Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A05
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: 102776486
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2328156 characters in sequence are not A, C, G, or T
File 178 of 325
Found at i:56155030 original size:31 final size:31
Alignment explanation
Indices: 56154989--56155049 Score: 95
Period size: 31 Copynumber: 2.0 Consensus size: 31
56154979 TTTCATATTT
*
56154989 CATATTTCATAACACTGGGCCGAAGCCTTTC
1 CATATCTCATAACACTGGGCCGAAGCCTTTC
**
56155020 CATATCTCATATTACTGGGCCGAAGCCTTT
1 CATATCTCATAACACTGGGCCGAAGCCTTT
56155050 ACTGTAAACG
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 27 1.00
ACGTcount: A:0.25, C:0.28, G:0.16, T:0.31
Consensus pattern (31 bp):
CATATCTCATAACACTGGGCCGAAGCCTTTC
Found at i:56155324 original size:25 final size:24
Alignment explanation
Indices: 56155243--56155339 Score: 117
Period size: 25 Copynumber: 4.0 Consensus size: 24
56155233 GCTTTTTCAT
*
56155243 ATAACTGGAGGCCT-AGCCTCTTTTA
1 ATAACTGG-GGCATAAGCC-CTTTTA
*
56155268 ATAACTAGGGCA-AAGCCCTTTTA
1 ATAACTGGGGCATAAGCCCTTTTA
* *
56155291 ATAACTGGGGTATAAGCCCTTTATC
1 ATAACTGGGGCATAAGCCCTTT-TA
56155316 ATAACTGGGGCATAAGCCCTTTTA
1 ATAACTGGGGCATAAGCCCTTTTA
56155340 CACTTCCTCC
Statistics
Matches: 62, Mismatches: 7, Indels: 7
0.82 0.09 0.09
Matches are distributed among these distances:
23 16 0.26
24 17 0.27
25 29 0.47
ACGTcount: A:0.29, C:0.22, G:0.20, T:0.30
Consensus pattern (24 bp):
ATAACTGGGGCATAAGCCCTTTTA
Found at i:56155413 original size:20 final size:20
Alignment explanation
Indices: 56155388--56155434 Score: 85
Period size: 20 Copynumber: 2.4 Consensus size: 20
56155378 TTATGAATAC
56155388 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
56155408 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
*
56155428 ACCATGT
1 ATCATGT
56155435 TTATCAAAAT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.34, C:0.21, G:0.11, T:0.34
Consensus pattern (20 bp):
ATCATGTGCATATCATACAT
Found at i:56157172 original size:39 final size:39
Alignment explanation
Indices: 56157118--56157298 Score: 274
Period size: 39 Copynumber: 4.6 Consensus size: 39
56157108 TCGGTTGATA
* **
56157118 ACCGGGCTAGGTCCCGAAGGCATTCGTGCGAGTTATTAT
1 ACCGGGCTAAGTCCCGAAGGCATTTATGCGAGTTATTAT
56157157 ACCGGGCTAAGTCCCGAAGGCATTTATGCGAGTTATTAT
1 ACCGGGCTAAGTCCCGAAGGCATTTATGCGAGTTATTAT
*
56157196 ACCAGGCTAAGTCCCGAAGGCA-TTATGCGAGTTATTAT
1 ACCGGGCTAAGTCCCGAAGGCATTTATGCGAGTTATTAT
* * *
56157234 ACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTCACTAT
1 ACCGGGCTAAGTCCCGAAGGCATTTATGCGAGTTATTAT
*
56157273 AACCAGGCTAAGTCCCGAAGGCATTT
1 -ACCGGGCTAAGTCCCGAAGGCATTT
56157299 GAGCTAGTGG
Statistics
Matches: 131, Mismatches: 9, Indels: 3
0.92 0.06 0.02
Matches are distributed among these distances:
38 37 0.28
39 70 0.53
40 24 0.18
ACGTcount: A:0.25, C:0.23, G:0.27, T:0.25
Consensus pattern (39 bp):
ACCGGGCTAAGTCCCGAAGGCATTTATGCGAGTTATTAT
Found at i:56157287 original size:78 final size:79
Alignment explanation
Indices: 56157115--56157297 Score: 298
Period size: 77 Copynumber: 2.3 Consensus size: 79
56157105 TATTCGGTTG
* * *
56157115 ATAACCGGGCTAGGTCCCGAAGGCATTCGTGCGAGTTATTATACCGGGCTAAGTCCCGAAGGCAT
1 ATAACCAGGCTAAGTCCCGAAGGCATTCATGCGAGTTATTATACCGGGCTAAGTCCCGAAGGCAT
* *
56157180 TTATGCGAGTTATT
66 TTATGCGAGTCACT
56157194 AT-ACCAGGCTAAGTCCCGAAGGCATT-ATGCGAGTTATTATACCGGGCTAAGTCCCGAAGGCAT
1 ATAACCAGGCTAAGTCCCGAAGGCATTCATGCGAGTTATTATACCGGGCTAAGTCCCGAAGGCAT
*
56157257 TTGTGCGAGTCACT
66 TTATGCGAGTCACT
56157271 ATAACCAGGCTAAGTCCCGAAGGCATT
1 ATAACCAGGCTAAGTCCCGAAGGCATT
56157298 TGAGCTAGTG
Statistics
Matches: 97, Mismatches: 6, Indels: 3
0.92 0.06 0.03
Matches are distributed among these distances:
77 49 0.51
78 46 0.47
79 2 0.02
ACGTcount: A:0.26, C:0.23, G:0.26, T:0.25
Consensus pattern (79 bp):
ATAACCAGGCTAAGTCCCGAAGGCATTCATGCGAGTTATTATACCGGGCTAAGTCCCGAAGGCAT
TTATGCGAGTCACT
Found at i:56157330 original size:117 final size:116
Alignment explanation
Indices: 56157118--56157332 Score: 283
Period size: 117 Copynumber: 1.8 Consensus size: 116
56157108 TCGGTTGATA
* * * *
56157118 ACCGGGCTAGGTCCCGAAGGCATTCGTGCGAGTTATTATACCGGGCTAAGTCCCGAAGGCATTTA
1 ACCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTCACTATACCAGGCTAAGTCCCGAAGGCATTTA
* * *
56157183 TGCGAGTTATTATACCAGGCTAAGTCCCGAAGGCATTATGCGAGTTATTAT
66 TGCGAGTGACTATACCAGGCTAACTCCCGAAGGCATTATGCGAGTTATTAT
*
56157234 ACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTCACTATAACCAGGCTAAGTCCCGAAGGCATTT
1 ACCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTCACTAT-ACCAGGCTAAGTCCCGAAGGCATTT
* *
56157299 GA-GCTAGTGGCTATATCC-GGCTAAACT-CCGAAGG
65 -ATGCGAGTGACTATA-CCAGGCT-AACTCCCGAAGG
56157333 TACTCGTTTG
Statistics
Matches: 85, Mismatches: 10, Indels: 7
0.83 0.10 0.07
Matches are distributed among these distances:
116 35 0.41
117 44 0.52
118 6 0.07
ACGTcount: A:0.26, C:0.23, G:0.27, T:0.24
Consensus pattern (116 bp):
ACCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTCACTATACCAGGCTAAGTCCCGAAGGCATTTA
TGCGAGTGACTATACCAGGCTAACTCCCGAAGGCATTATGCGAGTTATTAT
Found at i:56157332 original size:39 final size:40
Alignment explanation
Indices: 56157115--56157332 Score: 155
Period size: 39 Copynumber: 5.6 Consensus size: 40
56157105 TATTCGGTTG
* ** * * * *
56157115 ATAACCGGGCTAGGTCCCGAAGGCATTCGTGCGAGTTATT
1 ATAACCAGGCTAACTCCCGAAGGCATTTGAGCGAGTCACT
* * * *
56157155 AT-ACCGGGCTAAGTCCCGAAGGCATTT-ATGCGAGTTATT
1 ATAACCAGGCTAACTCCCGAAGGCATTTGA-GCGAGTCACT
* * *
56157194 AT-ACCAGGCTAAGTCCCGAAGGCA-TT-ATGCGAGTTATT
1 ATAACCAGGCTAACTCCCGAAGGCATTTGA-GCGAGTCACT
* * *
56157232 AT-ACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTCACT
1 ATAACCAGGCTAACTCCCGAAGGCATTTGAGCGAGTCACT
* * **
56157271 ATAACCAGGCTAAGTCCCGAAGGCATTTGAGCTAGTGGCT
1 ATAACCAGGCTAACTCCCGAAGGCATTTGAGCGAGTCACT
*
56157311 ATATCC-GGCTAAACT-CCGAAGG
1 ATAACCAGGCT-AACTCCCGAAGG
56157333 TACTCGTTTG
Statistics
Matches: 158, Mismatches: 15, Indels: 11
0.86 0.08 0.06
Matches are distributed among these distances:
38 37 0.23
39 79 0.50
40 42 0.27
ACGTcount: A:0.26, C:0.23, G:0.27, T:0.24
Consensus pattern (40 bp):
ATAACCAGGCTAACTCCCGAAGGCATTTGAGCGAGTCACT
Found at i:56163831 original size:25 final size:26
Alignment explanation
Indices: 56163797--56163845 Score: 73
Period size: 26 Copynumber: 1.9 Consensus size: 26
56163787 AAAGAAATGG
*
56163797 GAAAAAAAAAG-AGAAAGAAAATGAT
1 GAAAAAAAAAGAAGAAAAAAAATGAT
*
56163822 GAAAACAAAAGAAGAAAAAAAATG
1 GAAAAAAAAAGAAGAAAAAAAATG
56163846 TGTCCATCCT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 10 0.48
26 11 0.52
ACGTcount: A:0.73, C:0.02, G:0.18, T:0.06
Consensus pattern (26 bp):
GAAAAAAAAAGAAGAAAAAAAATGAT
Found at i:56165151 original size:38 final size:39
Alignment explanation
Indices: 56165084--56165223 Score: 203
Period size: 38 Copynumber: 3.6 Consensus size: 39
56165074 GTTGATAACC
* *
56165084 GGGCTAAGTCCCGAAGGCATTCGTGCGAGTTATTATACT
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTATTATACA
*
56165123 GGGCTAAGTCCCGAA-GCATTTATGCGAGTTATTATACA
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTATTATACA
* *
56165161 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTCACTATAACCA
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTATTAT-A-CA
56165202 -GGCTAAGTCCCGAAGGCATTTG
1 GGGCTAAGTCCCGAAGGCATTTG
56165224 AGCTAGTGGC
Statistics
Matches: 92, Mismatches: 6, Indels: 5
0.89 0.06 0.05
Matches are distributed among these distances:
38 35 0.38
39 32 0.35
40 23 0.25
41 2 0.02
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.26
Consensus pattern (39 bp):
GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTATTATACA
Found at i:56165237 original size:40 final size:40
Alignment explanation
Indices: 56165078--56165226 Score: 155
Period size: 39 Copynumber: 3.8 Consensus size: 40
56165068 TATTCGGTTG
* * * * *
56165078 ATAACCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTTATT
1 ATAACCAGGCTAAGTCCCGAAGGCATTTGAGCGAGTCACT
** * *
56165118 AT-ACTGGGCTAAGTCCCGAA-GCATTT-ATGCGAGTTATT
1 ATAACCAGGCTAAGTCCCGAAGGCATTTGA-GCGAGTCACT
*
56165156 AT-A-CAGGGCTAAGTCCCGAAGGCATTTGTGCGAGTCACT
1 ATAACCA-GGCTAAGTCCCGAAGGCATTTGAGCGAGTCACT
56165195 ATAACCAGGCTAAGTCCCGAAGGCATTTGAGC
1 ATAACCAGGCTAAGTCCCGAAGGCATTTGAGC
56165227 TAGTGGCTAT
Statistics
Matches: 94, Mismatches: 9, Indels: 12
0.82 0.08 0.10
Matches are distributed among these distances:
38 32 0.34
39 33 0.35
40 27 0.29
41 2 0.02
ACGTcount: A:0.27, C:0.22, G:0.26, T:0.25
Consensus pattern (40 bp):
ATAACCAGGCTAAGTCCCGAAGGCATTTGAGCGAGTCACT
Found at i:56166675 original size:25 final size:25
Alignment explanation
Indices: 56166629--56166676 Score: 60
Period size: 25 Copynumber: 1.9 Consensus size: 25
56166619 ATATTTAAAC
* * * *
56166629 CCTAGGGGTATAATGGTTATTTTTA
1 CCTAGGGGCAAAACGGTGATTTTTA
56166654 CCTAGGGGCAAAACGGTGATTTT
1 CCTAGGGGCAAAACGGTGATTTT
56166677 CATATTATAA
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 19 1.00
ACGTcount: A:0.25, C:0.12, G:0.27, T:0.35
Consensus pattern (25 bp):
CCTAGGGGCAAAACGGTGATTTTTA
Found at i:56173833 original size:24 final size:25
Alignment explanation
Indices: 56173806--56173868 Score: 85
Period size: 24 Copynumber: 2.6 Consensus size: 25
56173796 TCAACCGTAT
* * *
56173806 TCGCACACATAGTGCTA-ATTACAC
1 TCGCACACATAGTGCCATAGTAAAC
56173830 TCGCACACATAGTGCCATAGTAAAC
1 TCGCACACATAGTGCCATAGTAAAC
56173855 -CGCACACATAGTGC
1 TCGCACACATAGTGC
56173869 ATTGGATTTT
Statistics
Matches: 35, Mismatches: 3, Indels: 2
0.88 0.08 0.05
Matches are distributed among these distances:
24 30 0.86
25 5 0.14
ACGTcount: A:0.33, C:0.30, G:0.16, T:0.21
Consensus pattern (25 bp):
TCGCACACATAGTGCCATAGTAAAC
Found at i:56179940 original size:15 final size:15
Alignment explanation
Indices: 56179920--56179949 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
56179910 TGGCATGTTC
56179920 GCCATGGTTGTTGAT
1 GCCATGGTTGTTGAT
56179935 GCCATGGTTGTTGAT
1 GCCATGGTTGTTGAT
56179950 ATAGCTAAGT
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:0.13, G:0.33, T:0.40
Consensus pattern (15 bp):
GCCATGGTTGTTGAT
Found at i:56186247 original size:43 final size:41
Alignment explanation
Indices: 56186199--56186298 Score: 114
Period size: 42 Copynumber: 2.4 Consensus size: 41
56186189 TGTGTTTACA
56186199 TGTAAGACCATGTCTGGGACATTGGCAT-TGT-ATTGAAATTTTG
1 TGTAAGACCATGTCTGGGA-ATTGGCATAT-TAATTG--ATTTTG
* *
56186242 TGTAAGACCAAGTTTGGGAATTGGCATCATTAATTGATTTTG
1 TGTAAGACCATGTCTGGGAATTGGCAT-ATTAATTGATTTTG
*
56186284 TGTAAGACCCTGTCT
1 TGTAAGACCATGTCT
56186299 AGAACAGTGG
Statistics
Matches: 49, Mismatches: 5, Indels: 7
0.80 0.08 0.11
