAGGATTTTCAGAATGCTTCAAAACCAAGCACAA-TGGCATTTCCTTCTAGCAGTTTC
89685560 AG
65 AG
* *
89685562 TGCATTTGAGGATTTTCAGAATGCTTCAAAACCAAGCACAATGGCGTTTCCTTCTAGCGGTTT
1 TGCATTTGAGGATTTTCAGAATGCTTCAAAACCAAGCACAATGGCATTTCCTTCTAGCAGTTT
89685625 TGGTTCAACT
Statistics
Matches: 58, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
65 1 0.02
66 57 0.98
ACGTcount: A:0.26, C:0.22, G:0.20, T:0.33
Consensus pattern (66 bp):
TGCATTTGAGGATTTTCAGAATGCTTCAAAACCAAGCACAATGGCATTTCCTTCTAGCAGTTTCA
G
Found at i:89689039 original size:28 final size:28
Alignment explanation
Indices: 89689007--89689075 Score: 129
Period size: 28 Copynumber: 2.5 Consensus size: 28
89688997 ATTATCCGAT
89689007 TCAAAAATATTCTGCGTCTTTGAGAGCA
1 TCAAAAATATTCTGCGTCTTTGAGAGCA
*
89689035 TCAAAAATATTTTGCGTCTTTGAGAGCA
1 TCAAAAATATTCTGCGTCTTTGAGAGCA
89689063 TCAAAAATATTCT
1 TCAAAAATATTCT
89689076 ATCCCTATAA
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
28 39 1.00
ACGTcount: A:0.35, C:0.16, G:0.14, T:0.35
Consensus pattern (28 bp):
TCAAAAATATTCTGCGTCTTTGAGAGCA
Found at i:89691112 original size:16 final size:17
Alignment explanation
Indices: 89691091--89691144 Score: 60
Period size: 16 Copynumber: 3.4 Consensus size: 17
89691081 GAATTTACTT
89691091 ATTATAT-AAGTAAATA
1 ATTATATAAAGTAAATA
*
89691107 ATTATATAAAGTAAATT
1 ATTATATAAAGTAAATA
* *
89691124 A-TAT-TAAATTATATA
1 ATTATATAAAGTAAATA
89691139 ATTATA
1 ATTATA
89691145 ATATATTAAT
Statistics
Matches: 31, Mismatches: 4, Indels: 5
0.77 0.10 0.12
Matches are distributed among these distances:
15 9 0.29
16 13 0.42
17 9 0.29
ACGTcount: A:0.54, C:0.00, G:0.04, T:0.43
Consensus pattern (17 bp):
ATTATATAAAGTAAATA
Found at i:89691256 original size:16 final size:16
Alignment explanation
Indices: 89691235--89691266 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
89691225 AGCAGCGAAA
*
89691235 GAAAGAAAGGAAAAGG
1 GAAAGAAAAGAAAAGG
89691251 GAAAGAAAAGAAAAGG
1 GAAAGAAAAGAAAAGG
89691267 AAAATTTAGG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.66, C:0.00, G:0.34, T:0.00
Consensus pattern (16 bp):
GAAAGAAAAGAAAAGG
Found at i:89694148 original size:15 final size:15
Alignment explanation
Indices: 89694128--89694161 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
89694118 CTCGGATAAA
**
89694128 CAAAAATGGTACATC
1 CAAAAATGAAACATC
89694143 CAAAAATGAAACATC
1 CAAAAATGAAACATC
89694158 CAAA
1 CAAA
89694162 CATAAAATTA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.56, C:0.21, G:0.09, T:0.15
Consensus pattern (15 bp):
CAAAAATGAAACATC
Found at i:89695326 original size:16 final size:16
Alignment explanation
Indices: 89695301--89695335 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
89695291 CAAAAGATAG
*
89695301 ATATACGCATTCATAC
1 ATATACGCATTCACAC
*
89695317 ATATAGGCATTCACAC
1 ATATACGCATTCACAC
89695333 ATA
1 ATA
89695336 AAATGAAATT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.40, C:0.23, G:0.09, T:0.29
Consensus pattern (16 bp):
ATATACGCATTCACAC
Found at i:89697737 original size:18 final size:19
Alignment explanation
Indices: 89697707--89697742 Score: 65
Period size: 18 Copynumber: 1.9 Consensus size: 19
89697697 TTCAGATGCC
89697707 TAGGGATTTAGGGGAAATT
1 TAGGGATTTAGGGGAAATT
89697726 TAGGGA-TTAGGGGAAAT
1 TAGGGATTTAGGGGAAAT
89697743 GTAGAGAATT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
18 11 0.65
19 6 0.35
ACGTcount: A:0.33, C:0.00, G:0.39, T:0.28
Consensus pattern (19 bp):
TAGGGATTTAGGGGAAATT
Found at i:89697756 original size:18 final size:18
Alignment explanation
Indices: 89697714--89697758 Score: 56
Period size: 18 Copynumber: 2.5 Consensus size: 18
89697704 GCCTAGGGAT
* *
89697714 TTAGGGGAAATTTAGGGA
1 TTAGGGGAAATGTAGGAA
89697732 TTAGGGGAAATGTAGAGAA
1 TTAGGGGAAATGTAG-GAA
89697751 TT-GGGGAA
1 TTAGGGGAA
89697759 TCTATTTTGG
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
18 20 0.83
19 4 0.17
ACGTcount: A:0.36, C:0.00, G:0.40, T:0.24
Consensus pattern (18 bp):
TTAGGGGAAATGTAGGAA
Found at i:89697799 original size:43 final size:41
Alignment explanation
Indices: 89697751--89697834 Score: 98
Period size: 41 Copynumber: 2.0 Consensus size: 41
89697741 ATGTAGAGAA
*
89697751 TTGGGG-AATCTATTTTGGGGTTTTATTGAAAATGGCTAAGTGT
1 TTGGGGAAATCTATTTTAGGG--TT-TTGAAAATGGCTAAGTGT
* * *
89697794 TTGGGGAAATTTGTTTTAGGGTTTTGGAAATGGCTAAGTGT
1 TTGGGGAAATCTATTTTAGGGTTTTGAAAATGGCTAAGTGT
89697835 CGGGCATGAC
Statistics
Matches: 36, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
41 17 0.47
42 2 0.06
43 6 0.17
44 11 0.31
ACGTcount: A:0.23, C:0.04, G:0.32, T:0.42
Consensus pattern (41 bp):
TTGGGGAAATCTATTTTAGGGTTTTGAAAATGGCTAAGTGT
Found at i:89698251 original size:21 final size:21
Alignment explanation
Indices: 89698192--89698266 Score: 55
Period size: 21 Copynumber: 3.6 Consensus size: 21
89698182 ATGTCCTCTT
* *
89698192 AACCCTT-AACCCCTAACCAC
1 AACCCTTAAACCACAAACCAC
* * *
89698212 TAACCTTTAAA-CATTAAACCCC
1 -AACCCTTAAACCA-CAAACCAC
*
89698234 AACCCTTAAACCACAAACCAT
1 AACCCTTAAACCACAAACCAC
*
89698255 AATCCTTAAACC
1 AACCCTTAAACC
89698267 CATAATTCCT
Statistics
Matches: 41, Mismatches: 10, Indels: 6
0.72 0.18 0.11
Matches are distributed among these distances:
21 32 0.78
22 9 0.22
ACGTcount: A:0.41, C:0.39, G:0.00, T:0.20
Consensus pattern (21 bp):
AACCCTTAAACCACAAACCAC
Found at i:89698356 original size:15 final size:15
Alignment explanation
Indices: 89698323--89698385 Score: 51
Period size: 15 Copynumber: 4.3 Consensus size: 15
89698313 TAACCCCTGT
* *
89698323 CCCCTTAACTCATAT
1 CCCCTTAACCCATAA
*
89698338 CCCCTTAACCCTTAA
1 CCCCTTAACCCATAA
89698353 CCCC-TAA-CCACTAA
1 CCCCTTAACCCA-TAA
*
89698367 -CCATTAACCCATAA
1 CCCCTTAACCCATAA
*
89698381 ACCCT
1 CCCCT
89698386 AAAATCTTAA
Statistics
Matches: 38, Mismatches: 6, Indels: 8
0.73 0.12 0.15
Matches are distributed among these distances:
13 4 0.11
14 12 0.32
15 22 0.58
ACGTcount: A:0.32, C:0.44, G:0.00, T:0.24
Consensus pattern (15 bp):
CCCCTTAACCCATAA
Found at i:89698420 original size:23 final size:23
Alignment explanation
Indices: 89698379--89698425 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 23
89698369 ATTAACCCAT
* *
89698379 AAACCCTAAAATCTTAAATTTTA
1 AAACCCTAAAACCTTAAATATTA
89698402 AAACCCT-AAACCTTAAAATATTA
1 AAACCCTAAAACCTT-AAATATTA
89698425 A
1 A
89698426 CTCATAAACT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
22 6 0.29
23 15 0.71
ACGTcount: A:0.51, C:0.19, G:0.00, T:0.30
Consensus pattern (23 bp):
AAACCCTAAAACCTTAAATATTA
Found at i:89698803 original size:40 final size:40
Alignment explanation
Indices: 89698758--89698850 Score: 154
Period size: 39 Copynumber: 2.4 Consensus size: 40
89698748 ATTTTTTGTA
* *
89698758 GCGTTTTTTAAAAAATGCCGCTAATGCTCGATCTATAGTT
1 GCGTTTTTTAAAAAATGCCGCTAATGCTCAATCTATAGTG
89698798 GCGTTTTTT-AAAAATGCCGCTAATGCTCAATCTATAGTG
1 GCGTTTTTTAAAAAATGCCGCTAATGCTCAATCTATAGTG
89698837 GCG-TTTTTAAAAAA
1 GCGTTTTTTAAAAAA
89698851 GCGCCACTAG
Statistics
Matches: 50, Mismatches: 2, Indels: 3
0.91 0.04 0.05
Matches are distributed among these distances:
38 5 0.10
39 36 0.72
40 9 0.18
ACGTcount: A:0.30, C:0.16, G:0.17, T:0.37
Consensus pattern (40 bp):
GCGTTTTTTAAAAAATGCCGCTAATGCTCAATCTATAGTG
Found at i:89699064 original size:40 final size:40
Alignment explanation
Indices: 89698934--89699052 Score: 125
Period size: 40 Copynumber: 3.0 Consensus size: 40
89698924 GACATTTTCC
* * ** *
89698934 AAAAACGCCGCTAATGCTC-AACATATAGCAACG-TTTTGG
1 AAAAGCGCCGCTAATGCTCGATC-TATAGCGGCGTTTTTAG
*
89698973 TAAAAGCGCCTCTAATGCTCGATCTATAGCGGCGTTTTTAG
1 -AAAAGCGCCGCTAATGCTCGATCTATAGCGGCGTTTTTAG
* * *
89699014 AAAAGCGCCGCTAATGGTCGATTTATAGTGGCGTTTTTA
1 AAAAGCGCCGCTAATGCTCGATCTATAGCGGCGTTTTTA
89699053 TTCAAACGCC
Statistics
Matches: 67, Mismatches: 10, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
40 60 0.90
41 7 0.10