Matches are distributed among these distances:
42 26 0.53
43 18 0.37
44 5 0.10
ACGTcount: A:0.26, C:0.13, G:0.24, T:0.37
Consensus pattern (41 bp):
TGTAAGACCATGTCTGGGAATTGGCATATTAATTGATTTTG
Found at i:56191297 original size:14 final size:14
Alignment explanation
Indices: 56191280--56191319 Score: 53
Period size: 14 Copynumber: 2.7 Consensus size: 14
56191270 TTGGCAAAAC
56191280 ATTTTTCTTTTTCT
1 ATTTTTCTTTTTCT
56191294 ATTTTTCTTCTTTCT
1 ATTTTTCTT-TTTCT
*
56191309 TTGTTTTCTTT
1 AT-TTTTCTTT
56191320 CTTTTTGCCT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
14 9 0.39
15 7 0.30
16 7 0.30
ACGTcount: A:0.05, C:0.15, G:0.03, T:0.78
Consensus pattern (14 bp):
ATTTTTCTTTTTCT
Found at i:56194547 original size:12 final size:12
Alignment explanation
Indices: 56194516--56194548 Score: 50
Period size: 11 Copynumber: 2.8 Consensus size: 12
56194506 TTTAATATTA
*
56194516 AATTAATAAAAT
1 AATTATTAAAAT
56194528 AA-TATTAAAAT
1 AATTATTAAAAT
56194539 AATTATTAAA
1 AATTATTAAA
56194549 TAAAATTTAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
11 10 0.53
12 9 0.47
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (12 bp):
AATTATTAAAAT
Found at i:56197003 original size:6 final size:6
Alignment explanation
Indices: 56196992--56197020 Score: 58
Period size: 6 Copynumber: 4.8 Consensus size: 6
56196982 TAGGTTTCCA
56196992 AAAATG AAAATG AAAATG AAAATG AAAAT
1 AAAATG AAAATG AAAATG AAAATG AAAAT
56197021 TTGCAATCCT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.69, C:0.00, G:0.14, T:0.17
Consensus pattern (6 bp):
AAAATG
Found at i:56202381 original size:46 final size:46
Alignment explanation
Indices: 56202283--56202386 Score: 156
Period size: 47 Copynumber: 2.3 Consensus size: 46
56202273 TTGGGATGGT
56202283 AGGGGAGAGGGAAAGAATCAAAGTAGGAGAAGGGATGGTGGGGAAG
1 AGGGGAGAGGGAAAGAATCAAAGTAGGAGAAGGGATGGTGGGGAAG
* * * *
56202329 AGGGGAGAGGAGAGAGAATCACAGTAGGGGAAGGGGTGGTGGGGAAG
1 AGGGGAGAGG-GAAAGAATCAAAGTAGGAGAAGGGATGGTGGGGAAG
56202376 A-GGGAGAGGGA
1 AGGGGAGAGGGA
56202387 TGGAAGAGCA
Statistics
Matches: 53, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
45 2 0.04
46 18 0.34
47 33 0.62
ACGTcount: A:0.36, C:0.03, G:0.54, T:0.08
Consensus pattern (46 bp):
AGGGGAGAGGGAAAGAATCAAAGTAGGAGAAGGGATGGTGGGGAAG
Found at i:56222979 original size:37 final size:37
Alignment explanation
Indices: 56222918--56222996 Score: 113
Period size: 37 Copynumber: 2.1 Consensus size: 37
56222908 TTATTACGAA
* * *
56222918 GTCTTACCCGAACATAATCTCCACACGAAGTTATCGG
1 GTCTTACCCGAACAAAATCCCCACACGAAGTCATCGG
* *
56222955 GTCTTACCCGGACAAAATCCCCACACGTAGTCATCGG
1 GTCTTACCCGAACAAAATCCCCACACGAAGTCATCGG
56222992 GTCTT
1 GTCTT
56222997 TAGAGCTCGG
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.27, C:0.32, G:0.18, T:0.24
Consensus pattern (37 bp):
GTCTTACCCGAACAAAATCCCCACACGAAGTCATCGG
Found at i:56223193 original size:47 final size:47
Alignment explanation
Indices: 56223115--56223640 Score: 892
Period size: 47 Copynumber: 11.1 Consensus size: 47
56223105 CCCTTCGGGA
* * * * * *
56223115 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
56223162 CCTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
56223209 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
56223256 CTTATCACGTATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
56223303 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
56223352 CCTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
56223401 C-TATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
56223447 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
56223494 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
56223541 CCTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
56223590 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
56223637 CTTA
1 CTTA
56223641 CTATCATTTC
Statistics
Matches: 459, Mismatches: 15, Indels: 10
0.95 0.03 0.02
Matches are distributed among these distances:
46 40 0.09
47 280 0.61
48 6 0.01
49 133 0.29
ACGTcount: A:0.29, C:0.30, G:0.09, T:0.32
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:56223584 original size:238 final size:238
Alignment explanation
Indices: 56223117--56223638 Score: 926
Period size: 238 Copynumber: 2.2 Consensus size: 238
56223107 CTTCGGGACT
* * * * * *
56223117 TATCACAT-T-TATACACTTTCACATCCATCACGTTGGCCACTCGGCCCTGTCACATATATACAC
1 TATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGG-CCTATCACATATATACAC
56223180 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATC
65 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATC
* *
56223245 GGCCATTAGGCCTTATCACGTATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCA
130 GGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCCTATCA
56223310 CATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCC
195 CATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCC
56223354 TATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTATCACATATATACACT
1 TATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTATCACATATATACACT
56223419 TTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCG
66 TTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCG
56223484 GCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCCTATCAC
131 GCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCCTATCAC
*
56223549 ATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCT
196 ATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCC
56223592 TATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCT
1 TATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCT
56223639 TACTATCATT
Statistics
Matches: 274, Mismatches: 9, Indels: 5
0.95 0.03 0.02
Matches are distributed among these distances:
236 41 0.15
237 8 0.03
238 195 0.71
239 30 0.11
ACGTcount: A:0.29, C:0.30, G:0.09, T:0.31
Consensus pattern (238 bp):
TATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTATCACATATATACACT
TTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCG
GCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCCTATCAC
ATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCC
Found at i:56223627 original size:285 final size:284
Alignment explanation
Indices: 56223117--56223637 Score: 918
Period size: 285 Copynumber: 1.8 Consensus size: 284
56223107 CTTCGGGACT
* * * * *
56223117 TATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGCCCTGTCACATATATACACTT
1 TATCACATATATACACTTTCACATCCATCACATCGGCCACTAGGCCCTATCACATATATACACTT
56223182 TCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGG
66 TCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGG
* *
56223247 CCATTAGGCCTTATCACGTATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACA
131 CCATTAGGCCCTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACA
56223312 TATATATACACTTTCACATTCATCACATCGGCCATTAGGCCCTATCACATATATATACACTTTCA
196 -ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCCTATCACATATATATACACTTTCA
56223377 CATTCATCACATCGGCCATTAGGCC
260 CATTCATCACATCGGCCATTAGGCC
* * *
56223402 TATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTT
1 TATCACATATATACACTTTCACATCCATCACATCGGCCACTAGGCCCTATCACATATATACACTT
56223467 TCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGG
66 TCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGG
56223532 CCATTAGGCCCTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCA
131 CCATTAGGCCCTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCA
56223597 C-ATATATACACTTTCACATTCATCACATCGGCCATTAGGCC
194 CAATATATACACTTTCACATTCATCACATCGGCCATTAGGCC
56223638 TTACTATCAT
Statistics
Matches: 224, Mismatches: 10, Indels: 4
0.94 0.04 0.02
Matches are distributed among these distances:
285 178 0.79
287 46 0.21
ACGTcount: A:0.29, C:0.31, G:0.09, T:0.31
Consensus pattern (284 bp):
TATCACATATATACACTTTCACATCCATCACATCGGCCACTAGGCCCTATCACATATATACACTT
TCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGG
CCATTAGGCCCTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACA
ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCCTATCACATATATATACACTTTCAC
ATTCATCACATCGGCCATTAGGCC
Found at i:56227591 original size:40 final size:40
Alignment explanation
Indices: 56227531--56227948 Score: 615
Period size: 40 Copynumber: 10.4 Consensus size: 40
56227521 TAGGCACGAA
* * * * * *
56227531 AGCCCGAATACACGTCACCAGCATGATTGCTCTTCGGGACCT
1 AGCCCGGATACA--TCACTAGCACGAATGCTCTTCGAGACTT
* * * * **
56227573 AGCCCGGATATAACACCAGCACGAATGCTCTTCGGGGTTT
1 AGCCCGGATACATCACTAGCACGAATGCTCTTCGAGACTT
* * *
56227613 AGCACGGATATATCACTAGCACGAATGCTCTTCGGGACTT
1 AGCCCGGATACATCACTAGCACGAATGCTCTTCGAGACTT
* *
56227653 AGCCCGGATATATCACTAGCACGAATGCTCTTCGGGACTT
1 AGCCCGGATACATCACTAGCACGAATGCTCTTCGAGACTT
*
56227693 AGCCCGGATACATCAGTAGCACGAATGCTCTTCGAGACTT
1 AGCCCGGATACATCACTAGCACGAATGCTCTTCGAGACTT
56227733 AGCCCGGATACATCACTAGCACGAATGCTCTTCGAGACTT
1 AGCCCGGATACATCACTAGCACGAATGCTCTTCGAGACTT
* *
56227773 AGCCCGGATATATCACTAGCACGAATGCTCTTTGAGACTT
1 AGCCCGGATACATCACTAGCACGAATGCTCTTCGAGACTT
56227813 AGCCCGGATACA-CACTAGCACGAATGCTCTTCGAGACTT
1 AGCCCGGATACATCACTAGCACGAATGCTCTTCGAGACTT
56227852 AGCCCGGATACATCACTAGCACGAATGCTCTTCGAGACTT
1 AGCCCGGATACATCACTAGCACGAATGCTCTTCGAGACTT
56227892 AGCCCGGATACATCACTAGCACGAATGCTCTTCG-GAACTT
1 AGCCCGGATACATCACTAGCACGAATGCTCTTCGAG-ACTT
56227932 AGCCCGGATACATCACT
1 AGCCCGGATACATCACT
56227949 CTCAATTCTC
Statistics
Matches: 352, Mismatches: 22, Indels: 6
0.93 0.06 0.02
Matches are distributed among these distances:
39 39 0.11
40 303 0.86
42 10 0.03
ACGTcount: A:0.27, C:0.29, G:0.21, T:0.23
Consensus pattern (40 bp):
AGCCCGGATACATCACTAGCACGAATGCTCTTCGAGACTT
Found at i:56229210 original size:36 final size:37
Alignment explanation
Indices: 56229163--56229240 Score: 113
Period size: 36 Copynumber: 2.1 Consensus size: 37
56229153 TTATTACGAA
* * *
56229163 GTCTTACCCGGACATAATCTCCACACGAAGTTATC-G
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
*
56229199 GTCTTACCCGGACAAAATCCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
56229236 GTCTT
1 GTCTT
56229241 TAGAGCTCGG
Statistics
Matches: 37, Mismatches: 4, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
36 31 0.84
37 6 0.16
ACGTcount: A:0.26, C:0.32, G:0.18, T:0.24
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
Found at i:56229437 original size:47 final size:47
Alignment explanation
Indices: 56229359--56229877 Score: 911
Period size: 47 Copynumber: 11.1 Consensus size: 47
56229349 CCCTTCGGGA
* * * * * *
56229359 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
56229406 CCTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
56229453 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
56229500 CTTATCAC-TATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
56229546 CTTATCACATATATATACACTTTCACATTCATCACAT-GGCCATTCGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
56229594 C-TATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
56229640 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
56229687 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
56229734 CTTATCACATATATACACTTTCACATTCATCACATCGG-CATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
56229780 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
56229827 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
56229874 CTTA
1 CTTA
56229878 CTATCATTTC
Statistics
Matches: 454, Mismatches: 12, Indels: 12
0.95 0.03 0.03
Matches are distributed among these distances:
45 27 0.06
46 103 0.23
47 287 0.63
48 11 0.02
49 26 0.06
ACGTcount: A:0.29, C:0.30, G:0.09, T:0.32
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:56229674 original size:187 final size:188
Alignment explanation
Indices: 56229359--56229877 Score: 915
Period size: 187 Copynumber: 2.8 Consensus size: 188
56229349 CCCTTCGGGA
* * * *
56229359 CTTATCACAT-T-TATACACTTTCACATCCATCACGTTGGCCACTCGGCCCTGTCACATATATAC
1 CTTATCACATATATATACACTTTCACATTCATCAC-ATGGCCATTCGG-CCTATCACATATATAC
56229422 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACA
64 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACA
56229487 TCGGCCATTAGGCCTTATCAC-TATATACACTTTCACATTCATCACATCGGCCATTAGGC
129 TCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
56229546 CTTATCACATATATATACACTTTCACATTCATCACATGGCCATTCGGCCTATCACATATATACAC
1 CTTATCACATATATATACACTTTCACATTCATCACATGGCCATTCGGCCTATCACATATATACAC
56229611 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATC
66 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATC
56229676 GGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
131 GGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
56229734 CTTATCAC--ATATATACACTTTCACATTCATCACATCGG-CATTAGGCCTTATCACATATATAC
1 CTTATCACATATATATACACTTTCACATTCATCACAT-GGCCATTCGGCC-TATCACATATATAC
56229796 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACA
64 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACA
56229861 TCGGCCATTAGGCCTTA
129 TCGGCCATTAGGCCTTA
56229878 CTATCATTTC
Statistics
Matches: 322, Mismatches: 5, Indels: 10
0.96 0.01 0.03
Matches are distributed among these distances:
186 35 0.11
187 209 0.65
188 57 0.18
189 21 0.07
ACGTcount: A:0.29, C:0.30, G:0.09, T:0.32
Consensus pattern (188 bp):
CTTATCACATATATATACACTTTCACATTCATCACATGGCCATTCGGCCTATCACATATATACAC
TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATC
GGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:56229778 original size:234 final size:234
Alignment explanation
Indices: 56229359--56229877 Score: 909
Period size: 234 Copynumber: 2.2 Consensus size: 234
56229349 CCCTTCGGGA
* * * * * * * *
56229359 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGCCCTGTCACATATATACAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
56229424 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATC
66 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATC
56229489 GGCCATTAGGCCTTATCACTATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
131 GGCCATTAGGCCTTATCACTATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
*
56229554 ATATATATACACTTTCACATTCATCACAT-GGCCATTCGGC
196 --ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
56229594 C-TATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
56229658 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATC
66 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATC
56229723 GGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGG-CATTAGGCCTTATCA
131 GGCCATTAGGCCTTATCAC-TATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCA
56229787 CATATATACACTTTCACATTCATCACATCGGCCATTAGGC
195 CATATATACACTTTCACATTCATCACATCGGCCATTAGGC
56229827 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTA
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTA
56229878 CTATCATTTC
Statistics
Matches: 272, Mismatches: 9, Indels: 7
0.94 0.03 0.02
Matches are distributed among these distances:
232 27 0.10
233 11 0.04
234 204 0.75
235 30 0.11
ACGTcount: A:0.29, C:0.30, G:0.09, T:0.32
Consensus pattern (234 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATC
GGCCATTAGGCCTTATCACTATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:56231771 original size:36 final size:37
Alignment explanation
Indices: 56231711--56231788 Score: 97
Period size: 36 Copynumber: 2.1 Consensus size: 37
56231701 CTATTACGAA
* *
56231711 GTCTTACCCGAACATAATCTCCACACGAAGTTATC-G
1 GTCTTACCCGAACATAATCCCCACACGAAGTCATCGG
* *
56231747 GTCTTACCCGGACCA-AATCCCCACACGTAGTCATCGG
1 GTCTTACCC-GAACATAATCCCCACACGAAGTCATCGG
56231784 GTCTT
1 GTCTT
56231789 TTAGAGCTCG
Statistics
Matches: 36, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
36 26 0.72
37 10 0.28
ACGTcount: A:0.26, C:0.33, G:0.17, T:0.24
Consensus pattern (37 bp):
GTCTTACCCGAACATAATCCCCACACGAAGTCATCGG
Found at i:56232294 original size:46 final size:47
Alignment explanation
Indices: 56231957--56232402 Score: 591
Period size: 46 Copynumber: 9.8 Consensus size: 47
56231947 CTCCGGCATT
56231957 TACACTTTCACATT--TCACATCGGCCATTA-GCCTTATCACATATA
1 TACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATA
56232001 TACACTTTC-CATTCATCACATCGGCCATTAGGCCTTATCAC-TAT-
1 TACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATA
* *
56232045 TACAC-TTCACATTCCTCACATCGGCCATTAGCCCTTATCACATATA
1 TACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATA
56232091 TATCACTTTCAGCATTCATCACATCTGGCCATTAGGCC-TATCACATATATA
1 TA-CACTTTCA-CATTCATCACATC-GGCCATTAGGCCTTATCAC--ATATA
56232142 TACACTTTCACATTCATCACATCGGCCATTAGGCCCCTTATCAC-T-TA
1 TACACTTTCACATTCATCACATCGGCCATTAGG--CCTTATCACATATA
56232189 TACAC-TTC-CATTC-T-ACATCGGCCA-TA-GCCTT-TCACATA-A
1 TACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATA
56232228 TAC-CTTTCACATT-ATCACATCGGCCATTAGGCCTTATCACATATA
1 TACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATA
56232273 TACACTTT-ACATTCATCACATCGGCCATTAGGCC--ATCACATATATA
1 TACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC--ATATA
* *
56232319 TACACTTT-ACATTCATCAACATCCGCCATTAGGCCTTATCACCTATA
1 TACACTTTCACATTCATC-ACATCGGCCATTAGGCCTTATCACATATA
56232366 TACACTTTCACATTCATCACATCGGCCATTA-GCCTTA
1 TACACTTTCACATTCATCACATCGGCCATTAGGCCTTA
56232403 CTATCATTTC
Statistics
Matches: 362, Mismatches: 7, Indels: 64
0.84 0.02 0.15
Matches are distributed among these distances:
38 5 0.01
39 12 0.03
40 5 0.01
41 11 0.03
42 4 0.01
43 22 0.06
44 57 0.16
45 35 0.10
46 67 0.19
47 50 0.14
48 24 0.07
49 36 0.10
50 21 0.06
51 13 0.04
ACGTcount: A:0.28, C:0.31, G:0.08, T:0.32
Consensus pattern (47 bp):
TACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATA
Found at i:56232313 original size:226 final size:227
Alignment explanation
Indices: 56231973--56232397 Score: 661
Period size: 226 Copynumber: 1.9 Consensus size: 227
56231963 TTCACATTTC
56231973 ACATCGGCCATTAGCCTTATCACATATATACACTTTCCATTCATCACATCGGCCATTAGGCCTTA
1 ACATCGGCCATTAGCCTTATCACATATATACACTTTCCATTCATCACATCGGCCATTAGGCCTTA
*
56232038 TCACTATTACACTTCACATTCCTCACATCGGCCATTAGCCCTTATCACATATATAT-CACTTTCA
66 TCACTATTACACTTCACATTCATCACATCGGCCATTAGCCC-TATCACATATATATACACTTT-A
*
56232102 GCATTCATC-ACATCTGGCCATTAGGCC-TATCACATATATATACACTTTCACATTCATCACATC
129 -CATTCATCAACATC-CGCCATTAGGCCTTATCAC--ATATATACACTTTCACATTCATCACATC
56232165 GGCCATTAGGCCCCTTATCACTTATACACTTCCATTCT
190 GGCCATTAGGCCCCTTATCACTTATACACTTCCATTCT
56232203 ACATCGGCCA-TAGCCTT-TCACATA-ATAC-CTTTCACATT-ATCACATCGGCCATTAGGCCTT
1 ACATCGGCCATTAGCCTTATCACATATATACACTTTC-CATTCATCACATCGGCCATTAGGCCTT
* *
56232263 ATCACATATATACACTTTACATTCATCACATCGGCCATTAGGCC-ATCACATATATATACACTTT
65 ATCAC-TAT-TACACTTCACATTCATCACATCGGCCATTAGCCCTATCACATATATATACACTTT
*
56232327 ACATTCATCAACATCCGCCATTAGGCCTTATCACCTATATACACTTTCACATTCATCACATCGGC
128 ACATTCATCAACATCCGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGC
56232392 CATTAG
193 CATTAG
56232398 CCTTACTATC
Statistics
Matches: 184, Mismatches: 5, Indels: 18
0.89 0.02 0.09
Matches are distributed among these distances:
224 36 0.20
225 19 0.10
226 57 0.31
227 17 0.09
228 38 0.21
229 7 0.04
230 10 0.05
ACGTcount: A:0.29, C:0.31, G:0.08, T:0.32
Consensus pattern (227 bp):
ACATCGGCCATTAGCCTTATCACATATATACACTTTCCATTCATCACATCGGCCATTAGGCCTTA
TCACTATTACACTTCACATTCATCACATCGGCCATTAGCCCTATCACATATATATACACTTTACA
TTCATCAACATCCGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCAT
TAGGCCCCTTATCACTTATACACTTCCATTCT
Found at i:56232735 original size:14 final size:14
Alignment explanation
Indices: 56232716--56232755 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 14
56232706 ATTTCACTAG
56232716 AATTTTTTTTTTCA
1 AATTTTTTTTTTCA
**
56232730 AATTTTCCTTTTCA
1 AATTTTTTTTTTCA
*
56232744 CATTTTTTTTTT
1 AATTTTTTTTTT
56232756 TAACGAACAA
Statistics
Matches: 21, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.17, C:0.12, G:0.00, T:0.70
Consensus pattern (14 bp):
AATTTTTTTTTTCA
Found at i:56236347 original size:39 final size:39
Alignment explanation
Indices: 56236299--56236675 Score: 290
Period size: 41 Copynumber: 9.5 Consensus size: 39
56236289 CCAGTATGAT
*
56236299 TGCT-TTCGGGAC-TAGCCGGAGATAACACCAGCACTGAA
1 TGCTCTTCGGGACTTAGCCGGAGATAACACTAGCAC-GAA
** * *
56236337 TGCTCTTCGGGGTTTAGCACGGATATATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGC-CGGAGATAACACTAGCACGAA
* *
56236377 TGCTGCTTCGGGACTTAGCGCGGATATATCACTAGCACGAA
1 TGCT-CTTCGGGACTTAGC-CGGAGATAACACTAGCACGAA
* *
56236418 TGCTCTTC-GGACTTAGCCCG-GATAATCAGTAGCACGAA
1 TGCTCTTCGGGACTTAGCCGGAGATAA-CACTAGCACGAA
* * * * *
56236456 TTGCTCTGCAGGACTTAGCCGGATACATCACTAGCACG-A
1 -TGCTCTTCGGGACTTAGCCGGAGATAACACTAGCACGAA
*
56236495 TGCTCTTAC-GGACTTAGCCCG-G-TATACACTAGCAGCGAA
1 TGCTCTT-CGGGACTTAGCCGGAGATA-ACACTAGCA-CGAA
* * *
56236534 TGCTCTTTGAGACTTAGCCCG-GATACACACTAGGCACGAA
1 TGCTCTTCGGGACTTAGCCGGAGATA-ACACTA-GCACGAA
* * *
56236574 TTGCTCTTCGAGACTTAGCCCTGGGGATTACTCACTAGCAC-AA
1 -TGCTCTTCGGGACTTAG-CC-GGAGA-TA-ACACTAGCACGAA
* *
56236617 TGCTCTTCGAGACTTAGCCCG-GATACATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCGGAGATA-A-CACTAGCACGAA
* *
56236657 TGCTCTTCGGAAGTTAGCC
1 TGCTCTTCGGGACTTAGCC
56236676 CGGATACATC
Statistics
Matches: 283, Mismatches: 34, Indels: 42
0.79 0.09 0.12
Matches are distributed among these distances:
36 1 0.00
37 11 0.04
38 39 0.14
39 55 0.19
40 66 0.23
41 75 0.27
42 19 0.07
43 3 0.01
44 6 0.02
45 8 0.03
ACGTcount: A:0.25, C:0.27, G:0.24, T:0.24
Consensus pattern (39 bp):