ACGTcount: A:0.29, C:0.20, G:0.22, T:0.29
Consensus pattern (40 bp):
AAAAGCGCCGCTAATGCTCGATCTATAGCGGCGTTTTTAG
Found at i:89699108 original size:10 final size:10
Alignment explanation
Indices: 89699093--89699117 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
89699083 TAGTGAAATG
89699093 AAGATAATTA
1 AAGATAATTA
89699103 AAGATAATTA
1 AAGATAATTA
89699113 AAGAT
1 AAGAT
89699118 GAATGAAGAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.60, C:0.00, G:0.12, T:0.28
Consensus pattern (10 bp):
AAGATAATTA
Found at i:89699755 original size:4 final size:4
Alignment explanation
Indices: 89699746--89699770 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
89699736 TATTGATACA
89699746 TCTT TCTT TCTT TCTT TCTT TCTT T
1 TCTT TCTT TCTT TCTT TCTT TCTT T
89699771 TTTGCTTAAG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.00, C:0.24, G:0.00, T:0.76
Consensus pattern (4 bp):
TCTT
Found at i:89701143 original size:25 final size:24
Alignment explanation
Indices: 89701111--89701166 Score: 94
Period size: 25 Copynumber: 2.3 Consensus size: 24
89701101 GTTAATATCC
89701111 AAATAAAGTAATAAATAATAAAATA
1 AAATAAAGTAATAAATAA-AAAATA
*
89701136 AAATAAAGTAATAAATAAATAATA
1 AAATAAAGTAATAAATAAAAAATA
89701160 AAATAAA
1 AAATAAA
89701167 AATAAAAATT
Statistics
Matches: 30, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
24 12 0.40
25 18 0.60
ACGTcount: A:0.73, C:0.00, G:0.04, T:0.23
Consensus pattern (24 bp):
AAATAAAGTAATAAATAAAAAATA
Found at i:89701173 original size:11 final size:12
Alignment explanation
Indices: 89701111--89701173 Score: 69
Period size: 12 Copynumber: 5.2 Consensus size: 12
89701101 GTTAATATCC
89701111 AAATAAAGTAAT-
1 AAATAAA-TAATA
*
89701123 AAATAATAAAATA
1 AAATAA-ATAATA
89701136 AAATAAAGTAAT-
1 AAATAAA-TAATA
89701148 AAATAAATAATA
1 AAATAAATAATA
89701160 AAATAAA-AATA
1 AAATAAATAATA
89701171 AAA
1 AAA
89701174 ATTGAGTTAC
Statistics
Matches: 45, Mismatches: 2, Indels: 9
0.80 0.04 0.16
Matches are distributed among these distances:
11 11 0.24
12 24 0.53
13 10 0.22
ACGTcount: A:0.75, C:0.00, G:0.03, T:0.22
Consensus pattern (12 bp):
AAATAAATAATA
Found at i:89703363 original size:19 final size:20
Alignment explanation
Indices: 89703320--89703375 Score: 69
Period size: 20 Copynumber: 2.9 Consensus size: 20
89703310 ATTGGGTCTT
89703320 GCCCATATTAACACAGTTGG
1 GCCCATATTAACACAGTTGG
* *
89703340 GCCCATGTTAATACAGTT-G
1 GCCCATATTAACACAGTTGG
* *
89703359 GCCCATAATAAAACAGT
1 GCCCATATTAACACAGT
89703376 CTCATATGAT
Statistics
Matches: 31, Mismatches: 5, Indels: 1
0.84 0.14 0.03
Matches are distributed among these distances:
19 15 0.48
20 16 0.52
ACGTcount: A:0.34, C:0.23, G:0.18, T:0.25
Consensus pattern (20 bp):
GCCCATATTAACACAGTTGG
Found at i:89710141 original size:47 final size:45
Alignment explanation
Indices: 89710072--89710171 Score: 130
Period size: 47 Copynumber: 2.2 Consensus size: 45
89710062 TATCTTAATC
*
89710072 TAAGACACATTAAAAAGTTGTACTTATTATAACAT-ATTAATTAAACT
1 TAAGACACATTAAAAAGTTGTAC-TAAT-TAACATCATTAA-TAAACT
* *
89710119 TAAGACACATTAAAATGTTGTACTAATTAACATGCATTAATAGACT
1 TAAGACACATTAAAAAGTTGTACTAATTAACAT-CATTAATAAACT
89710165 TAAGACA
1 TAAGACA
89710172 TATTTAAGAC
Statistics
Matches: 48, Mismatches: 3, Indels: 5
0.86 0.05 0.09
Matches are distributed among these distances:
45 6 0.12
46 15 0.31
47 27 0.56
ACGTcount: A:0.46, C:0.12, G:0.09, T:0.33
Consensus pattern (45 bp):
TAAGACACATTAAAAAGTTGTACTAATTAACATCATTAATAAACT
Found at i:89710551 original size:20 final size:20
Alignment explanation
Indices: 89710525--89710572 Score: 62
Period size: 20 Copynumber: 2.4 Consensus size: 20
89710515 TAAATTCTAA
89710525 AAGATAAATACAA-ATAAATG
1 AAGATAAATA-AAGATAAATG
* *
89710545 AATATAATTAAAGATAAATG
1 AAGATAAATAAAGATAAATG
89710565 AAGATAAA
1 AAGATAAA
89710573 AGCTAAAATT
Statistics
Matches: 23, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
19 2 0.09
20 21 0.91
ACGTcount: A:0.65, C:0.02, G:0.10, T:0.23
Consensus pattern (20 bp):
AAGATAAATAAAGATAAATG
Found at i:89715790 original size:46 final size:45
Alignment explanation
Indices: 89715737--89715912 Score: 203
Period size: 46 Copynumber: 3.8 Consensus size: 45
89715727 TATTTGGGCA
89715737 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-G
*** * *
89715783 TCCGAACTCGTTGAGTTGAGTCCGAGTTCGAGAGATGTAACTAG-GCA-
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-ACTTATG-GA-T-GCGAAG
*
89715830 TCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-G
* * *
89715876 CCCGAGCTCGTTGAGTTGAGTCTGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
89715913 GCGGGTTACA
Statistics
Matches: 110, Mismatches: 13, Indels: 14
0.80 0.09 0.10
Matches are distributed among these distances:
43 1 0.01
44 3 0.03
45 1 0.01
46 68 0.62
47 32 0.29
48 1 0.01
49 3 0.03
50 1 0.01
ACGTcount: A:0.21, C:0.20, G:0.30, T:0.29
Consensus pattern (45 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAG
Found at i:89715892 original size:93 final size:93
Alignment explanation
Indices: 89715733--89715904 Score: 299
Period size: 93 Copynumber: 1.8 Consensus size: 93
89715723 AGGATATTTG
* *
89715733 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
89715798 TTGAGTCCGAGTTCGAGAGATGTAACTA
66 TTGAGTCCGAGTTCGAGAGATGTAACTA
* *
89715826 GGCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
*
89715891 TTGAGTCTGAGTTC
66 TTGAGTCCGAGTTC
89715905 ACTTATGGGC
Statistics
Matches: 74, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 74 1.00
ACGTcount: A:0.21, C:0.21, G:0.30, T:0.28
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
TTGAGTCCGAGTTCGAGAGATGTAACTA
Found at i:89723238 original size:37 final size:40
Alignment explanation
Indices: 89723150--89723232 Score: 105
Period size: 40 Copynumber: 2.1 Consensus size: 40
89723140 TAATAAAAGT
* * *
89723150 AATTAATTAATATTATGATGTATAGAAATATATAAACTCA
1 AATTCATTAATATTATGATGTACAGAAATATACAAACTCA
* * *
89723190 GATTCATTAATATTATTATGTACA-AAATATACAAACTTA
1 AATTCATTAATATTATGATGTACAGAAATATACAAACTCA
89723229 AATT
1 AATT
89723233 ATAATAATTG
Statistics
Matches: 36, Mismatches: 7, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
39 16 0.44
40 20 0.56
ACGTcount: A:0.48, C:0.07, G:0.06, T:0.39
Consensus pattern (40 bp):
AATTCATTAATATTATGATGTACAGAAATATACAAACTCA
Found at i:89731268 original size:27 final size:25
Alignment explanation
Indices: 89731221--89731270 Score: 73
Period size: 27 Copynumber: 1.9 Consensus size: 25
89731211 AAATATATTG
*
89731221 TTTATTTTTTATTTATTAAAAAATA
1 TTTATTTTTTATTTATAAAAAAATA
89731246 TTTATTTTATATATTTATAAAAAAA
1 TTTATTTT-T-TATTTATAAAAAAA
89731271 ATAAATATTA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
25 8 0.36
26 1 0.05
27 13 0.59
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (25 bp):
TTTATTTTTTATTTATAAAAAAATA
Found at i:89737801 original size:20 final size:22
Alignment explanation
Indices: 89737773--89737816 Score: 56
Period size: 20 Copynumber: 2.1 Consensus size: 22
89737763 TTTTAATATT
*
89737773 AAAAGTTAAA-AAT-TTTTAAA
1 AAAAGTTAAAGAATATATTAAA
*
89737793 AAAATTTAAAGAATATATTAAA
1 AAAAGTTAAAGAATATATTAAA
89737815 AA
1 AA
89737817 GTTAAATGTT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
20 9 0.45
21 3 0.15
22 8 0.40
ACGTcount: A:0.64, C:0.00, G:0.05, T:0.32
Consensus pattern (22 bp):
AAAAGTTAAAGAATATATTAAA
Found at i:89749326 original size:45 final size:45
Alignment explanation
Indices: 89749267--89749366 Score: 175
Period size: 45 Copynumber: 2.2 Consensus size: 45
89749257 AAGTAAACCT
*
89749267 CCAATAGT-TTGTAACCACCTATTTTATCCCCTATCCCCTTTTTC
1 CCAATAATATTGTAACCACCTATTTTATCCCCTATCCCCTTTTTC
*
89749311 CTAATAATATTGTAACCACCTATTTTATCCCCTATCCCCTTTTTC
1 CCAATAATATTGTAACCACCTATTTTATCCCCTATCCCCTTTTTC
89749356 CCAATAATATT
1 CCAATAATATT
89749367 CTTCGAAAGA
Statistics