TGCTCTTCGGGACTTAGCCGGAGATAACACTAGCACGAA
Found at i:56236386 original size:41 final size:40
Alignment explanation
Indices: 56236299--56236688 Score: 410
Period size: 40 Copynumber: 9.8 Consensus size: 40
56236289 CCAGTATGAT
* * *
56236299 TGCT-TTCGGGAC-TAG-CCGGAGATAACACCAGCACTGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCAC-GAA
** *
56236337 TGCTCTTCGGGGTTTAGCACGGATATATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
*
56236377 TGCTGCTTCGGGACTTAGCGCGGATATATCACTAGCACGAA
1 TGCT-CTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
*
56236418 TGCTCTTC-GGACTTAGCCCGGATA-ATCAGTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
* * *
56236456 TTGCTCTGCAGGACTTAG-CCGGATACATCACTAGCACG-A
1 -TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
56236495 TGCTCTTAC-GGACTTAGCCCGG-TATA-CACTAGCAGCGAA
1 TGCTCTT-CGGGACTTAGCCCGGATATATCACTAGCA-CGAA
* * *
56236534 TGCTCTTTGAGACTTAGCCCGGATACA-CACTAGGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTA-GCACGAA
*
56236574 TTGCTCTTCGAGACTTAGCCCTGGGGAT-TACTCACTAGCAC-AA
1 -TGCTCTTCGGGACTTAGCCC---GGATATA-TCACTAGCACGAA
* *
56236617 TGCTCTTCGAGACTTAGCCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
* * *
56236657 TGCTCTTCGGAAGTTAGCCCGGATACATCACT
1 TGCTCTTCGGGACTTAGCCCGGATATATCACT
56236689 CCTCAATTCT
Statistics
Matches: 306, Mismatches: 24, Indels: 42
0.82 0.06 0.11
Matches are distributed among these distances:
37 8 0.03
38 36 0.12
39 75 0.25
40 77 0.25
41 74 0.24
42 20 0.07
43 3 0.01
44 8 0.03
45 5 0.02
ACGTcount: A:0.26, C:0.27, G:0.23, T:0.24
Consensus pattern (40 bp):
TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
Found at i:56240649 original size:36 final size:37
Alignment explanation
Indices: 56240577--56240654 Score: 122
Period size: 36 Copynumber: 2.1 Consensus size: 37
56240567 TTATTACGAA
* *
56240577 GTCTTACCCGGACATAATCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATCTCCACACGAAGTCATCGG
*
56240614 GTCTTACCCGGACAAAATC-CCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATCTCCACACGAAGTCATCGG
56240650 GTCTT
1 GTCTT
56240655 TAGAGCTCGG
Statistics
Matches: 38, Mismatches: 3, Indels: 1
0.90 0.07 0.02
Matches are distributed among these distances:
36 20 0.53
37 18 0.47
ACGTcount: A:0.26, C:0.31, G:0.19, T:0.24
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATCTCCACACGAAGTCATCGG
Found at i:56240851 original size:47 final size:47
Alignment explanation
Indices: 56240773--56241293 Score: 938
Period size: 47 Copynumber: 11.1 Consensus size: 47
56240763 CCCTTCGGGA
* * * * * *
56240773 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
56240820 CCTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
56240867 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
56240914 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
56240961 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
56241008 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
56241057 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
56241104 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
56241151 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
56241198 C-TATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
56241244 CTTATCACAT-TATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
56241290 CTTA
1 CTTA
56241294 CTATCATTTC
Statistics
Matches: 461, Mismatches: 10, Indels: 7
0.96 0.02 0.01
Matches are distributed among these distances:
46 86 0.19
47 328 0.71
49 47 0.10
ACGTcount: A:0.29, C:0.30, G:0.09, T:0.32
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:56241094 original size:190 final size:187
Alignment explanation
Indices: 56240773--56241293 Score: 936
Period size: 190 Copynumber: 2.8 Consensus size: 187
56240763 CCCTTCGGGA
* * * * * * *
56240773 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGCCCTGTCACATATATACAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGG-CCTATCACATATATACAC
56240838 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATC
65 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATC
56240903 GGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
130 GGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
56240961 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCC-TATCAC--ATATATAC
56241026 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACA
63 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACA
56241091 TCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
128 TCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
56241151 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTATCACATATATACACT
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTATCACATATATACACT
56241216 TTCACATTCATCACATCGGCCATTAGGCCTTATCACAT-TATACACTTTCACATTCATCACATCG
66 TTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCG
56241280 GCCATTAGGCCTTA
131 GCCATTAGGCCTTA
56241294 CTATCATTTC
Statistics
Matches: 323, Mismatches: 7, Indels: 8
0.96 0.02 0.02
Matches are distributed among these distances:
186 40 0.12
187 51 0.16
188 45 0.14
189 6 0.02
190 181 0.56
ACGTcount: A:0.29, C:0.30, G:0.09, T:0.32
Consensus pattern (187 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTATCACATATATACACT
TTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCG
GCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:56245368 original size:39 final size:39
Alignment explanation
Indices: 56245189--56245600 Score: 594
Period size: 39 Copynumber: 10.4 Consensus size: 39
56245179 CTAGGCACGA
* * * * *
56245189 AGCCCGAATACACGTCACCAGCATGATTGCTCTTCGGGACCT
1 AGCCCGGATACA--TCACTAGCACGAATGCTCTTC-GGACTT
* * * **
56245231 AGCCCGGATATAACACCAGCACGAATGCTCTTCGGGGTTT
1 AGCCCGGATACATCACTAGCACGAATGCTCTTC-GGACTT
* *
56245271 AGCACGGATATATCACTAGCACGAATGCTCTTCGGACTT
1 AGCCCGGATACATCACTAGCACGAATGCTCTTCGGACTT
*
56245310 AG-CCGGATATATCACTAGCACGAATGCTCTTCGGACTT
1 AGCCCGGATACATCACTAGCACGAATGCTCTTCGGACTT
*
56245348 AGCCCGGATACATCAGTAGCACGAATGCTCTTCGGACTT
1 AGCCCGGATACATCACTAGCACGAATGCTCTTCGGACTT
56245387 AGCCCGGATACATCACTAGCACGAATGCTCTTCGGACTT
1 AGCCCGGATACATCACTAGCACGAATGCTCTTCGGACTT
*
56245426 AGCCCGGATATATCACTAGCACGAATGCTCTTCGAGACTT
1 AGCCCGGATACATCACTAGCACGAATGCTCTTCG-GACTT
56245466 AGCCCGGATACA-CACTAGCACGAATGCTCTTCGAGACTT
1 AGCCCGGATACATCACTAGCACGAATGCTCTTCG-GACTT
56245505 AGCCCGGATACATCACTAGCACGAATGCTCTTCGGACTT
1 AGCCCGGATACATCACTAGCACGAATGCTCTTCGGACTT
* *
56245544 AGCCCGGATACATCACTAGCACGGATGCTCTTCAGAACTT
1 AGCCCGGATACATCACTAGCACGAATGCTCTTC-GGACTT
56245584 AGCCCGGATACATCACT
1 AGCCCGGATACATCACT
56245601 CTCAATTCTC
Statistics
Matches: 345, Mismatches: 21, Indels: 10
0.92 0.06 0.03
Matches are distributed among these distances:
38 37 0.11
39 187 0.54
40 111 0.32
42 10 0.03
ACGTcount: A:0.26, C:0.29, G:0.21, T:0.23
Consensus pattern (39 bp):
AGCCCGGATACATCACTAGCACGAATGCTCTTCGGACTT
Found at i:56245531 original size:118 final size:118
Alignment explanation
Indices: 56245216--56245600 Score: 607
Period size: 118 Copynumber: 3.3 Consensus size: 118
56245206 CCAGCATGAT
* * * * * ** *
56245216 TGCTCTTCGGGACCTAGCCCGGATATAACACCAGCACGAATGCTCTTCGGGGTTTAGCACGGATA
1 TGCTCTTCGAGACTTAGCCCGGATACATCACTAGCACGAATGCTCTTC-GGACTTAGCCCGGATA
*
56245281 TATCACTAGCACGAATGCTCTTCGGACTTAG-CCGGATATATCACTAGCACGAA
65 CATCACTAGCACGAATGCTCTTCGGACTTAGCCCGGATATATCACTAGCACGAA
*
56245334 TGCTCTTCG-GACTTAGCCCGGATACATCAGTAGCACGAATGCTCTTCGGACTTAGCCCGGATAC
1 TGCTCTTCGAGACTTAGCCCGGATACATCACTAGCACGAATGCTCTTCGGACTTAGCCCGGATAC
56245398 ATCACTAGCACGAATGCTCTTCGGACTTAGCCCGGATATATCACTAGCACGAA
66 ATCACTAGCACGAATGCTCTTCGGACTTAGCCCGGATATATCACTAGCACGAA
56245451 TGCTCTTCGAGACTTAGCCCGGATACA-CACTAGCACGAATGCTCTTCGAGACTTAGCCCGGATA
1 TGCTCTTCGAGACTTAGCCCGGATACATCACTAGCACGAATGCTCTTCG-GACTTAGCCCGGATA
* *
56245515 CATCACTAGCACGAATGCTCTTCGGACTTAGCCCGGATACATCACTAGCACGGA
65 CATCACTAGCACGAATGCTCTTCGGACTTAGCCCGGATATATCACTAGCACGAA
56245569 TGCTCTTC-AGAACTTAGCCCGGATACATCACT
1 TGCTCTTCGAG-ACTTAGCCCGGATACATCACT
56245601 CTCAATTCTC
Statistics
Matches: 250, Mismatches: 12, Indels: 9
0.92 0.04 0.03
Matches are distributed among these distances:
116 43 0.17
117 86 0.34
118 117 0.47
119 4 0.02
ACGTcount: A:0.26, C:0.29, G:0.21, T:0.24
Consensus pattern (118 bp):
TGCTCTTCGAGACTTAGCCCGGATACATCACTAGCACGAATGCTCTTCGGACTTAGCCCGGATAC
ATCACTAGCACGAATGCTCTTCGGACTTAGCCCGGATATATCACTAGCACGAA
Found at i:56246875 original size:37 final size:37
Alignment explanation
Indices: 56246815--56246892 Score: 111
Period size: 37 Copynumber: 2.1 Consensus size: 37
56246805 TATTACGAAG
* * *
56246815 TCTTACCCGGACATAATCTCCACACGAAGTTATCGGA
1 TCTTACCCGGACAAAATCCCCACACGAAGTCATCGGA
* *
56246852 TCTTACCCGGACAAAATCCCCACACGTAGTCATCGGG
1 TCTTACCCGGACAAAATCCCCACACGAAGTCATCGGA
56246889 TCTT
1 TCTT
56246893 TAGAGCTCGG
Statistics
Matches: 36, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
37 36 1.00
ACGTcount: A:0.27, C:0.32, G:0.17, T:0.24
Consensus pattern (37 bp):
TCTTACCCGGACAAAATCCCCACACGAAGTCATCGGA
Found at i:56247089 original size:47 final size:47
Alignment explanation
Indices: 56247011--56247535 Score: 910
Period size: 47 Copynumber: 11.1 Consensus size: 47
56247001 CCCTTCGGGA
* * * * * *
56247011 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
56247058 CCTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
56247105 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
56247152 CTTATCAC-TATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
56247198 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
56247247 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
56247296 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
56247343 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
56247390 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
56247437 C-TATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
56247485 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
56247532 CTTA
1 CTTA
56247536 CTATCATTTC
Statistics
Matches: 462, Mismatches: 10, Indels: 12
0.95 0.02 0.02
Matches are distributed among these distances:
46 52 0.11
47 269 0.58
48 40 0.09
49 101 0.22
ACGTcount: A:0.29, C:0.30, G:0.09, T:0.32
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:56247444 original size:238 final size:238
Alignment explanation
Indices: 56247011--56247535 Score: 943
Period size: 238 Copynumber: 2.2 Consensus size: 238
56247001 CCCTTCGGGA
* * * * * * *
56247011 CTTATCACAT-T-TATACACTTTCACATCCATCACGTTGGCCACTCGGCCCTGTCACATATATAC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
56247074 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACA
66 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACA
56247139 TCGGCCATTAGGCCTTATCACTATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATC
131 TCGGCCATTAGGCCTTATCACTATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATC
56247204 ACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
196 ACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
56247247 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
56247312 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACA
66 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACA
56247377 TCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCC-TAT
131 TCGGCCATTAGGCCTTATCAC-TATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTAT
56247441 CACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
195 CACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
56247485 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTA
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTA
56247536 CTATCATTTC
Statistics
Matches: 279, Mismatches: 7, Indels: 6
0.96 0.02 0.02
Matches are distributed among these distances:
236 53 0.19
237 1 0.00
238 186 0.67
239 39 0.14
ACGTcount: A:0.29, C:0.30, G:0.09, T:0.32
Consensus pattern (238 bp):
CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACA
TCGGCCATTAGGCCTTATCACTATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATC
ACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:56247521 original size:285 final size:284
Alignment explanation
Indices: 56247011--56247535 Score: 928
Period size: 285 Copynumber: 1.8 Consensus size: 284
56247001 CCCTTCGGGA
* * * * *
56247011 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGCCCTGTCACATATATACAC
1 CTTATCACATATATACACTTTCACATCCATCACATCGGCCACTAGGCCCTATCACATATATACAC
56247076 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATC
66 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATC
56247141 GGCCATTAGGCCTTATCACTATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
131 GGCCATTAGGCCTTATCACTATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
56247206 ATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTC
196 A-ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTC
56247271 ACATTCATCACATCGGCCATTAGGC
260 ACATTCATCACATCGGCCATTAGGC
* * *
56247296 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
1 CTTATCACATATATACACTTTCACATCCATCACATCGGCCACTAGGCCCTATCACATATATACAC
56247361 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATC
66 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATC
56247426 GGCCATTAGGCC-TATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTAT
131 GGCCATTAGGCCTTATCAC---TATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTAT
56247490 CAC-ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTA
193 CACAATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTA
56247536 CTATCATTTC
Statistics
Matches: 229, Mismatches: 8, Indels: 6
0.94 0.03 0.02
Matches are distributed among these distances:
284 6 0.03
285 177 0.77
287 46 0.20
ACGTcount: A:0.29, C:0.30, G:0.09, T:0.32
Consensus pattern (284 bp):
CTTATCACATATATACACTTTCACATCCATCACATCGGCCACTAGGCCCTATCACATATATACAC
TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATC
GGCCATTAGGCCTTATCACTATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
AATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCA
CATTCATCACATCGGCCATTAGGC
Found at i:56257236 original size:43 final size:40
Alignment explanation
Indices: 56257137--56257320 Score: 232
Period size: 40 Copynumber: 4.6 Consensus size: 40
56257127 TATTCGGATG
56257137 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
*
56257177 ATATCCGGGCGAAGTCCCGAAGGCATTTGTGCGAGTAGTTG-CT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGC---TAG-TGACT
*
56257220 ATACCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
* * * *
56257260 ACATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-TT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAG-TGACT
*
56257300 AT-TCC-GGCTAAATCCCGAAGG
1 ATATCCGGGCTAAGTCCCGAAGG
56257321 TACTTGGGTT
Statistics
Matches: 127, Mismatches: 11, Indels: 14
0.84 0.07 0.09
Matches are distributed among these distances:
38 14 0.11
39 5 0.04
40 69 0.54
41 2 0.02
43 35 0.28
44 2 0.02
ACGTcount: A:0.23, C:0.23, G:0.29, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
Found at i:56257280 original size:83 final size:83
Alignment explanation
Indices: 56257141--56257295 Score: 283
Period size: 83 Copynumber: 1.9 Consensus size: 83
56257131 CGGATGATAT
* *
56257141 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTATATCCGGGCGAAGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTACATCCGGGCGAAGACCCGAAGGCATTTG
56257206 TGCGAGTAGTTGCTATAC
66 TGCGAGTAGTTGCTATAC
*
56257224 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTACATCCGGGCTAAGACCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTACATCCGGGCGAAGACCCGAAGGCATTTG
56257289 TGCGAGT
66 TGCGAGT
56257296 TGTTATTCCG
Statistics
Matches: 69, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
83 69 1.00
ACGTcount: A:0.22, C:0.24, G:0.30, T:0.24
Consensus pattern (83 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTACATCCGGGCGAAGACCCGAAGGCATTTG
TGCGAGTAGTTGCTATAC
Found at i:56259937 original size:54 final size:53
Alignment explanation
Indices: 56259854--56259963 Score: 157
Period size: 54 Copynumber: 2.1 Consensus size: 53
56259844 GGAAGCGTCA
**
56259854 TGGTGGCTATGCCACAACTATCTGATCTGGTGGCTCTGCCACATATATCTGTTC
1 TGGTGGCTATGCCACAACTATCTGATCTGGTAACTCTGCCACAT-TATCTGTTC
* * * *
56259908 TGGTGGCTCTGCCACAATTATCTGTTCTGGTAACTCTGTCACATTATCTGTTC
1 TGGTGGCTATGCCACAACTATCTGATCTGGTAACTCTGCCACATTATCTGTTC
56259961 TGG
1 TGG
56259964 CAGCCGTGCT
Statistics
Matches: 50, Mismatches: 6, Indels: 1
0.88 0.11 0.02
Matches are distributed among these distances:
53 12 0.24
54 38 0.76
ACGTcount: A:0.17, C:0.25, G:0.22, T:0.36
Consensus pattern (53 bp):
TGGTGGCTATGCCACAACTATCTGATCTGGTAACTCTGCCACATTATCTGTTC
Found at i:56259960 original size:26 final size:26
Alignment explanation
Indices: 56259854--56259963 Score: 139
Period size: 27 Copynumber: 4.1 Consensus size: 26
56259844 GGAAGCGTCA
* * *
56259854 TGGTGGCTATGCCACAACTATCTGATC
1 TGGTGGCTCTGCCAC-ATTATCTGTTC
56259881 TGGTGGCTCTGCCACATATATCTGTTC
1 TGGTGGCTCTGCCACAT-TATCTGTTC
56259908 TGGTGGCTCTGCCACAATTATCTGTTC
1 TGGTGGCTCTGCCAC-ATTATCTGTTC
** *
56259935 TGGTAACTCTGTCACATTATCTGTTC
1 TGGTGGCTCTGCCACATTATCTGTTC
56259961 TGG
1 TGG
56259964 CAGCCGTGCT
Statistics
Matches: 75, Mismatches: 6, Indels: 5
0.87 0.07 0.06
Matches are distributed among these distances:
26 15 0.20
27 58 0.77
28 2 0.03
ACGTcount: A:0.17, C:0.25, G:0.22, T:0.36
Consensus pattern (26 bp):
TGGTGGCTCTGCCACATTATCTGTTC
Found at i:56266268 original size:24 final size:24
Alignment explanation
Indices: 56266241--56266296 Score: 85
Period size: 24 Copynumber: 2.3 Consensus size: 24
56266231 GTAAGGAGGG
*
56266241 GATAAGGGAGAGGATTTAGGAGCT
1 GATAAGGGAGAAGATTTAGGAGCT
*
56266265 GATAGGGGAGAAGATTTAGGAGCT
1 GATAAGGGAGAAGATTTAGGAGCT
56266289 GATCAAGG
1 GAT-AAGG
56266297 AGCAAGAGTT
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
24 25 0.89
25 3 0.11
ACGTcount: A:0.34, C:0.05, G:0.41, T:0.20
Consensus pattern (24 bp):
GATAAGGGAGAAGATTTAGGAGCT
Found at i:56268929 original size:43 final size:43
Alignment explanation
Indices: 56268825--56268972 Score: 129
Period size: 43 Copynumber: 3.4 Consensus size: 43
56268815 TATCCCGGAT
* * * * *
56268825 ATGGTCTTACATGTTATCACT-TATCGATGCCACTGTCCTAGAC
1 ATGGTCTTACACGTAATCA-TATAACGATGCCAATGTCCCAGAC
* * * **
56268868 AGGGTTTTATACAAAATCATATAACGATGCCAATGTCCCAGAC
1 ATGGTCTTACACGTAATCATATAACGATGCCAATGTCCCAGAC
* * *
56268911 ATGGTCTTACACGTAATCACA-ATACAATGCCAATGTCCCAAAC
1 ATGGTCTTACACGTAATCATATA-ACGATGCCAATGTCCCAGAC
* *
56268954 ATGGTATTACATGTAATCA
1 ATGGTCTTACACGTAATCA
56268973 CATCTCAGTA
Statistics
Matches: 83, Mismatches: 20, Indels: 4
0.78 0.19 0.04
Matches are distributed among these distances:
42 2 0.02
43 81 0.98
ACGTcount: A:0.33, C:0.23, G:0.15, T:0.29
Consensus pattern (43 bp):
ATGGTCTTACACGTAATCATATAACGATGCCAATGTCCCAGAC
Found at i:56273153 original size:25 final size:25
Alignment explanation
Indices: 56273123--56273200 Score: 147
Period size: 25 Copynumber: 3.1 Consensus size: 25
56273113 TGTGCCAAAG
56273123 ACTGCATTTAGAACAAGGTACAGAC
1 ACTGCATTTAGAACAAGGTACAGAC
*
56273148 ACTGCATTTAGAATAAGGTACAGAC
1 ACTGCATTTAGAACAAGGTACAGAC
56273173 ACTGCATTTAGAACAAGGTACAGAC
1 ACTGCATTTAGAACAAGGTACAGAC
56273198 ACT
1 ACT
56273201 ACGAACTTCT
Statistics
Matches: 51, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 51 1.00
ACGTcount: A:0.40, C:0.19, G:0.19, T:0.22
Consensus pattern (25 bp):
ACTGCATTTAGAACAAGGTACAGAC
Found at i:56275821 original size:28 final size:28
Alignment explanation
Indices: 56275781--56275838 Score: 91
Period size: 28 Copynumber: 2.1 Consensus size: 28
56275771 AAATCAAATA
56275781 ACGATGCCAATGTCCTTA-ACATGGTCTT
1 ACGATGCCAATGTCC-TAGACATGGTCTT
*
56275809 ACGATGCCAATGTCCTAGACATTGTCTT
1 ACGATGCCAATGTCCTAGACATGGTCTT
56275837 AC
1 AC
56275839 ATGTAATCAC
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
27 2 0.07
28 26 0.93
ACGTcount: A:0.26, C:0.26, G:0.17, T:0.31
Consensus pattern (28 bp):
ACGATGCCAATGTCCTAGACATGGTCTT
Found at i:56275872 original size:43 final size:43
Alignment explanation
Indices: 56275811--56275894 Score: 125
Period size: 43 Copynumber: 2.0 Consensus size: 43
56275801 ATGGTCTTAC
* **
56275811 GATGCCAATGTCCTAGACATTGTCTTACATGTAATCACATAAT
1 GATGCCAATGTCCTAGACATGGTCTTACACATAATCACATAAT
56275854 GATGCCAATGTTCC-AGACATGGTCTTACACATAATCACATA
1 GATGCCAATG-TCCTAGACATGGTCTTACACATAATCACATA
56275895 TCGTTAATCC
Statistics
Matches: 37, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
43 34 0.92
44 3 0.08
ACGTcount: A:0.33, C:0.23, G:0.14, T:0.30
Consensus pattern (43 bp):
GATGCCAATGTCCTAGACATGGTCTTACACATAATCACATAAT
Found at i:56285574 original size:43 final size:43
Alignment explanation
Indices: 56285276--56285562 Score: 389
Period size: 43 Copynumber: 6.7 Consensus size: 43
56285266 ATATCGTACA
* * *
56285276 ATGCCAGCGTCCCAGACATGGTCTTACATGTAATCACATATCG
1 ATGCCAACGTCCCAGACGTGGTCTTACACGTAATCACATATCG
* * *
56285319 ATG-CTACTGTCTCAGACAG-GGTCTTACATGTAATCACATATCG
1 ATGCCAAC-GTCCCAGAC-GTGGTCTTACACGTAATCACATATCG
*
56285362 ATGCTAACGTCCCAGACGTGGTCTTACACGTAATCACATATCG
1 ATGCCAACGTCCCAGACGTGGTCTTACACGTAATCACATATCG
* * * *
56285405 ATGCCAACGTTCCAAACGTGGTCTTCCATGTAATCACATATCG
1 ATGCCAACGTCCCAGACGTGGTCTTACACGTAATCACATATCG
**
56285448 ATGCCAACGTCTTAGACGTGGTCTTACACGTAATCACATATCG
1 ATGCCAACGTCCCAGACGTGGTCTTACACGTAATCACATATCG
* * *
56285491 ATTCCAACGTCCTAGACATGGTCTTACACGTAATCACATATCG