Matches: 52, Mismatches: 3, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
44 6 0.12
45 46 0.88
ACGTcount: A:0.25, C:0.31, G:0.03, T:0.41
Consensus pattern (45 bp):
CCAATAATATTGTAACCACCTATTTTATCCCCTATCCCCTTTTTC
Found at i:89758617 original size:26 final size:25
Alignment explanation
Indices: 89758588--89758642 Score: 74
Period size: 25 Copynumber: 2.2 Consensus size: 25
89758578 TTCTAAAAAT
89758588 AAAATCAAAATACTTTAAAAATAGAA
1 AAAATCAAAATA-TTTAAAAATAGAA
* * *
89758614 AAAATTATAATATTTAAAAATATAA
1 AAAATCAAAATATTTAAAAATAGAA
89758639 AAAA
1 AAAA
89758643 AAGTTCTAAA
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
25 16 0.62
26 10 0.38
ACGTcount: A:0.67, C:0.04, G:0.02, T:0.27
Consensus pattern (25 bp):
AAAATCAAAATATTTAAAAATAGAA
Found at i:89762042 original size:23 final size:23
Alignment explanation
Indices: 89762016--89762062 Score: 85
Period size: 23 Copynumber: 2.0 Consensus size: 23
89762006 TCATTCATAG
*
89762016 TAAGAATATGAGGTTAGAATTCT
1 TAAGAATATGAGGTCAGAATTCT
89762039 TAAGAATATGAGGTCAGAATTCT
1 TAAGAATATGAGGTCAGAATTCT
89762062 T
1 T
89762063 GTTCACTTGG
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.38, C:0.06, G:0.21, T:0.34
Consensus pattern (23 bp):
TAAGAATATGAGGTCAGAATTCT
Found at i:89764866 original size:41 final size:41
Alignment explanation
Indices: 89764821--89764904 Score: 168
Period size: 41 Copynumber: 2.0 Consensus size: 41
89764811 TATTACTAGT
89764821 GAAAAGATATTCTTAAAAGAATCTCAAAATAGCCATTAAGG
1 GAAAAGATATTCTTAAAAGAATCTCAAAATAGCCATTAAGG
89764862 GAAAAGATATTCTTAAAAGAATCTCAAAATAGCCATTAAGG
1 GAAAAGATATTCTTAAAAGAATCTCAAAATAGCCATTAAGG
89764903 GA
1 GA
89764905 GGTTAACTTT
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 43 1.00
ACGTcount: A:0.49, C:0.12, G:0.15, T:0.24
Consensus pattern (41 bp):
GAAAAGATATTCTTAAAAGAATCTCAAAATAGCCATTAAGG
Found at i:89771977 original size:47 final size:47
Alignment explanation
Indices: 89771919--89772406 Score: 825
Period size: 47 Copynumber: 10.4 Consensus size: 47
89771909 CAGCCAAGAC
89771919 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
89771966 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
*
89772013 AGTGTATATGTGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
*
89772060 AGTGTA-ATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
89772106 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
* *
89772153 AGTGTATATGTGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
* *
89772200 AGTGTATATGTGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
*
89772247 AGTGTATATATGTAATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
89772294 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
* * * * * * *
89772341 AGTGTATATATGTGACAGGGCCGAGTGGCCAACGTGATGGATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
* *
89772388 AGTGCATAAATGTGATAAG
1 AGTGTATATATGTGATAAG
89772407 TCCCGAAGGG
Statistics
Matches: 419, Mismatches: 21, Indels: 2
0.95 0.05 0.00
Matches are distributed among these distances:
46 44 0.11
47 375 0.89
ACGTcount: A:0.32, C:0.09, G:0.30, T:0.29
Consensus pattern (47 bp):
AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
Found at i:89772580 original size:37 final size:37
Alignment explanation
Indices: 89772524--89772602 Score: 115
Period size: 37 Copynumber: 2.1 Consensus size: 37
89772514 CCGAGCTCTA
* *
89772524 AAGACCCGATGACTACGTGTGG-GAATTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAG-ATTATGTCCGGGT
*
89772561 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
89772598 AAGAC
1 AAGAC
89772603 TTCGTAATAA
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
37 37 0.97
38 1 0.03
ACGTcount: A:0.25, C:0.19, G:0.30, T:0.25
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
Found at i:89778491 original size:40 final size:40
Alignment explanation
Indices: 89778272--89778469 Score: 326
Period size: 40 Copynumber: 5.0 Consensus size: 40
89778262 GAGGACTATA
89778272 TCCGGGTTAAGTCCCGAAGGCATTCATGCTGGTTGTTATT
1 TCCGGGTTAAGTCCCGAAGGCATTCATGCTGGTTGTTATT
89778312 TCCGGGTTAAGTCCCGAAGGCATTCATGCTGGTTGTTATT
1 TCCGGGTTAAGTCCCGAAGGCATTCATGCTGGTTGTTATT
* *
89778352 CCCGGGTTTAAGTCCCGAAGGCATT-GTGCTGGTTGTTATT
1 TCCGGG-TTAAGTCCCGAAGGCATTCATGCTGGTTGTTATT
* *
89778392 TTCGGGTTAAGTCCCGAAGGCATTCATGCTGGTTGCTATT
1 TCCGGGTTAAGTCCCGAAGGCATTCATGCTGGTTGTTATT
**
89778432 TCCGGGTTAAGTCCCGAAGGCATTTGTGCTGGTTGTTA
1 TCCGGGTTAAGTCCCGAAGGCATTCATGCTGGTTGTTA
89778470 CATCCGGGCA
Statistics
Matches: 146, Mismatches: 10, Indels: 4
0.91 0.06 0.03
Matches are distributed among these distances:
39 18 0.12
40 110 0.75
41 18 0.12
ACGTcount: A:0.17, C:0.20, G:0.29, T:0.35
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTCATGCTGGTTGTTATT
Found at i:89786400 original size:40 final size:40
Alignment explanation
Indices: 89786336--89786452 Score: 189
Period size: 40 Copynumber: 2.9 Consensus size: 40
89786326 CAATTGAGGA
* *
89786336 TTATATCCGGGTTAAGTCCCGAAGGCATTCATGCTGGTTG
1 TTATTTCCGGGTTAAGTCCCGAAGGCATTCGTGCTGGTTG
*
89786376 TTATTTCCGGGTTAAGTCCTGAAGGCATTCGTGCTGGTTG
1 TTATTTCCGGGTTAAGTCCCGAAGGCATTCGTGCTGGTTG
*
89786416 TTATTCCCGGGTTTAAGTCCCGAAGGCATTCGTGCTG
1 TTATTTCCGGG-TTAAGTCCCGAAGGCATTCGTGCTG
89786453 ATTCGGGTTG
Statistics
Matches: 71, Mismatches: 5, Indels: 1
0.92 0.06 0.01
Matches are distributed among these distances:
40 47 0.66
41 24 0.34
ACGTcount: A:0.17, C:0.21, G:0.28, T:0.34
Consensus pattern (40 bp):
TTATTTCCGGGTTAAGTCCCGAAGGCATTCGTGCTGGTTG
Found at i:89788742 original size:26 final size:26
Alignment explanation
Indices: 89788684--89788743 Score: 63
Period size: 26 Copynumber: 2.3 Consensus size: 26
89788674 ATTTATATTT
*
89788684 TCATTA-TTATATTTTAGATATTATG
1 TCATTATTTATATTTTAGATATTATA
*
89788709 TC-TATATTTATA-TTTAGGTATTAATA
1 TCAT-TATTTATATTTTAGATATT-ATA
89788735 TCATTATTT
1 TCATTATTT
89788744 TACTATTGTT
Statistics
Matches: 29, Mismatches: 2, Indels: 7
0.76 0.05 0.18
Matches are distributed among these distances:
24 1 0.03
25 13 0.45
26 14 0.48
27 1 0.03
ACGTcount: A:0.32, C:0.05, G:0.07, T:0.57
Consensus pattern (26 bp):
TCATTATTTATATTTTAGATATTATA
Found at i:89788788 original size:18 final size:18
Alignment explanation
Indices: 89788767--89788809 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 18
89788757 TTTTTCATAC
*
89788767 TATTATTATTATCACTAT
1 TATTATTATTAGCACTAT
*
89788785 TATTACTATTAGCACTAT
1 TATTATTATTAGCACTAT
*
89788803 TTTTATT
1 TATTATT
89788810 TGCTATTATT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.30, C:0.12, G:0.02, T:0.56
Consensus pattern (18 bp):
TATTATTATTAGCACTAT
Found at i:89788841 original size:51 final size:53
Alignment explanation
Indices: 89788784--89788885 Score: 136
Period size: 51 Copynumber: 1.9 Consensus size: 53
89788774 ATTATCACTA
*
89788784 TTATTACTATTAGCACTATTTTTAT-TTGCTATTATT-TAATATATTATTTTT
1 TTATTACTATCAGCACTATTTTTATATTGCTATTATTATAATATATTATTTTT
** * *
89788835 TTATTACTATCATTACTATTTTTATATTGTTATTATTACTATTATATTATT
1 TTATTACTATCAGCACTATTTTTATATTGCTATTATTA-TAATATATTATT
89788886 GTATTATCCT
Statistics
Matches: 43, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
51 22 0.51
52 10 0.23
54 11 0.26
ACGTcount: A:0.28, C:0.08, G:0.03, T:0.61
Consensus pattern (53 bp):
TTATTACTATCAGCACTATTTTTATATTGCTATTATTATAATATATTATTTTT
Found at i:89788844 original size:29 final size:31
Alignment explanation
Indices: 89788802--89788879 Score: 72
Period size: 29 Copynumber: 2.5 Consensus size: 31
89788792 ATTAGCACTA
*
89788802 TTTTTATTTGCTATTATTTAATA-TATTAT-T
1 TTTTTA-TTACTATTATTTAATATTATTATAT
* * *
89788832 TTTTTATTACTATCA-TTACTATTTTTATAT
1 TTTTTATTACTATTATTTAATATTATTATAT
89788862 TGTTATTATTACTATTAT
1 T-TT-TTATTACTATTAT
89788880 ATTATTGTAT
Statistics
Matches: 38, Mismatches: 5, Indels: 7
0.76 0.10 0.14
Matches are distributed among these distances:
28 5 0.13
29 12 0.32
30 8 0.21
31 2 0.05
32 11 0.29