1 ATGCCAACGTCCCAGACGTGGTCTTACACGTAATCACATATCG
*
56285534 ATGCCAATGTCCCAGACGTGGTCTTACAC
1 ATGCCAACGTCCCAGACGTGGTCTTACAC
56285563 ACACACACAT
Statistics
Matches: 214, Mismatches: 26, Indels: 8
0.86 0.10 0.03
Matches are distributed among these distances:
42 3 0.01
43 209 0.98
44 2 0.01
ACGTcount: A:0.28, C:0.27, G:0.18, T:0.27
Consensus pattern (43 bp):
ATGCCAACGTCCCAGACGTGGTCTTACACGTAATCACATATCG
Found at i:56287119 original size:43 final size:41
Alignment explanation
Indices: 56287032--56287198 Score: 154
Period size: 43 Copynumber: 3.9 Consensus size: 41
56287022 AGCTCTTACA
* * * * *
56287032 ATGCCATATCCCAGATATGGTCTTACATGTTATCACATATCG
1 ATGCCATGTCCCAG-CATGGTCTTACACGTAATCACATAACG
* * *
56287074 ATGCCGATGGCCCAGCTATGGTCTTACACGAAATCAAATAACG
1 ATGCC-ATGTCCCAGC-ATGGTCTTACACGTAATCACATAACG
* * * *
56287117 ATGCCACTATCCCAAACATAGTCTTACACGTAATCACATAATG
1 ATGCCA-TGTCCC-AGCATGGTCTTACACGTAATCACATAACG
*
56287160 ATGCCAATGTCCCAGACATGGTCTTACACATAATCACAT
1 ATGCC-ATGTCCCAG-CATGGTCTTACACGTAATCACAT
56287199 CTCGTTAATC
Statistics
Matches: 100, Mismatches: 19, Indels: 11
0.77 0.15 0.08
Matches are distributed among these distances:
42 7 0.07
43 90 0.90
44 3 0.03
ACGTcount: A:0.33, C:0.26, G:0.14, T:0.26
Consensus pattern (41 bp):
ATGCCATGTCCCAGCATGGTCTTACACGTAATCACATAACG
Found at i:56287195 original size:86 final size:85
Alignment explanation
Indices: 56287032--56287188 Score: 210
Period size: 86 Copynumber: 1.8 Consensus size: 85
56287022 AGCTCTTACA
* * * * * *
56287032 ATGCCATATCCCAGATATGGTCTTACATGTTATCACATATCGATGCCGATGGCCCAGCTATGGTC
1 ATGCCATATCCCAAACATAGTCTTACACGTAATCACATATCGATGCCAATGGCCCAGCTATGGTC
56287097 TTACACGAAATCAAATAACG
66 TTACACGAAATCAAATAACG
*
56287117 ATGCCACTATCCCAAACATAGTCTTACACGTAATCACATAAT-GATGCCAATGTCCCAGAC-ATG
1 ATGCCA-TATCCCAAACATAGTCTTACACGTAATCACAT-ATCGATGCCAATGGCCCAG-CTATG
56287180 GTCTTACAC
63 GTCTTACAC
56287189 ATAATCACAT
Statistics
Matches: 62, Mismatches: 7, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
85 6 0.10
86 53 0.85
87 3 0.05
ACGTcount: A:0.32, C:0.27, G:0.15, T:0.26
Consensus pattern (85 bp):
ATGCCATATCCCAAACATAGTCTTACACGTAATCACATATCGATGCCAATGGCCCAGCTATGGTC
TTACACGAAATCAAATAACG
Found at i:56290854 original size:40 final size:41
Alignment explanation
Indices: 56290763--56290859 Score: 151
Period size: 42 Copynumber: 2.4 Consensus size: 41
56290753 CAGTTATCTG
* *
56290763 TGGCACTTAGTGTGCGATACGACATAGCTTCGGCTATATATA
1 TGGCACTTAGTGTGCAATACGACATAACTTCGGC-ATATATA
*
56290805 TGGCACTTAGTGTGCAATTCGACATAACTTCGGC-TATATA
1 TGGCACTTAGTGTGCAATACGACATAACTTCGGCATATATA
56290845 TGGCACTTAGTGTGC
1 TGGCACTTAGTGTGC
56290860 GATTTGAGAT
Statistics
Matches: 52, Mismatches: 3, Indels: 2
0.91 0.05 0.04
Matches are distributed among these distances:
40 21 0.40
42 31 0.60
ACGTcount: A:0.25, C:0.20, G:0.24, T:0.32
Consensus pattern (41 bp):
TGGCACTTAGTGTGCAATACGACATAACTTCGGCATATATA
Found at i:56292612 original size:43 final size:41
Alignment explanation
Indices: 56292564--56292653 Score: 135
Period size: 43 Copynumber: 2.1 Consensus size: 41
56292554 CCGGCATTAC
*
56292564 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAA
1 GCCTGCTAGGCACGAAGGCCCGAATACA-AT-ACCAGCACGAA
* *
56292607 GCCTGCTAGGCACGAAGGCCCGAATATAATACCAGCACTAA
1 GCCTGCTAGGCACGAAGGCCCGAATACAATACCAGCACGAA
56292648 GCCTGC
1 GCCTGC
56292654 GAGATTTATC
Statistics
Matches: 44, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
41 15 0.34
42 2 0.05
43 27 0.61
ACGTcount: A:0.30, C:0.33, G:0.24, T:0.12
Consensus pattern (41 bp):
GCCTGCTAGGCACGAAGGCCCGAATACAATACCAGCACGAA
Found at i:56292675 original size:38 final size:38
Alignment explanation
Indices: 56292625--56292727 Score: 143
Period size: 38 Copynumber: 2.7 Consensus size: 38
56292615 GGCACGAAGG
* * *
56292625 CCCGAATATAATACCAGCACTAAGCCTGCGAGATTTAT
1 CCCGGATATAATACCAGCACGAAGCCTGCGAGATTTAA
*
56292663 CCCGGATATAATACCAGCACGAAGCCTGCGGGATTTAA
1 CCCGGATATAATACCAGCACGAAGCCTGCGAGATTTAA
** *
56292701 CCCGGATATTTTACTAGCACGAAGCCT
1 CCCGGATATAATACCAGCACGAAGCCT
56292728 ACGGGTCTTT
Statistics
Matches: 58, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
38 58 1.00
ACGTcount: A:0.31, C:0.27, G:0.19, T:0.22
Consensus pattern (38 bp):
CCCGGATATAATACCAGCACGAAGCCTGCGAGATTTAA
Found at i:56296275 original size:33 final size:33
Alignment explanation
Indices: 56296233--56296319 Score: 120
Period size: 33 Copynumber: 2.6 Consensus size: 33
56296223 CAAATCGGTA
* * *
56296233 ACAGTCTGGGCCTGAGCCCTATTCAGTATCAGT
1 ACAGTCTGGGCCTTAGCCCTATACAGTATCAAT
56296266 ACAGTCTGGGCCTTAGCCCTATACAGTATCAAT
1 ACAGTCTGGGCCTTAGCCCTATACAGTATCAAT
* * *
56296299 GCAGACTAGGCCTTAGCCCTA
1 ACAGTCTGGGCCTTAGCCCTA
56296320 CATAGTAGTA
Statistics
Matches: 48, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
33 48 1.00
ACGTcount: A:0.24, C:0.29, G:0.22, T:0.25
Consensus pattern (33 bp):
ACAGTCTGGGCCTTAGCCCTATACAGTATCAAT
Found at i:56296724 original size:27 final size:27
Alignment explanation
Indices: 56296694--56296885 Score: 194
Period size: 27 Copynumber: 7.2 Consensus size: 27
56296684 GGCAAAATCA
* *
56296694 TCATTTTACCATATAAGGGTATTACAG
1 TCATTTTACCCTATAAGGGTATTACGG
* *
56296721 TCA---TACCCTATAGGGGTATTATGG
1 TCATTTTACCCTATAAGGGTATTACGG
* * *
56296745 TCATCTTACCCTATAGGGGCATTACGG
1 TCATTTTACCCTATAAGGGTATTACGG
56296772 TCATTTTACCCTATAAGGGTATTACGG
1 TCATTTTACCCTATAAGGGTATTACGG
* * *
56296799 TCATTTAACCCTA-CAGGGATATTATGG
1 TCATTTTACCCTATAAGGG-TATTACGG
* * * *
56296826 TCATTTAACCCTACAGGGGTATTACAG
1 TCATTTTACCCTATAAGGGTATTACGG
** *
56296853 TCATTTTAAGCTACAAGGGTATTACGG
1 TCATTTTACCCTATAAGGGTATTACGG
56296880 TCATTT
1 TCATTT
56296886 CACAAATCGA
Statistics
Matches: 139, Mismatches: 21, Indels: 10
0.82 0.12 0.06
Matches are distributed among these distances:
24 20 0.14
26 4 0.03
27 112 0.81
28 3 0.02
ACGTcount: A:0.28, C:0.19, G:0.19, T:0.34
Consensus pattern (27 bp):
TCATTTTACCCTATAAGGGTATTACGG
Found at i:56296754 original size:51 final size:52
Alignment explanation
Indices: 56296694--56296802 Score: 130
Period size: 51 Copynumber: 2.1 Consensus size: 52
56296684 GGCAAAATCA
* * * *
56296694 TCATTTTACCATATAAGGGTATTACAGTCA-TACCCTATAGGGGTATTATGG
1 TCATCTTACCATATAAGGGCATTACAGTCATTACCCTATAAGGGTATTACGG
* * *
56296745 TCATCTTACCCTATAGGGGCATTACGGTCATTTTACCCTATAAGGGTATTACGG
1 TCATCTTACCATATAAGGGCATTACAGTCA--TTACCCTATAAGGGTATTACGG
56296799 TCAT
1 TCAT
56296803 TTAACCCTAC
Statistics
Matches: 48, Mismatches: 7, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
51 25 0.52
54 23 0.48
ACGTcount: A:0.27, C:0.19, G:0.19, T:0.35
Consensus pattern (52 bp):
TCATCTTACCATATAAGGGCATTACAGTCATTACCCTATAAGGGTATTACGG
Found at i:56296844 original size:81 final size:80
Alignment explanation
Indices: 56296694--56296885 Score: 255
Period size: 81 Copynumber: 2.4 Consensus size: 80
56296684 GGCAAAATCA
* * * *
56296694 TCATTTTACCATATAAGGGTATTACAGTCA--TACCCTATAGGGGTATTATGGTCATCTTACCCT
1 TCATTTTACCCTATAAGGGTATTACGGTCATTTACCCTACAGGGATATTATGGTCATCTTACCCT
* *
56296757 ATAGGGGCATTACGG
66 ACAGGGGCATTACAG
56296772 TCATTTTACCCTATAAGGGTATTACGGTCATTTAACCCTACAGGGATATTATGGTCAT-TTAACC
1 TCATTTTACCCTATAAGGGTATTACGGTCATTT-ACCCTACAGGGATATTATGGTCATCTT-ACC
*
56296836 CTACAGGGGTATTACAG
64 CTACAGGGGCATTACAG
** *
56296853 TCATTTTAAGCTACAAGGGTATTACGGTCATTT
1 TCATTTTACCCTATAAGGGTATTACGGTCATTT
56296886 CACAAATCGA
Statistics
Matches: 100, Mismatches: 10, Indels: 5
0.87 0.09 0.04
Matches are distributed among these distances:
78 28 0.28
80 3 0.03
81 69 0.69
ACGTcount: A:0.28, C:0.19, G:0.19, T:0.34
Consensus pattern (80 bp):
TCATTTTACCCTATAAGGGTATTACGGTCATTTACCCTACAGGGATATTATGGTCATCTTACCCT
ACAGGGGCATTACAG
Found at i:56296924 original size:27 final size:27
Alignment explanation
Indices: 56296868--56296946 Score: 88
Period size: 27 Copynumber: 2.9 Consensus size: 27
56296858 TTAAGCTACA
* *
56296868 AGGGTATTACGGTCATTTCACAAATCG
1 AGGGTATTTCGGTAATTTCACAAATCG
* *
56296895 AGGGTATTTCGGTAATTTTAC-AACCTG
1 AGGGTATTTCGGTAATTTCACAAATC-G
**
56296922 AGGGTATTTCAATAATTTCACAAAT
1 AGGGTATTTCGGTAATTTCACAAAT
56296947 TAGGGGTTTT
Statistics
Matches: 42, Mismatches: 8, Indels: 3
0.79 0.15 0.06
Matches are distributed among these distances:
26 3 0.07
27 37 0.88
28 2 0.05
ACGTcount: A:0.32, C:0.15, G:0.19, T:0.34
Consensus pattern (27 bp):
AGGGTATTTCGGTAATTTCACAAATCG
Found at i:56300441 original size:46 final size:43
Alignment explanation
Indices: 56300374--56300533 Score: 177
Period size: 46 Copynumber: 3.7 Consensus size: 43
56300364 CGCCCCTAAG
* * * *
56300374 TGAACTCGAACTCAACTCAACGAGCTCGGGCGTTCACATCCATAAA
1 TGAACTCGGACTCAACTCAACGAGTTCGGACATT--CATCCAT-AA
56300420 TGAACTCGGACTCAACTCAACGAGTTCGGACATT--T-CAT--
1 TGAACTCGGACTCAACTCAACGAGTTCGGACATTCATCCATAA
*
56300458 CGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCATAA
1 TGAACTCGGACTCAACTCAACGAGTTCGGACA-TT-CATCCATAA
*
56300503 GTGAACTCGGACTCAATTCAACGAGTTCGGA
1 -TGAACTCGGACTCAACTCAACGAGTTCGGA
56300534 TGCTCAACCA
Statistics
Matches: 99, Mismatches: 7, Indels: 16
0.81 0.06 0.13
Matches are distributed among these distances:
38 31 0.31
39 2 0.02
41 3 0.03
42 2 0.02
43 3 0.03
46 58 0.59
ACGTcount: A:0.31, C:0.28, G:0.19, T:0.23
Consensus pattern (43 bp):
TGAACTCGGACTCAACTCAACGAGTTCGGACATTCATCCATAA
Found at i:56300450 original size:20 final size:20
Alignment explanation
Indices: 56300425--56300488 Score: 69
Period size: 20 Copynumber: 3.3 Consensus size: 20
56300415 ATAAATGAAC
56300425 TCGGACTCAACTCAACGAGT
1 TCGGACTCAACTCAACGAGT
** * **
56300445 TCGGA--CATTTCATCGAAC
1 TCGGACTCAACTCAACGAGT
56300463 TCGGACTCAACTCAACGAGT
1 TCGGACTCAACTCAACGAGT
56300483 TCGGAC
1 TCGGAC
56300489 ATTTGCATCC
Statistics
Matches: 32, Mismatches: 10, Indels: 4
0.70 0.22 0.09
Matches are distributed among these distances:
18 13 0.41
20 19 0.59
ACGTcount: A:0.28, C:0.30, G:0.20, T:0.22
Consensus pattern (20 bp):
TCGGACTCAACTCAACGAGT
Found at i:56300465 original size:38 final size:41
Alignment explanation
Indices: 56300421--56300533 Score: 151
Period size: 38 Copynumber: 2.7 Consensus size: 41
56300411 ATCCATAAAT
56300421 GAACTCGGACTCAACTCAACGAGTTCGGACATTT-CAT-C-
1 GAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCA
56300459 GAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCATAA
1 GAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCC---A
*
56300503 GTGAACTCGGACTCAATTCAACGAGTTCGGA
1 --GAACTCGGACTCAACTCAACGAGTTCGGA
56300534 TGCTCAACCA
Statistics
Matches: 66, Mismatches: 1, Indels: 8
0.88 0.01 0.11
Matches are distributed among these distances:
38 34 0.52
39 3 0.05
40 1 0.02
46 28 0.42
ACGTcount: A:0.30, C:0.27, G:0.20, T:0.23