ACGTcount: A:0.27, C:0.06, G:0.03, T:0.64
Consensus pattern (31 bp):
TTTTTATTACTATTATTTAATATTATTATAT
Found at i:89788854 original size:23 final size:23
Alignment explanation
Indices: 89788828--89788877 Score: 64
Period size: 23 Copynumber: 2.2 Consensus size: 23
89788818 TTTAATATAT
*
89788828 TATTTTTTTATTACTATCATTAC
1 TATTTTTATATTACTATCATTAC
** *
89788851 TATTTTTATATTGTTATTATTAC
1 TATTTTTATATTACTATCATTAC
89788874 TATT
1 TATT
89788878 ATATTATTGT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.26, C:0.08, G:0.02, T:0.64
Consensus pattern (23 bp):
TATTTTTATATTACTATCATTAC
Found at i:89788885 original size:23 final size:22
Alignment explanation
Indices: 89788846--89788892 Score: 60
Period size: 23 Copynumber: 2.1 Consensus size: 22
89788836 TATTACTATC
*
89788846 ATTACTATTTTTATATTGTTATT
1 ATTACTATTTATATATTG-TATT
89788869 ATTACTA-TTATATTATTGTATT
1 ATTACTATTTATA-TATTGTATT
89788891 AT
1 AT
89788893 CCTTACCTAT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
22 10 0.45
23 12 0.55
ACGTcount: A:0.30, C:0.04, G:0.04, T:0.62
Consensus pattern (22 bp):
ATTACTATTTATATATTGTATT
Found at i:89796404 original size:46 final size:46
Alignment explanation
Indices: 89796245--89796546 Score: 204
Period size: 47 Copynumber: 6.5 Consensus size: 46
89796235 TCACTTGCGT
* * * * *
89796245 GAGCCAATGTAAGACATGTCCGAGACATGCATCGGCCA-C-ATTACGA
1 GAGCCAGTGTAAGACATGTCTGGGACATGCATC-GACATCGA-GACGA
* * *
89796291 GAGCCAGTATAAGACCATGTCTGGGACATGGCATCGGCATTGAGACGA
1 GAGCCAGTGTAAGA-CATGTCTGGGACAT-GCATCGACATCGAGACGA
* * *
89796339 GAGCTAGTGAAAGACATGTCTGGGACATGCATCGACCTCGAGACGTA
1 GAGCCAGTGTAAGACATGTCTGGGACATGCATCGACATCGAGACG-A
* * * *
89796386 -AGCCAGTGTAAGATATGTCTGGGACATGCATTGGC-TACG-GAATGA
1 GAGCCAGTGTAAGACATGTCTGGGACATGCATCGACAT-CGAG-ACGA
* ** * * *
89796431 TAGTTAGTGTAAGACCATGTCTGGGACATGGCATCGAC-TTGAGATGT
1 GAGCCAGTGTAAGA-CATGTCTGGGACAT-GCATCGACATCGAGACGA
** * * * *
89796478 GAGTTAGTGTAAGACCATGTCTGGGACATGACACCGA-ATTGAGATGT
1 GAGCCAGTGTAAGA-CATGTCTGGGACATG-CATCGACATCGAGACGA
89796525 GAGCCAGTGTAAGACAGTGTCT
1 GAGCCAGTGTAAGACA-TGTCT
89796547 AGGATATAGC
Statistics
Matches: 212, Mismatches: 30, Indels: 27
0.79 0.11 0.10
Matches are distributed among these distances:
45 3 0.01
46 74 0.35
47 106 0.50
48 28 0.13
49 1 0.00
ACGTcount: A:0.29, C:0.19, G:0.29, T:0.23
Consensus pattern (46 bp):
GAGCCAGTGTAAGACATGTCTGGGACATGCATCGACATCGAGACGA
Found at i:89796483 original size:47 final size:47
Alignment explanation
Indices: 89796291--89796539 Score: 231
Period size: 47 Copynumber: 5.3 Consensus size: 47
89796281 CACATTACGA
* * * * *
89796291 GAGCCAGTATAAGACCATGTCTGGGACATGGCATCGGCATTGAGACGA
1 GAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGAC-TTGAGATGT
* * *
89796339 GAGCTAGTGAAAGA-CATGTCTGGGACAT-GCATCGACCTCGAGACGT
1 GAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGA-CTTGAGATGT
* * * * * *
89796385 AAGCCAGTGTAAGA-TATGTCTGGGACAT-GCATTGGCTACG-GAATGAT
1 GAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGACT-TGAG-ATG-T
*
89796432 -AGTTAGTGTAAGACCATGTCTGGGACATGGCATCGACTTGAGATGT
1 GAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGACTTGAGATGT
* * * *
89796478 GAGTTAGTGTAAGACCATGTCTGGGACATGACACCGAATTGAGATGT
1 GAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGACTTGAGATGT
*
89796525 GAGCCAGTGTAAGAC
1 GAGCTAGTGTAAGAC
89796540 AGTGTCTAGG
Statistics
Matches: 169, Mismatches: 24, Indels: 17
0.80 0.11 0.08
Matches are distributed among these distances:
45 3 0.02
46 58 0.34
47 89 0.53
48 19 0.11
ACGTcount: A:0.29, C:0.18, G:0.31, T:0.23
Consensus pattern (47 bp):
GAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGACTTGAGATGT
Found at i:89796498 original size:140 final size:142
Alignment explanation
Indices: 89796300--89796562 Score: 363
Period size: 140 Copynumber: 1.9 Consensus size: 142
89796290 AGAGCCAGTA
*
89796300 TAAGACCATGTCTGGGACATGGCATCGGCATTGAGACGAGAGCTAGTGAAAGACATGTCTGGGAC
1 TAAGACCATGTCTGGGACATGGCATCGACATTGAGACGAGAGCTAGTGAAAGACATGTCTGGGAC
* * * *
89796365 ATG-CATCGACCTCGAGACGTAAGCCAGTGTAAGATA-TGTCTGGGACAT-GCATTGGCTACGGA
66 ATGACACCGA-ATCGAGACGTAAGCCAGTGTAAGACAGTGTCTAGGACATAGCATTGGCTACGGA
89796427 ATGATAGTTAGTG
130 ATGATAGTTAGTG
* * * *
89796440 TAAGACCATGTCTGGGACATGGCATCGAC-TTGAGATGTGAGTTAGTGTAAGACCATGTCTGGGA
1 TAAGACCATGTCTGGGACATGGCATCGACATTGAGACGAGAGCTAGTGAAAGA-CATGTCTGGGA
* * * *
89796504 CATGACACCGAATTGAGATGTGAGCCAGTGTAAGACAGTGTCTAGGATATAGCATTGGC
65 CATGACACCGAATCGAGACGTAAGCCAGTGTAAGACAGTGTCTAGGACATAGCATTGGC
89796563 ACCATACCCA
Statistics
Matches: 106, Mismatches: 13, Indels: 6
0.85 0.10 0.05
Matches are distributed among these distances:
139 19 0.18
140 64 0.60
141 15 0.14
142 8 0.08
ACGTcount: A:0.29, C:0.17, G:0.30, T:0.24
Consensus pattern (142 bp):
TAAGACCATGTCTGGGACATGGCATCGACATTGAGACGAGAGCTAGTGAAAGACATGTCTGGGAC
ATGACACCGAATCGAGACGTAAGCCAGTGTAAGACAGTGTCTAGGACATAGCATTGGCTACGGAA
TGATAGTTAGTG
Found at i:89804062 original size:47 final size:45
Alignment explanation
Indices: 89803946--89804258 Score: 211
Period size: 47 Copynumber: 6.7 Consensus size: 45
89803936 CACTTGTGTG
** * *** *
89803946 AGCTAGTGTAAGACATGTCCAGGACATGCATCGGCCACATTAT-AA
1 AGCTAGTGTAAGACATGTCTGGGACATGCATCGACTTGA-GATGAA
* * *
89803991 GAGCCAGTATAAGACCATGCCTGGGACATGGCATCGACATTGAGATGAA
1 -AGCTAGTGTAAGA-CATGTCTGGGACAT-GCATCGAC-TTGAGATGAA
* * * *
89804040 AGCTAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGACGTA
1 AGCTAGTGTAAGACATGTCTGGGACATGCATC-GACTTGAGATGAA
* * * * *
89804086 AGCCAGTGTAAGACATGTCTGGGAGATGCATCGGCTATGAAATGAT
1 AGCTAGTGTAAGACATGTCTGGGACATGCATCGACT-TGAGATGAA
* * **
89804132 AG-TCAGTGTAAGGCAATGTTTGGGACATGGCATCGACTTGAGATGTG
1 AGCT-AGTGTAAGAC-ATGTCTGGGACAT-GCATCGACTTGAGATGAA
**
89804179 AG-TCAGTGTAAGACCATGTCTGGGACATGACA-CTGACTTGAGATGTG
1 AGCT-AGTGTAAGA-CATGTCTGGGACATG-CATC-GACTTGAGATGAA
* *
89804226 AGCCAGTGTAAGACAGTGTCTAGGACATAGCAT
1 AGCTAGTGTAAGACA-TGTCTGGGACAT-GCAT
89804259 TGGCACCATA
Statistics
Matches: 214, Mismatches: 37, Indels: 30
0.76 0.13 0.11
Matches are distributed among these distances:
45 3 0.01
46 72 0.34
47 106 0.50
48 30 0.14
49 3 0.01
ACGTcount: A:0.30, C:0.18, G:0.29, T:0.23
Consensus pattern (45 bp):
AGCTAGTGTAAGACATGTCTGGGACATGCATCGACTTGAGATGAA
Found at i:89804252 original size:94 final size:91
Alignment explanation
Indices: 89803992--89804258 Score: 261
Period size: 94 Copynumber: 2.8 Consensus size: 91
89803982 ACATTATAAG
* * * *
89803992 AGCCAGTATAAGACCATGCCTGGGACATGGCATCGACATTGAGATGAAAGCTAGTGTAAGACATG
1 AGCCAGTGTAAGACCATGTCTGGGACAT-GCATCGAC-TTGAGATG-TAGCCAGTGTAAGACATG
*
89804057 TCTGGGACATGCATCGGCCTCGAGACGTA
63 TCTGGGACATGCATCGGACTCGAGACGTA
* * * * *
89804086 AGCCAGTGTAAGA-CATGTCTGGGAGATGCATCGGCTATGAAATGATAGTCAGTGTAAGGCAATG
1 AGCCAGTGTAAGACCATGTCTGGGACATGCATCGACT-TGAGATG-TAGCCAGTGTAAGAC-ATG
* * * *
89804150 TTTGGGACATGGCATC-GACTTGAGATGTG
63 TCTGGGACAT-GCATCGGACTCGAGACGTA
*
89804179 AGTCAGTGTAAGACCATGTCTGGGACATGACA-CTGACTTGAGATGTGAGCCAGTGTAAGACAGT
1 AGCCAGTGTAAGACCATGTCTGGGACATG-CATC-GACTTGAGATGT-AGCCAGTGTAAGACA-T
*
89804243 GTCTAGGACATAGCAT
62 GTCTGGGACAT-GCAT
89804259 TGGCACCATA
Statistics
Matches: 142, Mismatches: 23, Indels: 16
0.78 0.13 0.09
Matches are distributed among these distances:
91 1 0.01
92 25 0.18
93 47 0.33
94 64 0.45
95 5 0.04
ACGTcount: A:0.29, C:0.18, G:0.30, T:0.23
Consensus pattern (91 bp):
AGCCAGTGTAAGACCATGTCTGGGACATGCATCGACTTGAGATGTAGCCAGTGTAAGACATGTCT
GGGACATGCATCGGACTCGAGACGTA
Found at i:89805169 original size:84 final size:83
Alignment explanation
Indices: 89804980--89805196 Score: 301
Period size: 84 Copynumber: 2.6 Consensus size: 83
89804970 GTGTCTATGC
* * * *
89804980 CGTGTGTGACACACGGTCTGCCCCATGGGCATGTAGTTCACCCGTGTGTGACACACGTCTGCCCC
1 CGTGTGTGACACACGGTCTGCCCCATGGGCGTGTAGTTCAGCCGTGTGTCACACACATCTGCCCC
*
89805045 ATGGGCGTGTAGTTTGAT
66 ATGGGCGTGTAGTTTGAG
* * *
89805063 CGTGTGTGATACACGGTTTGCCCCATGGGCGTGTAGTTCAGCCGTGTGTCACACACAATCTGCCT
1 CGTGTGTGACACACGGTCTGCCCCATGGGCGTGTAGTTCAGCCGTGTGTCACACAC-ATCTGCCC
*
89805128 CATGGGCTTGTAGTTTG-G
65 CATGGGCGTGTAGTTTGAG
* * *
89805146 CGTTGTGTCACACACGGTCTGCCCCATGGGTGTGTAGTTCGGCCGTGTGTC
1 CG-TGTGTGACACACGGTCTGCCCCATGGGCGTGTAGTTCAGCCGTGTGTC
89805197 CCCTGCACAT
Statistics
Matches: 118, Mismatches: 14, Indels: 3
0.87 0.10 0.02
Matches are distributed among these distances:
83 53 0.45
84 65 0.55
ACGTcount: A:0.14, C:0.26, G:0.31, T:0.29
Consensus pattern (83 bp):
CGTGTGTGACACACGGTCTGCCCCATGGGCGTGTAGTTCAGCCGTGTGTCACACACATCTGCCCC
ATGGGCGTGTAGTTTGAG
Found at i:89805196 original size:42 final size:42
Alignment explanation
Indices: 89804978--89805196 Score: 253
Period size: 42 Copynumber: 5.2 Consensus size: 42
89804968 GTGTGTCTAT
* * *
89804978 GCCGTGTGTGACACACGGTCTGCCCCATGGGCATGTAGTTCA
1 GCCGTGTGTCACACACGGTCTGCCCCATGGGCGTGTAGTTCG
* * *
89805020 CCCGTGTGTGACACAC-GTCTGCCCCATGGGCGTGTAGTTTG
1 GCCGTGTGTCACACACGGTCTGCCCCATGGGCGTGTAGTTCG
** * * * *
89805061 ATCGTGTGTGATACACGGTTTGCCCCATGGGCGTGTAGTTCA
1 GCCGTGTGTCACACACGGTCTGCCCCATGGGCGTGTAGTTCG
** * * *
89805103 GCCGTGTGTCACACACAATCTGCCTCATGGGCTTGTAGTTTG
1 GCCGTGTGTCACACACGGTCTGCCCCATGGGCGTGTAGTTCG
*
89805145 G-CGTTGTGTCACACACGGTCTGCCCCATGGGTGTGTAGTTCG
1 GCCG-TGTGTCACACACGGTCTGCCCCATGGGCGTGTAGTTCG
89805187 GCCGTGTGTC
1 GCCGTGTGTC
89805197 CCCTGCACAT
Statistics
Matches: 147, Mismatches: 27, Indels: 6
0.82 0.15 0.03
Matches are distributed among these distances:
41 37 0.25
42 108 0.73
43 2 0.01
ACGTcount: A:0.14, C:0.26, G:0.31, T:0.28
Consensus pattern (42 bp):
GCCGTGTGTCACACACGGTCTGCCCCATGGGCGTGTAGTTCG
Found at i:89808643 original size:47 final size:46
Alignment explanation
Indices: 89808574--89808837 Score: 221
Period size: 47 Copynumber: 5.7 Consensus size: 46
89808564 ATATTTGGCT
** **
89808574 AGTGTAAGACATGTCTAAGACAT-GCATCAGCCACGTTATGAGAGCC
1 AGTGTAAGACATGTCTGGGACATGGCATC-GCCACGAGATGAGAGCC
* * * * *
89808620 AGTGTAAGACCATGTCTGGGACATGGTATCGGCATTGAGACGAGAGCT
1 AGTGTAAGA-CATGTCTGGGACATGGCATCGCCA-CGAGATGAGAGCC
* *
89808668 AGTGTAAGACATGTCTGGGACAT-GCATCGGCCTCGAGACGTA-AGCC
1 AGTGTAAGACATGTCTGGGACATGGCATC-GCCACGAGATG-AGAGCC
* * * * * *
89808714 AGTGTAAGACATGCCTGGGACAT-GCATCGGCTACCAAATGATAGTC
1 AGTGTAAGACATGTCTGGGACATGGCATC-GCCACGAGATGAGAGCC
* * ** *
89808760 AGTGTAAGACCATGTCTGGGCCATGGCATCGGCTTGAGATGTGAGCC
1 AGTGTAAGA-CATGTCTGGGACATGGCATCGCCACGAGATGAGAGCC
*
89808807 AGTGTAAGGCCATGTCTGGGACATGGCATCG
1 AGTGTAA-GACATGTCTGGGACATGGCATCG
89808838 GCACTTTACC
Statistics
Matches: 175, Mismatches: 34, Indels: 17
0.77 0.15 0.08
Matches are distributed among these distances:
45 1 0.01
46 68 0.39
47 79 0.45
48 27 0.15
ACGTcount: A:0.27, C:0.21, G:0.30, T:0.22
Consensus pattern (46 bp):
AGTGTAAGACATGTCTGGGACATGGCATCGCCACGAGATGAGAGCC
Found at i:89808807 original size:93 final size:94
Alignment explanation
Indices: 89808668--89808839 Score: 251
Period size: 93 Copynumber: 1.8 Consensus size: 94
89808658 GACGAGAGCT
89808668 AGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGACGTAAGCCAGTGTAA-GACATGCCTGG
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGACGTAAGCCAGTGTAAGGACATGCCTGG
89808732 GACAT-GCATCGGCTACCAAATGATAGTC
66 GACATGGCATCGGCTACCAAATGATAGTC
* * * * * *
89808760 AGTGTAAGACCATGTCTGGGCCATGGCATCGG-CTTGAGATGTGAGCCAGTGTAAGGCCATGTCT
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCTCGAGACGTAAGCCAGTGTAAGGACATGCCT
89808824 GGGACATGGCATCGGC
64 GGGACATGGCATCGGC
89808840 ACTTTACCCA
Statistics
Matches: 70, Mismatches: 6, Indels: 5
0.86 0.07 0.06
Matches are distributed among these distances:
92 9 0.13
93 32 0.46
94 21 0.30
95 8 0.11
ACGTcount: A:0.25, C:0.22, G:0.31, T:0.22
Consensus pattern (94 bp):
AGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGACGTAAGCCAGTGTAAGGACATGCCTGG
GACATGGCATCGGCTACCAAATGATAGTC
Found at i:89808826 original size:140 final size:141
Alignment explanation
Indices: 89808574--89808839 Score: 365
Period size: 140 Copynumber: 1.9 Consensus size: 141
89808564 ATATTTGGCT
* ***
89808574 AGTGTAAGACATGTCTAAGACATGCATCAGCCACGTTATGAGAGCCAGTGTAAGACCATGTCTGG
1 AGTGTAAGACATGCCTAAGACATGCATCAGCCACCAAATGAGAGCCAGTGTAAGACCATGTCTGG
* *
89808639 GACATGGTATCGGCATTGAGACGAGAGCTAGTGTAAGACATGTCTGGGACAT-GCATCGGCCTCG
66 GACATGGCATCGGCATTGAGACGAGAGCCAGTGTAAGACATGTCTGGGACATGGCATCGGCCTCG
89808703 AGACGTAAGCC
131 AGACGTAAGCC
** * * * *
89808714 AGTGTAAGACATGCCTGGGACATGCATCGGCTACCAAATGATAGTCAGTGTAAGACCATGTCTGG
1 AGTGTAAGACATGCCTAAGACATGCATCAGCCACCAAATGAGAGCCAGTGTAAGACCATGTCTGG
* * * *
89808779 GCCATGGCATCGGC-TTGAGATGTGAGCCAGTGTAAGGCCATGTCTGGGACATGGCATCGGC
66 GACATGGCATCGGCATTGAGACGAGAGCCAGTGTAA-GACATGTCTGGGACATGGCATCGGC
89808840 ACTTTACCCA
Statistics
Matches: 108, Mismatches: 16, Indels: 3
0.85 0.13 0.02
Matches are distributed among these distances:
139 18 0.17
140 82 0.76
141 8 0.07
ACGTcount: A:0.27, C:0.21, G:0.30, T:0.22
Consensus pattern (141 bp):
AGTGTAAGACATGCCTAAGACATGCATCAGCCACCAAATGAGAGCCAGTGTAAGACCATGTCTGG
GACATGGCATCGGCATTGAGACGAGAGCCAGTGTAAGACATGTCTGGGACATGGCATCGGCCTCG
AGACGTAAGCC
Found at i:89808838 original size:47 final size:47
Alignment explanation
Indices: 89808615--89808839 Score: 226
Period size: 47 Copynumber: 4.8 Consensus size: 47
89808605 CACGTTATGA
* * * *
89808615 GAGCCAGTGTAAGACCATGTCTGGGACATGGTATCGGCATTGAGACGA
1 GAGCCAGTGTAAGGCCATGTCTGGGACATGGCATCGGC-TCGAGACGT
* *
89808663 GAGCTAGTGTAA-GACATGTCTGGGACAT-GCATCGGCCTCGAGACGT
1 GAGCCAGTGTAAGGCCATGTCTGGGACATGGCATCGG-CTCGAGACGT
* * * * * *
89808709 AAGCCAGTGTAA-GACATGCCTGGGACAT-GCATCGGCTACCAAATGAT
1 GAGCCAGTGTAAGGCCATGTCTGGGACATGGCATCGGCT-CGAGACG-T
* * * * *
89808756 -AGTCAGTGTAAGACCATGTCTGGGCCATGGCATCGGCTTGAGATGT
1 GAGCCAGTGTAAGGCCATGTCTGGGACATGGCATCGGCTCGAGACGT
89808802 GAGCCAGTGTAAGGCCATGTCTGGGACATGGCATCGGC
1 GAGCCAGTGTAAGGCCATGTCTGGGACATGGCATCGGC
89808840 ACTTTACCCA
Statistics
Matches: 148, Mismatches: 23, Indels: 13
0.80 0.12 0.07
Matches are distributed among these distances:
45 2 0.01
46 60 0.41
47 66 0.45
48 20 0.14
ACGTcount: A:0.25, C:0.21, G:0.32, T:0.21
Consensus pattern (47 bp):
GAGCCAGTGTAAGGCCATGTCTGGGACATGGCATCGGCTCGAGACGT
Found at i:89811669 original size:12 final size:13
Alignment explanation
Indices: 89811652--89811689 Score: 51
Period size: 14 Copynumber: 2.9 Consensus size: 13
89811642 ATCCTAGAAT
89811652 ATTAAG-ACAAGA
1 ATTAAGAACAAGA
*
89811664 ATTAAGAACACATA
1 ATTAAGAACA-AGA
89811678 ATTAAGAACAAG
1 ATTAAGAACAAG
89811690 TCAAATATTT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
12 6 0.27
13 4 0.18
14 12 0.55
ACGTcount: A:0.58, C:0.11, G:0.13, T:0.18
Consensus pattern (13 bp):
ATTAAGAACAAGA
Found at i:89822000 original size:12 final size:13
Alignment explanation
Indices: 89821983--89822020 Score: 51
Period size: 14 Copynumber: 2.9 Consensus size: 13
89821973 ATCCTGGAAT
89821983 ATTAAG-ACAAGA
1 ATTAAGAACAAGA
*
89821995 ATTAAGAACACATA
1 ATTAAGAACA-AGA
89822009 ATTAAGAACAAG
1 ATTAAGAACAAG
89822021 TCAAATATTT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
12 6 0.27
13 4 0.18
14 12 0.55
ACGTcount: A:0.58, C:0.11, G:0.13, T:0.18
Consensus pattern (13 bp):
ATTAAGAACAAGA
Found at i:89827949 original size:47 final size:44
Alignment explanation
Indices: 89827882--89828050 Score: 146
Period size: 46 Copynumber: 3.7 Consensus size: 44
89827872 TTATTTGGCT
*
89827882 AGTGTAAGACATGTCTGGGACATGCATCAGCCACATT-ATGAGAGCC
1 AGTGTAAGACATGTCTGGGACATGCATC-G--ACATTGACGAGAGCC
* *
89827928 AGTGTAAGACCATGTCCGGGACATGGCATCGACATTGAGACGAGAGCT
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCGACATT--GACGAGAGCC
* * *
89827976 AGTGTAAGACATGTCTGGGATATGCATCGGTC-TCGA-GATGTAAGCC
1 AGTGTAAGACATGTCTGGGACATGCATC-GACATTGACGA-G--AGCC
**
89828022 AGTGTAAGACATGTCTAAGACATGCATCG