Consensus pattern (41 bp):
GAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCA
Found at i:56300516 original size:84 final size:84
Alignment explanation
Indices: 56300375--56300533 Score: 246
Period size: 84 Copynumber: 1.9 Consensus size: 84
56300365 GCCCCTAAGT
* *
56300375 GAACTCGAACTCAACTCAACGAGCTCGGGCGTTCACATCCATAAATGAACTCGGACTCAACTCAA
1 GAACTCGAACTCAACTCAACGAGCTCGGACATTCACATCCATAAATGAACTCGGACTCAACTCAA
56300440 CGAGTTCGGACATTTCATC
66 CGAGTTCGGACATTTCATC
* * ** * *
56300459 GAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCATAAGTGAACTCGGACTCAATTCAA
1 GAACTCGAACTCAACTCAACGAGCTCGGACATTCACATCCATAAATGAACTCGGACTCAACTCAA
56300524 CGAGTTCGGA
66 CGAGTTCGGA
56300534 TGCTCAACCA
Statistics
Matches: 67, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
84 67 1.00
ACGTcount: A:0.31, C:0.28, G:0.19, T:0.22
Consensus pattern (84 bp):
GAACTCGAACTCAACTCAACGAGCTCGGACATTCACATCCATAAATGAACTCGGACTCAACTCAA
CGAGTTCGGACATTTCATC
Found at i:56307979 original size:46 final size:45
Alignment explanation
Indices: 56307912--56308080 Score: 173
Period size: 46 Copynumber: 3.7 Consensus size: 45
56307902 CGCCCCTAAG
* * *
56307912 TGAACTCGAACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAA
1 TGAACTCGGACTCAACTCAACGAGTTCGGACGTT-GCATCCATAAA
* * *
56307958 TGAACTCGGACTCAACTCAACGAGTTCAGATGCCTAGTTACAT-C-T-CA
1 TGAACTCGGACTCAACTCAACGAGTTC-G--GAC--GTTGCATCCATAAA
* * *
56308005 CGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCATAAG
1 TGAACTCGGACTCAACTCAACGAGTTCGGAC-GTTGCATCCATAAA
56308051 TGAACTCGGACTCAACTCAACGAGTTCGGA
1 TGAACTCGGACTCAACTCAACGAGTTCGGA
56308081 TGCTCAACCA
Statistics
Matches: 103, Mismatches: 12, Indels: 16
0.79 0.09 0.12
Matches are distributed among these distances:
43 6 0.06
44 3 0.03
45 1 0.01
46 55 0.53
47 28 0.27
48 1 0.01
49 3 0.03
50 3 0.03
51 3 0.03
ACGTcount: A:0.30, C:0.28, G:0.20, T:0.22
Consensus pattern (45 bp):
TGAACTCGGACTCAACTCAACGAGTTCGGACGTTGCATCCATAAA
Found at i:56308022 original size:93 final size:93
Alignment explanation
Indices: 56307913--56308083 Score: 279
Period size: 93 Copynumber: 1.8 Consensus size: 93
56307903 GCCCCTAAGT
* *
56307913 GAACTCGAACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAATGAACTCGGACTCAACTCAA
1 GAACTCGAACTCAACTCAACGAGCTCGGACATTCGCATCCATAAATGAACTCGGACTCAACTCAA
56307978 CGAGTTCAGATGCCTAGTTACATCTCAC
66 CGAGTTCAGATGCCTAGTTACATCTCAC
* * * *
56308006 GAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGAACTCAACTCAACGAGCTCGGACATTCGCATCCATAAATGAACTCGGACTCAACTCAA
*
56308071 CGAGTTCGGATGC
66 CGAGTTCAGATGC
56308084 TCAACCATCC
Statistics
Matches: 71, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
93 71 1.00
ACGTcount: A:0.30, C:0.29, G:0.20, T:0.22
Consensus pattern (93 bp):
GAACTCGAACTCAACTCAACGAGCTCGGACATTCGCATCCATAAATGAACTCGGACTCAACTCAA
CGAGTTCAGATGCCTAGTTACATCTCAC
Found at i:56314914 original size:53 final size:54
Alignment explanation
Indices: 56314829--56315035 Score: 218
Period size: 53 Copynumber: 3.8 Consensus size: 54
56314819 TTTGGAATTA
* *
56314829 AACTTACCATTGCCATGTCTTGACATGGTCTTACGTGGTATCCTTGCCTTAT-G
1 AACTTACCAATGCCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTATAG
* * * * * *
56314882 AACTCACCATTGCCATTTCTTGGCATGGTCTTACATGGGATCTTTGCCTTATAG
1 AACTTACCAATGCCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTATAG
** * * * * * *
56314936 TAGTTTATCAATGCCATGTCTTGACATGGTCTTACATGATTTTCTTGCCTTGTAA
1 -AACTTACCAATGCCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTATAG
* * * *
56314991 AACTTACAAATGCCATGCCTTGGCATGGTCTTACTTGGTATCCTT
1 AACTTACCAATGCCATGTCTTGACATGGTCTTACATGGTATCCTT
56315036 AAACCCTAAT
Statistics
Matches: 122, Mismatches: 30, Indels: 3
0.79 0.19 0.02
Matches are distributed among these distances:
53 46 0.38
54 36 0.30
55 40 0.33
ACGTcount: A:0.21, C:0.23, G:0.18, T:0.39
Consensus pattern (54 bp):
AACTTACCAATGCCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTATAG
Found at i:56322249 original size:53 final size:54
Alignment explanation
Indices: 56322173--56322363 Score: 190
Period size: 55 Copynumber: 3.5 Consensus size: 54
56322163 CTTCCCATTT
* * * *
56322173 CCATGTCTTGACATGGTCGTACATGGTATTCTTGCCTTAT-GAACTCACCATTG
1 CCATGCCTTGACATGGTCTTACATGGTATTCTTGCCTTATAGAACTTACCAATG
* * ** *
56322226 CCATGCCTTGGCATGGTCTTACATGGGA-TCTTTGCCTTATAGTAGTTTATCAATG
1 CCATGCCTTGACATGGTCTTACATGGTATTC-TTGCCTTATAG-AACTTACCAATG
* * * * *
56322281 CCATGTCTTGACATGGTCTTACATGAT-TTCCTTGCCTTGTAAAACTTACAAATG
1 CCATGCCTTGACATGGTCTTACATGGTATT-CTTGCCTTATAGAACTTACCAATG
* *
56322335 CCATGCCTTGGCATGGTCTTACTTGGTAT
1 CCATGCCTTGACATGGTCTTACATGGTAT
56322364 CCTTAAACCC
Statistics
Matches: 109, Mismatches: 23, Indels: 10
0.77 0.16 0.07
Matches are distributed among these distances:
52 2 0.02
53 33 0.30
54 32 0.29
55 41 0.38
56 1 0.01
ACGTcount: A:0.21, C:0.23, G:0.19, T:0.37
Consensus pattern (54 bp):
CCATGCCTTGACATGGTCTTACATGGTATTCTTGCCTTATAGAACTTACCAATG
Found at i:56327955 original size:81 final size:81
Alignment explanation
Indices: 56327829--56328028 Score: 244
Period size: 81 Copynumber: 2.5 Consensus size: 81
56327819 ACGATTCTTA
* * *
56327829 ACACTGGCTC-AAAGCCCTTCGAGACCAAGCTCGGATTAGGCCACTGGCTCGAAGGCCCTTCGGA
1 ACACTGGCTCAAAAGCCCTTCGAAACCAAGCTCGGATTAGGCCACTGGCTCAAAAGCCCTTCGGA
56327893 ACTAAGTCCGGTTATG
66 ACTAAGTCCGGTTATG
* * *
56327909 ACACTGGCTCAAAAGACCTTCGAAACTAAGTTCGGTTATTA-G-CACTGGCTCAAAAGCCCTTCG
1 ACACTGGCTCAAAAGCCCTTCGAAACCAAGCTCGG--ATTAGGCCACTGGCTCAAAAGCCCTTCG
* * * *
56327972 TAATTAAGTTCGGTTATT
64 GAACTAAGTCCGGTTATG
* *
56327990 AGCACTGGCTCAAAAGCCCTTCGAACCCAGGCTCGGATT
1 A-CACTGGCTCAAAAGCCCTTCGAAACCAAGCTCGGATT
56328029 TACACCCCGA
Statistics
Matches: 101, Mismatches: 15, Indels: 8
0.81 0.12 0.06
Matches are distributed among these distances:
80 13 0.13
81 54 0.53
82 30 0.30
83 4 0.04
ACGTcount: A:0.27, C:0.28, G:0.23, T:0.23
Consensus pattern (81 bp):
ACACTGGCTCAAAAGCCCTTCGAAACCAAGCTCGGATTAGGCCACTGGCTCAAAAGCCCTTCGGA
ACTAAGTCCGGTTATG
Found at i:56327970 original size:41 final size:41
Alignment explanation
Indices: 56327830--56328014 Score: 225
Period size: 41 Copynumber: 4.6 Consensus size: 41
56327820 CGATTCTTAA
* * *
56327830 CACTGGCTC-AAAGCCCTTCGAGACCAAGCTCGG--ATTAGG
1 CACTGGCTCAAAAGCCCTTCGAAACTAAGTTCGGTTATTA-G
* * * * *
56327869 CCACTGGCTCGAAGGCCCTTCGGAACTAAGTCCGGTTATGA-
1 -CACTGGCTCAAAAGCCCTTCGAAACTAAGTTCGGTTATTAG
*
56327910 CACTGGCTCAAAAGACCTTCGAAACTAAGTTCGGTTATTAG
1 CACTGGCTCAAAAGCCCTTCGAAACTAAGTTCGGTTATTAG
* *
56327951 CACTGGCTCAAAAGCCCTTCGTAATTAAGTTCGGTTATTAG
1 CACTGGCTCAAAAGCCCTTCGAAACTAAGTTCGGTTATTAG
56327992 CACTGGCTCAAAAGCCCTTCGAA
1 CACTGGCTCAAAAGCCCTTCGAA
56328015 CCCAGGCTCG
Statistics
Matches: 124, Mismatches: 17, Indels: 7
0.84 0.11 0.05
Matches are distributed among these distances:
40 43 0.35
41 78 0.63
43 3 0.02
ACGTcount: A:0.27, C:0.27, G:0.22, T:0.24
Consensus pattern (41 bp):
CACTGGCTCAAAAGCCCTTCGAAACTAAGTTCGGTTATTAG
Found at i:56335933 original size:54 final size:54
Alignment explanation
Indices: 56335873--56335981 Score: 209
Period size: 54 Copynumber: 2.0 Consensus size: 54
56335863 TGTGCATACG
*
56335873 CGCGACATTTATAAAACAAGTCTAATATTCAATAATGAAGTTGTGGATGTGTTC
1 CGCGACATTTATAAAACAAGTCTAATATTCAATAATGAAGTTATGGATGTGTTC
56335927 CGCGACATTTATAAAACAAGTCTAATATTCAATAATGAAGTTATGGATGTGTTC
1 CGCGACATTTATAAAACAAGTCTAATATTCAATAATGAAGTTATGGATGTGTTC
56335981 C
1 C
56335982 AGGTTCTGTA
Statistics
Matches: 54, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
54 54 1.00
ACGTcount: A:0.36, C:0.14, G:0.17, T:0.33
Consensus pattern (54 bp):
CGCGACATTTATAAAACAAGTCTAATATTCAATAATGAAGTTATGGATGTGTTC
Found at i:56337272 original size:24 final size:25
Alignment explanation
Indices: 56337245--56337321 Score: 102
Period size: 25 Copynumber: 3.1 Consensus size: 25
56337235 GCCTAGCCTC
56337245 TTTTAAT-AACTGGGGCAAAGCCCT
1 TTTTAATAAACTGGGGCAAAGCCCT
*
56337269 TTTTGATAAACTGGGGCAAAGCCCT
1 TTTTAATAAACTGGGGCAAAGCCCT
* * * *
56337294 TTTCAGTAAACTAGGGCATAGCCCT
1 TTTTAATAAACTGGGGCAAAGCCCT
56337319 TTT
1 TTT
56337322 AGCACTTCCT
Statistics
Matches: 46, Mismatches: 6, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
24 6 0.13
25 40 0.87
ACGTcount: A:0.27, C:0.21, G:0.21, T:0.31
Consensus pattern (25 bp):
TTTTAATAAACTGGGGCAAAGCCCT
Found at i:56337581 original size:27 final size:27
Alignment explanation
Indices: 56337526--56337588 Score: 72
Period size: 27 Copynumber: 2.3 Consensus size: 27
56337516 GGCAAAATGG
*
56337526 TAATTTTACCCCACAAGGGTATCTCGA
1 TAATTCTACCCCACAAGGGTATCTCGA
* * * *
56337553 TAATTCTACCCTACAGGGGTATTTTGA
1 TAATTCTACCCCACAAGGGTATCTCGA
*
56337580 TATTTCTAC
1 TAATTCTAC
56337589 TATAACGCCC
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
27 30 1.00
ACGTcount: A:0.27, C:0.22, G:0.14, T:0.37
Consensus pattern (27 bp):
TAATTCTACCCCACAAGGGTATCTCGA
Found at i:56339223 original size:26 final size:27
Alignment explanation
Indices: 56339194--56339253 Score: 79
Period size: 27 Copynumber: 2.3 Consensus size: 27
56339184 CCACATATAT
*
56339194 ATATCTGT-TCTGGTGGCCTAC-TCACA
1 ATATCTGTATCTGGT-GACTACGTCACA
*
56339220 ATATCTGTATCTGGTGACTTCGTCACA
1 ATATCTGTATCTGGTGACTACGTCACA
56339247 ATATCTG
1 ATATCTG
56339254 GCAGCCTCGT
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
26 12 0.40
27 18 0.60
ACGTcount: A:0.22, C:0.23, G:0.18, T:0.37
Consensus pattern (27 bp):
ATATCTGTATCTGGTGACTACGTCACA
Found at i:56347559 original size:81 final size:81
Alignment explanation
Indices: 56347424--56347580 Score: 251
Period size: 81 Copynumber: 1.9 Consensus size: 81
56347414 GGGTGTTACA
* * *
56347424 TCTACCCTACAAGGTTATTTCAATAATTTTACCCTACAGGGGTATTTTAGTAATTCTACCATACA
1 TCTACCCTACAAGGTTATTTCAATAATTCTACCATACAGGGGTATTTCAGTAATTCTACCATACA
56347489 GGGGTATTTCGGTAAT
66 GGGGTATTTCGGTAAT
* * * *
56347505 TCTACCCTACAGGGTTATTTCAGTAATTCTACCATACAGGGGTATTTCGGTAATTCTACCCTACA
1 TCTACCCTACAAGGTTATTTCAATAATTCTACCATACAGGGGTATTTCAGTAATTCTACCATACA
56347570 GGGGTATTTCG
66 GGGGTATTTCG
56347581 ATATTTTACA
Statistics
Matches: 69, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
81 69 1.00
ACGTcount: A:0.26, C:0.20, G:0.18, T:0.36
Consensus pattern (81 bp):
TCTACCCTACAAGGTTATTTCAATAATTCTACCATACAGGGGTATTTCAGTAATTCTACCATACA
GGGGTATTTCGGTAAT
Found at i:56347580 original size:27 final size:27
Alignment explanation
Indices: 56347424--56347579 Score: 222
Period size: 27 Copynumber: 5.8 Consensus size: 27
56347414 GGGTGTTACA
* * *
56347424 TCTACCCTACAAGGTTATTTCAATAAT
1 TCTACCCTACAGGGGTATTTCAGTAAT
* *
56347451 TTTACCCTACAGGGGTATTTTAGTAAT
1 TCTACCCTACAGGGGTATTTCAGTAAT
* *
56347478 TCTACCATACAGGGGTATTTCGGTAAT
1 TCTACCCTACAGGGGTATTTCAGTAAT
*
56347505 TCTACCCTACAGGGTTATTTCAGTAAT