1 AGTGTAAGACATGTCTGGGACATGCATCG
89828051 GGTAAGAGAT
Statistics
Matches: 103, Mismatches: 11, Indels: 19
0.77 0.08 0.14
Matches are distributed among these distances:
43 2 0.02
44 3 0.03
45 6 0.06
46 43 0.42
47 28 0.27
48 21 0.20
ACGTcount: A:0.30, C:0.20, G:0.28, T:0.22
Consensus pattern (44 bp):
AGTGTAAGACATGTCTGGGACATGCATCGACATTGACGAGAGCC
Found at i:89827980 original size:48 final size:44
Alignment explanation
Indices: 89827879--89828004 Score: 146
Period size: 47 Copynumber: 2.7 Consensus size: 44
89827869 TTATTATTTG
*
89827879 GCTAGTGTAAGACATGTCTGGGACATGCATCAGCCACATTATGAGA
1 GCTAGTGTAAGACATGTCTGGGACATGCATC-G-CACATTACGAGA
* *
89827925 GCCAGTGTAAGACCATGTCCGGGACATGGCATCG-ACATTGAGACGAGA
1 GCTAGTGTAAGA-CATGTCTGGGACAT-GCATCGCACATT---ACGAGA
*
89827973 GCTAGTGTAAGACATGTCTGGGATATGCATCG
1 GCTAGTGTAAGACATGTCTGGGACATGCATCG
89828005 GTCTCGAGAT
Statistics
Matches: 69, Mismatches: 6, Indels: 10
0.81 0.07 0.12
Matches are distributed among these distances:
45 5 0.07
46 17 0.25
47 26 0.38
48 21 0.30
ACGTcount: A:0.29, C:0.20, G:0.29, T:0.22
Consensus pattern (44 bp):
GCTAGTGTAAGACATGTCTGGGACATGCATCGCACATTACGAGA
Found at i:89828051 original size:46 final size:46
Alignment explanation
Indices: 89827976--89828097 Score: 140
Period size: 46 Copynumber: 2.6 Consensus size: 46
89827966 GACGAGAGCT
* * **
89827976 AGTGTAAGACATGTCTGGGATATGCATC-GGTCTCGAGAT-GTAAGCC
1 AGTGTAAGACATGTCTGAGACATGCATCGGGT-AAGAGATGGT-AGCC
* *
89828022 AGTGTAAGACATGTCTAAGACATGCATCGGGTAAGAGATGGTAGTC
1 AGTGTAAGACATGTCTGAGACATGCATCGGGTAAGAGATGGTAGCC
89828068 AGTGTAAGACCATGTCTGAGACATGGCATC
1 AGTGTAAGA-CATGTCTGAGACAT-GCATC
89828098 AACTTGAGAT
Statistics
Matches: 65, Mismatches: 7, Indels: 6
0.83 0.09 0.08
Matches are distributed among these distances:
46 42 0.65
47 18 0.28
48 5 0.08
ACGTcount: A:0.30, C:0.16, G:0.30, T:0.25
Consensus pattern (46 bp):
AGTGTAAGACATGTCTGAGACATGCATCGGGTAAGAGATGGTAGCC
Found at i:89828107 original size:47 final size:47
Alignment explanation
Indices: 89827924--89828147 Score: 192
Period size: 47 Copynumber: 4.8 Consensus size: 47
89827914 ACATTATGAG
* *
89827924 AGCCAGTGTAAGACCATGTCCGGGACATGGCATCGACATTGAGACG-A
1 AGCCAGTGTAAGACCATGTCTGGGACATGGCATCGAC-TTGAGATGTA
* * * *
89827971 GAGCTAGTGTAAGA-CATGTCTGGGATAT-GCATCGGTCTCGAGATGTA
1 -AGCCAGTGTAAGACCATGTCTGGGACATGGCATC-GACTTGAGATGTA
** ** *
89828018 AGCCAGTGTAAGA-CATGTCTAAGACAT-GCATCGGGTAAGAGATGGT-
1 AGCCAGTGTAAGACCATGTCTGGGACATGGCATCGACT-TGAGAT-GTA
* * *
89828064 AGTCAGTGTAAGACCATGTCTGAGACATGGCATCAACTTGAGATGTGA
1 AGCCAGTGTAAGACCATGTCTGGGACATGGCATCGACTTGAGATGT-A
* * *
89828112 A-CCAGTATAAGGCCATGTCTGGGATATGGCATCGAC
1 AGCCAGTGTAAGACCATGTCTGGGACATGGCATCGAC
89828148 ACTTTACCTA
Statistics
Matches: 143, Mismatches: 25, Indels: 17
0.77 0.14 0.09
Matches are distributed among these distances:
45 2 0.01
46 58 0.41
47 64 0.45
48 19 0.13
ACGTcount: A:0.29, C:0.18, G:0.29, T:0.23
Consensus pattern (47 bp):
AGCCAGTGTAAGACCATGTCTGGGACATGGCATCGACTTGAGATGTA
Found at i:89829949 original size:30 final size:30
Alignment explanation
Indices: 89829915--89829998 Score: 105
Period size: 30 Copynumber: 2.8 Consensus size: 30
89829905 TAGGCACGTC
* *
89829915 CACACGGGTAAACTACACGCCCGTGTGAGG
1 CACACGGGTAAACCACACGCCCATGTGAGG
* *
89829945 CACACGAGTAAACCACATGCCCATGTGAGG
1 CACACGGGTAAACCACACGCCCATGTGAGG
* * *
89829975 CACACGGGCAGACCACATGCCCAT
1 CACACGGGTAAACCACACGCCCAT
89829999 ATGTCATGGC
Statistics
Matches: 47, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 47 1.00
ACGTcount: A:0.30, C:0.33, G:0.25, T:0.12
Consensus pattern (30 bp):
CACACGGGTAAACCACACGCCCATGTGAGG
Found at i:89834896 original size:18 final size:17
Alignment explanation
Indices: 89834843--89834908 Score: 53
Period size: 17 Copynumber: 3.8 Consensus size: 17
89834833 TCTTTATTTC
* *
89834843 ATTTATTTTTATTCTTAA
1 ATTTATTTTTGTTCTT-T
**
89834861 ATTTTATTTTTCAT-TTT
1 A-TTTATTTTTGTTCTTT
*
89834878 ATTTCTATTTTGTTCTTT
1 ATTTAT-TTTTGTTCTTT
89834896 ATTTATTTTTGTT
1 ATTTATTTTTGTT
89834909 TATTTTCTTT
Statistics
Matches: 38, Mismatches: 7, Indels: 7
0.73 0.13 0.13
Matches are distributed among these distances:
16 4 0.11
17 13 0.34
18 11 0.29
19 10 0.26
ACGTcount: A:0.18, C:0.06, G:0.03, T:0.73
Consensus pattern (17 bp):
ATTTATTTTTGTTCTTT
Found at i:89836544 original size:5 final size:6
Alignment explanation
Indices: 89836526--89836561 Score: 65
Period size: 6 Copynumber: 6.2 Consensus size: 6
89836516 TATTTTCCTA
89836526 TTATTT TTATTT TTATTT TTATTT TTA-TT TTATTT T
1 TTATTT TTATTT TTATTT TTATTT TTATTT TTATTT T
89836562 GTCTCTTATT
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
5 5 0.17
6 24 0.83
ACGTcount: A:0.17, C:0.00, G:0.00, T:0.83
Consensus pattern (6 bp):
TTATTT
Found at i:89836547 original size:18 final size:17
Alignment explanation
Indices: 89836526--89836561 Score: 63
Period size: 17 Copynumber: 2.1 Consensus size: 17
89836516 TATTTTCCTA
89836526 TTATTTTTATTTTTATTT
1 TTATTTTTA-TTTTATTT
89836544 TTATTTTTATTTTATTT
1 TTATTTTTATTTTATTT
89836561 T
1 T
89836562 GTCTCTTATT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
17 9 0.50
18 9 0.50
ACGTcount: A:0.17, C:0.00, G:0.00, T:0.83
Consensus pattern (17 bp):
TTATTTTTATTTTATTT
Found at i:89837567 original size:4 final size:4
Alignment explanation
Indices: 89837558--89838196 Score: 873
Period size: 4 Copynumber: 159.8 Consensus size: 4
89837548 ATTCTTAAAA
* * *
89837558 ATAC ATAC ATAC ATAC ATAC ATAC GTAC ATAC CTAC ATAC GTAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
* * * * * *
89837606 GTAC ATAC ATAC ATAC ATAC GTAC GTAC GTAC ATAC GTAC ATAC CTAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
* * * * * * *
89837654 GTAC ATAC ATAC ATAC GTAC ATAT GTAC GTAC ATAC TTAC GTAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
* *
89837702 GTAC GTAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
* *
89837750 ACAT ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
* * *
89837798 ATAC ATAC ATAC ATAC ATAC ATAC ATAC GTAC GTAC ATAC ATAC GTAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
* * * * *
89837846 GTAC ATAC GTAC ATAC ATAC ATAC ATAC ATAT GTAC GTAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
* * * * * * *
89837894 GTAT GTAC ATAC GTAT ATAC ATAC GTAC GTAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
89837942 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
* * *
89837990 ATAC ATAC ATAC GTAC ATAC ATAC ATAC ATAC ATAC GTAC GTAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
* * * *
89838038 ATAC ATAC ATAC ATAC ATAC ATAC GTAC GTAC ATAC GTAC ATAT ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
*
89838086 GTAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
* *
89838134 ATAC ATAC GTAC ATAC ATAC ATAC ATAC ATAC GTAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
89838182 ATAC ATAC ATAC ATA
1 ATAC ATAC ATAC ATA
89838197 TTGGTAGTAA
Statistics
Matches: 569, Mismatches: 66, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
4 569 1.00
ACGTcount: A:0.44, C:0.24, G:0.05, T:0.26
Consensus pattern (4 bp):
ATAC
Found at i:89861318 original size:52 final size:48
Alignment explanation
Indices: 89861199--89861332 Score: 142
Period size: 49 Copynumber: 2.7 Consensus size: 48
89861189 ATAAGTTACC
* *
89861199 GATGCCATGTCCCAGACATGGTCTTACACTGGCTATCGTCATTGAGGCT
1 GATGCCATGT-CCAGACATGGTCTTACACTAGCTATCGTCATTCAGGCT
* * * *
89861248 GATGCCATATCCTAGACATGGTCTTACACTAGCTCTCGTATATATACATGCT
1 GATGCCATGTCC-AGACATGGTCTTACACTAGCTATCGT-CAT-T-CAGGCT
* *
89861300 GATGCCATGTCTCAGACATGGCCTTATACTAGC
1 GATGCCATGTC-CAGACATGGTCTTACACTAGC
89861333 ACAACTCTTA
Statistics
Matches: 71, Mismatches: 9, Indels: 7
0.82 0.10 0.08
Matches are distributed among these distances:
48 2 0.03
49 33 0.46
50 2 0.03
51 1 0.01
52 32 0.45
53 1 0.01
ACGTcount: A:0.24, C:0.26, G:0.20, T:0.30
Consensus pattern (48 bp):
GATGCCATGTCCAGACATGGTCTTACACTAGCTATCGTCATTCAGGCT
Found at i:89874942 original size:58 final size:58
Alignment explanation
Indices: 89874801--89874947 Score: 172
Period size: 57 Copynumber: 2.6 Consensus size: 58
89874791 ACACATAACA
* * * * ** * *
89874801 TATAACAGGATTACCAGTTCAGGTTAAATCTTTTTTGTAATATATGCTCAGAAGAGCT
1 TATATCAGGATTACCAGTCCAGGCTAAATCCTAATTGTAACATATGCTCAGAAGAGAT
* * *
89874859 TAT-TTAGGATTACCAGTCTAGGCTAAATCCTAATTGTAACATATGCTCGAGAGGA-AT
1 TATATCAGGATTACCAGTCCAGGCTAAATCCTAATTGTAACATATGCTC-AGAAGAGAT
89874916 TATATCAGGATTACCAGTCCAGGCTAAATCCT
1 TATATCAGGATTACCAGTCCAGGCTAAATCCT
89874948 GTCAGCAACA
Statistics
Matches: 74, Mismatches: 13, Indels: 4
0.81 0.14 0.04
Matches are distributed among these distances:
57 40 0.54
58 34 0.46
ACGTcount: A:0.33, C:0.17, G:0.18, T:0.33
Consensus pattern (58 bp):
TATATCAGGATTACCAGTCCAGGCTAAATCCTAATTGTAACATATGCTCAGAAGAGAT
Found at i:89877363 original size:39 final size:39
Alignment explanation
Indices: 89877309--89877387 Score: 149
Period size: 39 Copynumber: 2.0 Consensus size: 39
89877299 ATTGGCTGTA
89877309 ATAGTCCAAAAGGCAACTGATGTTTAGCTTTTACTTGCT
1 ATAGTCCAAAAGGCAACTGATGTTTAGCTTTTACTTGCT
*
89877348 ATAGTCCAGAAGGCAACTGATGTTTAGCTTTTACTTGCT
1 ATAGTCCAAAAGGCAACTGATGTTTAGCTTTTACTTGCT
89877387 A
1 A
89877388 ACATAACAAA
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
39 39 1.00
ACGTcount: A:0.28, C:0.18, G:0.19, T:0.35
Consensus pattern (39 bp):
ATAGTCCAAAAGGCAACTGATGTTTAGCTTTTACTTGCT
Found at i:89884669 original size:26 final size:26
Alignment explanation
Indices: 89884618--89884671 Score: 65
Period size: 26 Copynumber: 2.1 Consensus size: 26
89884608 TTAAATATTC
* *
89884618 AATTTCTTTTATTTTAATTTACTTTA
1 AATTACTTTTATTTTAATTTAATTTA
*
89884644 AATTACTTTTATTTT-TTATTAATTTA
1 AATTACTTTTATTTTAAT-TTAATTTA
89884670 AA
1 AA
89884672 ATAATGAATT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
25 1 0.04
26 23 0.96
ACGTcount: A:0.31, C:0.06, G:0.00, T:0.63
Consensus pattern (26 bp):
AATTACTTTTATTTTAATTTAATTTA
Found at i:89887276 original size:30 final size:31
Alignment explanation
Indices: 89887233--89887323 Score: 98
Period size: 30 Copynumber: 3.0 Consensus size: 31
89887223 ATATGGGCAT
89887233 TAAT-ATTCATATTTACATATGCATA-CCTG
1 TAATCATTCATATTTACATATGCATACCCTG
* * *
89887262 TAATCATTCTTATTTGCATATTCATACCCTG
1 TAATCATTCATATTTACATATGCATACCCTG
* * * *
89887293 TAATCATTTACATTTACCTAT-CATACACTG
1 TAATCATTCATATTTACATATGCATACCCTG
89887323 T
1 T
89887324 GTTCGGTCAC
Statistics
Matches: 51, Mismatches: 9, Indels: 3
0.81 0.14 0.05
Matches are distributed among these distances:
29 4 0.08
30 27 0.53
31 20 0.39
ACGTcount: A:0.31, C:0.21, G:0.05, T:0.43
Consensus pattern (31 bp):
TAATCATTCATATTTACATATGCATACCCTG
Found at i:89893553 original size:77 final size:77
Alignment explanation
Indices: 89893426--89893583 Score: 298
Period size: 77 Copynumber: 2.1 Consensus size: 77
89893416 GCTAAGGCCC
*
89893426 TTGTGCATACTGATACTGATACTGAAAGGGGCTTAGGCCTAAGACTGTTTTTGACTGTGCACTGT
1 TTGTGCATACTGATACTGATACTGAAAGGGGCTTAGGCCCAAGACTGTTTTTGACTGTGCACTGT
89893491 GTTTACTGTTGT
66 GTTTACTGTTGT
*
89893503 TTGTGCATACTGATACTGATACTGAAAGGGGCTTAGGCCCAAGACTGTTTTTTACTGTGCACTGT
1 TTGTGCATACTGATACTGATACTGAAAGGGGCTTAGGCCCAAGACTGTTTTTGACTGTGCACTGT
89893568 GTTTACTGTTGT
66 GTTTACTGTTGT
89893580 TTGT
1 TTGT
89893584 TTTCTTTAGA
Statistics
Matches: 79, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
77 79 1.00
ACGTcount: A:0.20, C:0.16, G:0.25, T:0.39
Consensus pattern (77 bp):
TTGTGCATACTGATACTGATACTGAAAGGGGCTTAGGCCCAAGACTGTTTTTGACTGTGCACTGT
GTTTACTGTTGT
Found at i:89899763 original size:20 final size:20
Alignment explanation
Indices: 89899740--89899778 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
89899730 TTGACTAGTT
*
89899740 AAAAGAATTTTTACTTGATC
1 AAAAGAATTTTAACTTGATC
**
89899760 AAAATCATTTTAACTTGAT
1 AAAAGAATTTTAACTTGAT
89899779 TTTAAAGTTG
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.41, C:0.10, G:0.08, T:0.41
Consensus pattern (20 bp):
AAAAGAATTTTAACTTGATC
Found at i:89910080 original size:29 final size:29
Alignment explanation
Indices: 89910037--89910132 Score: 131
Period size: 29 Copynumber: 3.3 Consensus size: 29
89910027 GAAAGCATGT
89910037 ATATGAATGTGATTTGGGCCTAATGGGCC
1 ATATGAATGTGATTTGGGCCTAATGGGCC
* ** *
89910066 GTATGAATGTGATTTGGGTATAACGGGCC
1 ATATGAATGTGATTTGGGCCTAATGGGCC
*
89910095 ATATGAATGAGA-TTGGGCCTAATGGGCC
1 ATATGAATGTGATTTGGGCCTAATGGGCC
*
89910123 ATATGCATGT
1 ATATGAATGT
89910133 TTGTAGACTT
Statistics
Matches: 56, Mismatches: 11, Indels: 1
0.82 0.16 0.01
Matches are distributed among these distances:
28 21 0.38
29 35 0.62
ACGTcount: A:0.26, C:0.12, G:0.31, T:0.30
Consensus pattern (29 bp):
ATATGAATGTGATTTGGGCCTAATGGGCC
Found at i:89917032 original size:29 final size:29
Alignment explanation
Indices: 89916989--89917084 Score: 122
Period size: 29 Copynumber: 3.3 Consensus size: 29
89916979 GAAAGCATGT
89916989 ATATGAATGTGATTTGGGCCTAATGGGCC
1 ATATGAATGTGATTTGGGCCTAATGGGCC
* ** **
89917018 GTATGAATGTGATTTGGGTATAACAGGCC
1 ATATGAATGTGATTTGGGCCTAATGGGCC
*
89917047 ATATGAATGAGA-TTGGGCCTAATGGGCC
1 ATATGAATGTGATTTGGGCCTAATGGGCC
*
89917075 ATATGCATGT
1 ATATGAATGT
89917085 TTGTAGACTT
Statistics
Matches: 54, Mismatches: 13, Indels: 1
0.79 0.19 0.01
Matches are distributed among these distances:
28 20 0.37
29 34 0.63
ACGTcount: A:0.27, C:0.12, G:0.30, T:0.30
Consensus pattern (29 bp):
ATATGAATGTGATTTGGGCCTAATGGGCC
Found at i:89920246 original size:30 final size:30
Alignment explanation
Indices: 89920210--89920267 Score: 116
Period size: 30 Copynumber: 1.9 Consensus size: 30
89920200 TCTAGAAATC
89920210 AAAGGAGAAAAACCAAGACCAAATCATCTT
1 AAAGGAGAAAAACCAAGACCAAATCATCTT
89920240 AAAGGAGAAAAACCAAGACCAAATCATC
1 AAAGGAGAAAAACCAAGACCAAATCATC
89920268 AAACTTTTAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.55, C:0.21, G:0.14, T:0.10
Consensus pattern (30 bp):
AAAGGAGAAAAACCAAGACCAAATCATCTT
Found at i:89923701 original size:18 final size:17
Alignment explanation
Indices: 89923670--89923704 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
89923660 AAAATGTTGC
89923670 ATTTTTATTCTATTTTT
1 ATTTTTATTCTATTTTT
*
89923687 ATTTTTCATTTTATTTTT
1 ATTTTT-ATTCTATTTTT
89923705 TATTCGATTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.17, C:0.06, G:0.00, T:0.77
Consensus pattern (17 bp):
ATTTTTATTCTATTTTT
Found at i:89924499 original size:14 final size:14
Alignment explanation
Indices: 89924480--89924506 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
89924470 CTTTTTTAAT
89924480 TTTTTATTTATTTA
1 TTTTTATTTATTTA
89924494 TTTTTATTTATTT
1 TTTTTATTTATTT
89924507 TAATAGTTTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (14 bp):
TTTTTATTTATTTA
Found at i:89924550 original size:44 final size:44
Alignment explanation
Indices: 89924495--89924595 Score: 159
Period size: 44 Copynumber: 2.3 Consensus size: 44
89924485 ATTTATTTAT
*
89924495 TTTTATTTATTTTAATAG-TTTTATATATTATTCATTTTAAACTA
1 TTTTATTTATTTTAA-AGTTTTTATATATTATTCATATTAAACTA
*
89924539 TTTTATTTATTTTAAAGTTTTTATATATTATTTATATTAAACTA
1 TTTTATTTATTTTAAAGTTTTTATATATTATTCATATTAAACTA
89924583 TTTTATATTATTT
1 TTTTAT-TTATTT
89924596 ATTTTAAATT
Statistics
Matches: 53, Mismatches: 2, Indels: 3
0.91 0.03 0.05
Matches are distributed among these distances:
43 2 0.04
44 45 0.85
45 6 0.11
ACGTcount: A:0.32, C:0.03, G:0.02, T:0.63
Consensus pattern (44 bp):
TTTTATTTATTTTAAAGTTTTTATATATTATTCATATTAAACTA
Found at i:89924562 original size:18 final size:18
Alignment explanation
Indices: 89924494--89924567 Score: 58
Period size: 18 Copynumber: 3.7 Consensus size: 18
89924484 TATTTATTTA
89924494 TTTTTATTTATTTTAATAG
1 TTTTTATTTATTTTAA-AG
*
89924513 TTTTATATATTATTCATTTTAAAC
1 -TTT-T-TA-T-TT-ATTTTAAAG
89924537 TATTTTATTTATTTTAAAG
1 T-TTTTATTTATTTTAAAG
*
89924556 TTTTTATATATT
1 TTTTTATTTATT
89924568 ATTTATATTA
Statistics
Matches: 45, Mismatches: 3, Indels: 14
0.73 0.05 0.23
Matches are distributed among these distances:
18 10 0.22
19 9 0.20
20 5 0.11
21 2 0.04
22 4 0.09
23 3 0.07
24 5 0.11
25 7 0.16
ACGTcount: A:0.30, C:0.03, G:0.03, T:0.65
Consensus pattern (18 bp):
TTTTTATTTATTTTAAAG
Found at i:89924645 original size:21 final size:23
Alignment explanation
Indices: 89924591--89924644 Score: 74
Period size: 23 Copynumber: 2.4 Consensus size: 23
89924581 TATTTTATAT
* *
89924591 TATTTATTTTAAATTTTTTTAGA
1 TATTTATTTTAAATTGTTTCAGA
*
89924614 TATTTATTTTAAATTGTTTCATA
1 TATTTATTTTAAATTGTTTCAGA
89924637 TA-TTATTT
1 TATTTATTT
89924645 ATTTTGGAGT
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
22 6 0.21
23 22 0.79
ACGTcount: A:0.30, C:0.02, G:0.04, T:0.65
Consensus pattern (23 bp):
TATTTATTTTAAATTGTTTCAGA
Found at i:89924662 original size:73 final size:74
Alignment explanation
Indices: 89924542--89924679 Score: 183
Period size: 73 Copynumber: 1.9 Consensus size: 74
89924532 TAAACTATTT
*
89924542 TATTTATTTTAAAGTTTTTATATATTATTTATATTAAACTATTTTAT-ATTA-TTTATTTTAAAT
1 TATTTATTTTAAAGTTTTTATATATTATTTATATTAAACTACTTTATAATTATTTTATTTTAAAT
89924605 TTTTTTAGA
66 TTTTTTAGA
* ** *
89924614 TATTTATTTTAAA-TTGTTTCATATATTATTTATTTTGGAGTACTTTATACATTATTTTATTTTA
1 TATTTATTTTAAAGTT-TTT-ATATATTATTTATATTAAACTACTTTATA-ATTATTTTATTTTA
89924678 AA
63 AA
89924680 ACTGTTTCAT
Statistics
Matches: 56, Mismatches: 5, Indels: 6
0.84 0.07 0.09
Matches are distributed among these distances:
71 2 0.04
72 16 0.29
73 23 0.41
75 4 0.07
76 11 0.20
ACGTcount: A:0.32, C:0.03, G:0.04, T:0.61
Consensus pattern (74 bp):
TATTTATTTTAAAGTTTTTATATATTATTTATATTAAACTACTTTATAATTATTTTATTTTAAAT
TTTTTTAGA
Found at i:89924721 original size:53 final size:51
Alignment explanation
Indices: 89924541--89924814 Score: 165
Period size: 49 Copynumber: 5.4 Consensus size: 51
89924531 TTAAACTATT
* * * *
89924541 TTATTTATTTTAAAGTTTTTATATATTA-TTTATATTAAACTATTT--TATA
1 TTATTTATTTT-AATTTTTTATACATTATTTTATTTTAAACTGTTTCATATA
* *
89924590 TTATTTATTTTAAATTTTTT-TAGA-TA-TTTATTTTAAATTGTTTCATATA
1 TTATTTATTTT-AATTTTTTATACATTATTTTATTTTAAACTGTTTCATATA
* **
89924639 TTATTTATTTTGGAGTACTTTATACATTATTTTATTTTAAAACTGTTTCATAAATA
1 TTATTTATTTT--AATTTTTTATACATTATTTTATTTT-AAACTGTTTCAT--ATA
* * ** *
89924695 TTATTTATTTT-ATTTTTTACATATTATTTCT-TTAAAAAAATGCTTT-ATATA
1 TTATTTATTTTAATTTTTTATACATTATTT-TATT-TTAAACTG-TTTCATATA
** * * ** *
89924746 TTATTTATTTTAAATTGCTT-TAGATT-TTTTATTTCAAACTGTTTTGTATT
1 TTATTTATTTT-AATTTTTTATACATTATTTTATTTTAAACTGTTTCATATA
* *
89924796 TTATTTATGTTAGTTTTTT
1 TTATTTATTTTAATTTTTT
89924815 TGTTTTCATA
Statistics
Matches: 177, Mismatches: 32, Indels: 32
0.73 0.13 0.13
Matches are distributed among these distances:
47 16 0.09
48 3 0.02
49 42 0.24
50 24 0.14
51 22 0.12
52 6 0.03
53 35 0.20
54 15 0.08
56 14 0.08
ACGTcount: A:0.30, C:0.04, G:0.05, T:0.61
Consensus pattern (51 bp):
TTATTTATTTTAATTTTTTATACATTATTTTATTTTAAACTGTTTCATATA
Found at i:89938577 original size:15 final size:15
Alignment explanation
Indices: 89938557--89938590 Score: 68
Period size: 15 Copynumber: 2.3 Consensus size: 15
89938547 AATATTTTGA
89938557 TAATAAAATCATAGG
1 TAATAAAATCATAGG
89938572 TAATAAAATCATAGG
1 TAATAAAATCATAGG
89938587 TAAT
1 TAAT
89938591 CTCCTTCCTC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.53, C:0.06, G:0.12, T:0.29
Consensus pattern (15 bp):
TAATAAAATCATAGG
Found at i:89940104 original size:6 final size:6
Alignment explanation
Indices: 89940079--89940121 Score: 61
Period size: 6 Copynumber: 7.3 Consensus size: 6
89940069 AAAAGAAAAT
* *
89940079 AATAAA AAT-GA AATAAA AATATA AATAAA AATAAA AATAAA AA
1 AATAAA AATAAA AATAAA AATAAA AATAAA AATAAA AATAAA AA
89940122 GATAGGACGA
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
5 4 0.12
6 28 0.88
ACGTcount: A:0.79, C:0.00, G:0.02, T:0.19
Consensus pattern (6 bp):
AATAAA
Found at i:89941471 original size:17 final size:17
Alignment explanation
Indices: 89941446--89941481 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
89941436 TTGTTTATTA
*
89941446 AATTGACTAACTAAACT
1 AATTAACTAACTAAACT
*
89941463 AATTAACTAATTAAACT
1 AATTAACTAACTAAACT
89941480 AA
1 AA
89941482 AGCAAAGAGA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.53, C:0.14, G:0.03, T:0.31
Consensus pattern (17 bp):
AATTAACTAACTAAACT
Found at i:89945919 original size:282 final size:282
Alignment explanation
Indices: 89945409--89945971 Score: 1009
Period size: 282 Copynumber: 2.0 Consensus size: 282
89945399 CCATAAGGAT
**
89945409 GTTTGTTGAACACATGGTAATAGTTTTACAATGGCCAGAAAAATTATAAGATTTAGGTATTATTG
1 GTTTGTTGAACACATACTAATAGTTTTACAATGGCCAGAAAAATTATAAGATTTAGGTATTATTG
89945474 GTCCACCATGGAAGGGGATTGTACAAATTATGCCAAGAGATGTCATAAGTGCCAAATTTATGGAG
66 GTCCACCATGGAAGGGGATTGTACAAATTATGCCAAGAGATGTCATAAGTGCCAAATTTATGGAG
89945539 ACAAAATTCATGTGTCTCATTTACCTCTTCACGTTATGACTTCTCCATGGCCTTTCTCTATGTGG
131 ACAAAATTCATGTGTCTCATTTACCTCTTCACGTTATGACTTCTCCATGGCCTTTCTCTATGTGG
* * *
89945604 GGCATAGACGTGATTGGACCAATATTTCCAAAAGATTCCAATGGGCATCGATTCATCTTTCTGGT
196 GGCATAGACGTGATTGGACCAATATTGCCAAAAGATTCCAATGGGCATCAATTCATCTTTCTGAT
89945669 CATCAATTACTTCACCAAGTGC
261 CATCAATTACTTCACCAAGTGC
* * *
89945691 GTTTGTTGAACACATACTAATAGTTTTACAATGGCCGGGAAAATTATGAGATTTAGGTATTATTG
1 GTTTGTTGAACACATACTAATAGTTTTACAATGGCCAGAAAAATTATAAGATTTAGGTATTATTG
*
89945756 GTCTACCATGGAAGGGGATTGTACAAATTATGCCAAGAGATGTCATAAGTGCCAAATTTATGGAG
66 GTCCACCATGGAAGGGGATTGTACAAATTATGCCAAGAGATGTCATAAGTGCCAAATTTATGGAG
89945821 ACAAAATTCATGTGTCTCATTTACCTCTTCACGTTATGACTTCTCCATGGCCTTTCTCTATGTGG
131 ACAAAATTCATGTGTCTCATTTACCTCTTCACGTTATGACTTCTCCATGGCCTTTCTCTATGTGG
* * *
89945886 GGCATGGACGTGATTGGGCCAATATTGCCAAAAGCTTCCAATGGGCATCAATTCATCTTTCTGAT
196 GGCATAGACGTGATTGGACCAATATTGCCAAAAGATTCCAATGGGCATCAATTCATCTTTCTGAT
*
89945951 CATCGATTACTTCACCAAGTG
261 CATCAATTACTTCACCAAGTG
89945972 GGTAGAAGTC
Statistics
Matches: 268, Mismatches: 13, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
282 268 1.00
ACGTcount: A:0.29, C:0.18, G:0.20, T:0.33
Consensus pattern (282 bp):
GTTTGTTGAACACATACTAATAGTTTTACAATGGCCAGAAAAATTATAAGATTTAGGTATTATTG
GTCCACCATGGAAGGGGATTGTACAAATTATGCCAAGAGATGTCATAAGTGCCAAATTTATGGAG
ACAAAATTCATGTGTCTCATTTACCTCTTCACGTTATGACTTCTCCATGGCCTTTCTCTATGTGG
GGCATAGACGTGATTGGACCAATATTGCCAAAAGATTCCAATGGGCATCAATTCATCTTTCTGAT
CATCAATTACTTCACCAAGTGC
Found at i:89948555 original size:6 final size:6
Alignment explanation
Indices: 89948544--89948590 Score: 85
Period size: 6 Copynumber: 7.7 Consensus size: 6
89948534 TTTTATTCTG
89948544 TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TTTTTTA TTTT
1 TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA -TTTTTA TTTT
89948591 GGAATACTTT
Statistics
Matches: 40, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
6 34 0.85
7 6 0.15
ACGTcount: A:0.15, C:0.00, G:0.00, T:0.85
Consensus pattern (6 bp):
TTTTTA
Found at i:89948637 original size:27 final size:28
Alignment explanation
Indices: 89948610--89948702 Score: 70
Period size: 29 Copynumber: 3.4 Consensus size: 28
89948600 TATACATTAT
89948610 TTTATTTTAAAATTGTTTCATATATATTA
1 TTTATTTTAAAATTGTTTCATATATA-TA
* * *
89948639 TTTATTTTATATTTTTTTACATAT-TAT-
1 TTTATTTTAAAATTGTTT-CATATATATA
* * *
89948666 TTCA-TTAAAAAATGCTTT-ATATAT-TA
1 TTTATTTTAAAATTG-TTTCATATATATA
89948692 TTTATTTTAAA
1 TTTATTTTAAA
89948703 TTGCTTTAGA
Statistics
Matches: 48, Mismatches: 11, Indels: 12
0.68 0.15 0.17
Matches are distributed among these distances:
25 5 0.10
26 9 0.19
27 11 0.23
28 1 0.02
29 17 0.35
30 5 0.10
ACGTcount: A:0.34, C:0.04, G:0.02, T:0.59
Consensus pattern (28 bp):
TTTATTTTAAAATTGTTTCATATATATA
Done.