1 TCTACCCTACAGGGGTATTTCAGTAAT
* *
56347532 TCTACCATACAGGGGTATTTCGGTAAT
1 TCTACCCTACAGGGGTATTTCAGTAAT
56347559 TCTACCCTACAGGGGTATTTC
1 TCTACCCTACAGGGGTATTTC
56347580 GATATTTTAC
Statistics
Matches: 113, Mismatches: 16, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 113 1.00
ACGTcount: A:0.26, C:0.21, G:0.17, T:0.36
Consensus pattern (27 bp):
TCTACCCTACAGGGGTATTTCAGTAAT
Found at i:56347629 original size:27 final size:27
Alignment explanation
Indices: 56347568--56347640 Score: 78
Period size: 27 Copynumber: 2.7 Consensus size: 27
56347558 TTCTACCCTA
*
56347568 CAGGGGTATTTCGAT-ATTTTACAAAT
1 CAGGGGTATTTCGATAATTTCACAAAT
* *
56347594 -TGAGAGTATTTCGATAATTTCACAAAT
1 CAG-GGGTATTTCGATAATTTCACAAAT
* *
56347621 CAGGGGTATTTTGGTAATTT
1 CAGGGGTATTTCGATAATTT
56347641 TGTAAACCAA
Statistics
Matches: 37, Mismatches: 7, Indels: 5
0.76 0.14 0.10
Matches are distributed among these distances:
25 1 0.03
26 11 0.30
27 24 0.65
28 1 0.03
ACGTcount: A:0.30, C:0.10, G:0.21, T:0.40
Consensus pattern (27 bp):
CAGGGGTATTTCGATAATTTCACAAAT
Found at i:56347909 original size:27 final size:27
Alignment explanation
Indices: 56347661--56347898 Score: 314
Period size: 27 Copynumber: 8.8 Consensus size: 27
56347651 GGGTATTTCA
* * * *
56347661 GTAATTTTGTAAATAGAGGGTAAAACG
1 GTAATTCTATAAATCGAGGGTAAAATG
* *
56347688 ATAATTCTATAAATCGAGGGTAAAATA
1 GTAATTCTATAAATCGAGGGTAAAATG
* *
56347715 GTAATTCTGTAAATCGAGTGTAAAATG
1 GTAATTCTATAAATCGAGGGTAAAATG
* *
56347742 GTAATTCTATAAATCGAGGGTAGAACG
1 GTAATTCTATAAATCGAGGGTAAAATG
* *
56347769 GTAATTCTTTAAATTGAGGGTAAAATG
1 GTAATTCTATAAATCGAGGGTAAAATG
* **
56347796 GTAATTCTGTAAATCGAAAGTAAAATG
1 GTAATTCTATAAATCGAGGGTAAAATG
*
56347823 GTAATTTTATAAATCGAGGGTAAAATG
1 GTAATTCTATAAATCGAGGGTAAAATG
* *
56347850 GTAATTTTATAAATCGAGGGTAAAACG
1 GTAATTCTATAAATCGAGGGTAAAATG
56347877 GTAATTCTATAAATCGAGGGTA
1 GTAATTCTATAAATCGAGGGTA
56347899 CTTTGGTAAT
Statistics
Matches: 183, Mismatches: 28, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 183 1.00
ACGTcount: A:0.40, C:0.07, G:0.22, T:0.31
Consensus pattern (27 bp):
GTAATTCTATAAATCGAGGGTAAAATG
Found at i:56350516 original size:43 final size:43
Alignment explanation
Indices: 56350455--56350566 Score: 172
Period size: 43 Copynumber: 2.6 Consensus size: 43
56350445 CCGGCATTAC
*
56350455 GCCTGCTAGGCACGAAGGCCAGAATACACATCACTAG-CACGAA
1 GCCTGCTAGGCACGAAGGCCCGAATACACATCAC-AGACACGAA
* *
56350498 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGACATGAA
1 GCCTGCTAGGCACGAAGGCCCGAATACACATCACAGACACGAA
*
56350541 GCCTGTTAGGCACGAAGGCCCGAATA
1 GCCTGCTAGGCACGAAGGCCCGAATA
56350567 TGTGGCCACT
Statistics
Matches: 64, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
42 1 0.02
43 63 0.98
ACGTcount: A:0.32, C:0.30, G:0.25, T:0.12
Consensus pattern (43 bp):
GCCTGCTAGGCACGAAGGCCCGAATACACATCACAGACACGAA
Found at i:56355575 original size:55 final size:52
Alignment explanation
Indices: 56355423--56355575 Score: 130
Period size: 53 Copynumber: 2.8 Consensus size: 52
56355413 AATTAAACTT
* * *
56355423 ACCATTGCCATGTCTTGACATGGTCTTACGTGGTATCCTTGCCTTATGAACGC
1 ACCAATGCCATGTCTTGACATGGTCTTACAT-GTATTCTTGCCTTATGAACGC
* * * * * *
56355476 ACCATTGCCATGCCTTGGCATGGTCTTACATGGGA-TCTTAGCCTTATAGTA-GTTT
1 ACCAATGCCATGTCTTGACATGGTCTTACAT-GTATTCTT-GCCTTAT-GAACG--C
* *
56355531 ATCAATGCCATGTCTTGACATGGTCTTACATGATTTTCTTGCCTT
1 ACCAATGCCATGTCTTGACATGGTCTTACATG-TATTCTTGCCTT
56355576 GTAAAACTTA
Statistics
Matches: 81, Mismatches: 13, Indels: 10
0.78 0.12 0.10
Matches are distributed among these distances:
52 3 0.04
53 39 0.48
54 3 0.04
55 32 0.40
56 4 0.05
ACGTcount: A:0.20, C:0.24, G:0.20, T:0.37
Consensus pattern (52 bp):
ACCAATGCCATGTCTTGACATGGTCTTACATGTATTCTTGCCTTATGAACGC
Found at i:56362865 original size:53 final size:55
Alignment explanation
Indices: 56362770--56362909 Score: 160
Period size: 53 Copynumber: 2.6 Consensus size: 55
56362760 AATTAAACTT
* * * *
56362770 ACCATTGCCATGTCTTGACATGGTCGTACGTGGTATTCTTGCCTT-TTG-AGCTC
1 ACCATTGCCATGTCTTGACATGGTCTTACATGGGATTCTTGCCTTATAGCAGCTC
* * * *
56362823 ACCATTGCCATGCCTTGGCATGGTCTTACATGGGA-TCTTTGCCTTATAGCAGTTT
1 ACCATTGCCATGTCTTGACATGGTCTTACATGGGATTC-TTGCCTTATAGCAGCTC
* *
56362878 ATCAATGCCATGTCTTGACATGGTCTTACATG
1 ACCATTGCCATGTCTTGACATGGTCTTACATG
56362910 ATTTCCTTGC
Statistics
Matches: 72, Mismatches: 12, Indels: 4
0.82 0.14 0.05
Matches are distributed among these distances:
52 2 0.03
53 37 0.51
54 2 0.03
55 31 0.43
ACGTcount: A:0.19, C:0.24, G:0.21, T:0.36
Consensus pattern (55 bp):
ACCATTGCCATGTCTTGACATGGTCTTACATGGGATTCTTGCCTTATAGCAGCTC
Found at i:56362920 original size:55 final size:53
Alignment explanation
Indices: 56362770--56362965 Score: 151
Period size: 55 Copynumber: 3.6 Consensus size: 53
56362760 AATTAAACTT
* * * *
56362770 ACCATTGCCATGTCTTGACATGGTCGTACGTGGTATT-CTTGCCTTTTGAGCTC
1 ACCAATGCCATGTCTTGACATGGTCTTACATGGT-TTCCTTGCCTTTAGAGCTC
* * * ** * * *
56362823 ACCATTGCCATGCCTTGGCATGGTCTTACATGGGATCTTTGCCTTATAGCAGTTT
1 ACCAATGCCATGTCTTGACATGGTCTTACATGGTTTCCTTGCCTT-TAG-AGCTC
* * * * *
56362878 ATCAATGCCATGTCTTGACATGGTCTTACATGATTTCCTTGCCTTGTAAAACTT
1 ACCAATGCCATGTCTTGACATGGTCTTACATGGTTTCCTTGCCTT-TAGAGCTC
* * * * *
56362932 ACAAAAGCCATGCCTTGGCATGGTCTTACTTGGT
1 ACCAATGCCATGTCTTGACATGGTCTTACATGGT
56362966 ATCTTTAAAC
Statistics
Matches: 111, Mismatches: 29, Indels: 5
0.77 0.20 0.03
Matches are distributed among these distances:
52 1 0.01
53 36 0.32
54 32 0.29
55 42 0.38
ACGTcount: A:0.20, C:0.23, G:0.20, T:0.36
Consensus pattern (53 bp):
ACCAATGCCATGTCTTGACATGGTCTTACATGGTTTCCTTGCCTTTAGAGCTC
Found at i:56372715 original size:54 final size:54
Alignment explanation
Indices: 56372655--56372763 Score: 200
Period size: 54 Copynumber: 2.0 Consensus size: 54
56372645 TGTGCATACG
*
56372655 CGCGACATTTATAAAACAAGTCTAATATTCAATAATGAAGTTGTGGATGTGTTC
1 CGCGACATTTATAAAACAAGTCTAATATTCAATAATGAAGTTATGGATGTGTTC
*
56372709 CGCGACATTTATAAAACAAGTCTAATATTCAATAATGAAGTTATGGTTGTGTTC
1 CGCGACATTTATAAAACAAGTCTAATATTCAATAATGAAGTTATGGATGTGTTC
56372763 C
1 C
56372764 ATGTTCTGTA
Statistics
Matches: 53, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
54 53 1.00
ACGTcount: A:0.35, C:0.14, G:0.17, T:0.34
Consensus pattern (54 bp):
CGCGACATTTATAAAACAAGTCTAATATTCAATAATGAAGTTATGGATGTGTTC
Found at i:56374047 original size:25 final size:25
Alignment explanation
Indices: 56374019--56374088 Score: 104
Period size: 25 Copynumber: 2.8 Consensus size: 25
56374009 CTCTTTTAAT
*
56374019 AACTGGGGCAAAGCCCTTTTTGATA
1 AACTGGGGCAAAGCCCTTTTCGATA
*
56374044 AACTGGGGCAAAGCCCTTTTCGGTA
1 AACTGGGGCAAAGCCCTTTTCGATA
* *
56374069 AACTAGGGCATAGCCCTTTT
1 AACTGGGGCAAAGCCCTTTT
56374089 AGCACTTTCT
Statistics
Matches: 41, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 41 1.00
ACGTcount: A:0.26, C:0.23, G:0.24, T:0.27
Consensus pattern (25 bp):
AACTGGGGCAAAGCCCTTTTCGATA
Found at i:56380038 original size:25 final size:25
Alignment explanation
Indices: 56380009--56380059 Score: 102
Period size: 25 Copynumber: 2.0 Consensus size: 25
56379999 GGTTAAAATA
56380009 TATATTTTAGTAGGTTAGTGGGCCT
1 TATATTTTAGTAGGTTAGTGGGCCT
56380034 TATATTTTAGTAGGTTAGTGGGCCT
1 TATATTTTAGTAGGTTAGTGGGCCT
56380059 T
1 T
56380060 TGGAAGGCCC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.20, C:0.08, G:0.27, T:0.45
Consensus pattern (25 bp):
TATATTTTAGTAGGTTAGTGGGCCT
Found at i:56382387 original size:27 final size:27
Alignment explanation
Indices: 56382345--56382744 Score: 586
Period size: 27 Copynumber: 14.8 Consensus size: 27
56382335 GGGTGTTACA
* *
56382345 TCTACCCTATAAGGGTATTTCGGTAAT
1 TCTACCCTACAGGGGTATTTCGGTAAT
*
56382372 TCTACCCTACAGGGGTATTTCAGTAAT
1 TCTACCCTACAGGGGTATTTCGGTAAT
56382399 TCTACCCTACAGGGGTATTTCGGTAAT
1 TCTACCCTACAGGGGTATTTCGGTAAT
* * *
56382426 TCTACCCTACAAGGTTATTTCAGTAAT
1 TCTACCCTACAGGGGTATTTCGGTAAT
*
56382453 TCTACCATACAGGGGTATTTCGGTAAT
1 TCTACCCTACAGGGGTATTTCGGTAAT
*
56382480 TCTACCCTACAGGGGTATTTCGATAAT
1 TCTACCCTACAGGGGTATTTCGGTAAT
* *
56382507 TCTACCCTACAGGGTTATTTCAGTAAT
1 TCTACCCTACAGGGGTATTTCGGTAAT
*
56382534 TCTACCCTACAGGGGTATTTCGGTATT
1 TCTACCCTACAGGGGTATTTCGGTAAT
*
56382561 TCTACCCTACAAGGGTATTTCGGTAAT
1 TCTACCCTACAGGGGTATTTCGGTAAT
* *
56382588 TCTACCCTATAGGGGTATTTCAGTAAT
1 TCTACCCTACAGGGGTATTTCGGTAAT
*
56382615 TCTACCCTACAGGGGTGTTTCGGTAAT
1 TCTACCCTACAGGGGTATTTCGGTAAT
* *
56382642 TCTACCCTACAGGGTTATTTCAGTAAT
1 TCTACCCTACAGGGGTATTTCGGTAAT
**
56382669 TCTACCCTACAGGGGTATTTTAGTAACT
1 TCTACCCTACAGGGGTATTTCGGTAA-T
* *
56382697 T-TACCCTATAGGGGTATTTCGATAAT
1 TCTACCCTACAGGGGTATTTCGGTAAT
*
56382723 TCTACGCTACAGGGGTATTTCG
1 TCTACCCTACAGGGGTATTTCG
56382745 ATATTTTACA
Statistics
Matches: 333, Mismatches: 38, Indels: 4
0.89 0.10 0.01
Matches are distributed among these distances:
26 2 0.01
27 329 0.99
28 2 0.01
ACGTcount: A:0.24, C:0.21, G:0.19, T:0.35
Consensus pattern (27 bp):
TCTACCCTACAGGGGTATTTCGGTAAT
Found at i:56382793 original size:27 final size:27
Alignment explanation
Indices: 56382735--56382804 Score: 81
Period size: 27 Copynumber: 2.6 Consensus size: 27
56382725 TACGCTACAG
*
56382735 GGGTATTTCGAT-ATTTTACAAATCGA
1 GGGTATTTCGATAATTTCACAAATCGA
*
56382761 GAGTATTTCGATAATTTCACAAATC-A
1 GGGTATTTCGATAATTTCACAAATCGA
* *
56382787 GTGGTATTTTGGTAATTT
1 G-GGTATTTCGATAATTT
56382805 TGTAAACCAA
Statistics
Matches: 37, Mismatches: 5, Indels: 3
0.82 0.11 0.07
Matches are distributed among these distances:
26 13 0.35
27 24 0.65
ACGTcount: A:0.30, C:0.10, G:0.19, T:0.41
Consensus pattern (27 bp):
GGGTATTTCGATAATTTCACAAATCGA
Found at i:56382856 original size:27 final size:27
Alignment explanation
Indices: 56382834--56383008 Score: 233
Period size: 27 Copynumber: 6.5 Consensus size: 27
56382824 AGTAATTTTG
* *
56382834 TAAATCGAGTGTAAAATGATAATTCTA
1 TAAATCGAGGGTAAAACGATAATTCTA
56382861 TAAATCGAGGGTAAAACGATAATTCTA
1 TAAATCGAGGGTAAAACGATAATTCTA
* * *
56382888 TAAATCGAGGGTAAAATGGTAATTCTG
1 TAAATCGAGGGTAAAACGATAATTCTA
* ** *
56382915 TAAATTGAAAGTAAAACGATAATTTTA
1 TAAATCGAGGGTAAAACGATAATTCTA
* *
56382942 TAAATCGAGGGTAAAATGGTAATTCTA
1 TAAATCGAGGGTAAAACGATAATTCTA
* *
56382969 TAAATCGAGGGTAAAACGGTAATTCTG
1 TAAATCGAGGGTAAAACGATAATTCTA
56382996 TAAATCGAGGGTA
1 TAAATCGAGGGTA
56383009 CTTTGGTAAT
Statistics
Matches: 128, Mismatches: 20, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 128 1.00
ACGTcount: A:0.42, C:0.08, G:0.21, T:0.29
Consensus pattern (27 bp):
TAAATCGAGGGTAAAACGATAATTCTA
Found at i:56383033 original size:54 final size:54
Alignment explanation
Indices: 56382834--56383008 Score: 269
Period size: 54 Copynumber: 3.2 Consensus size: 54
56382824 AGTAATTTTG
* *
56382834 TAAATCGAGTGTAAAATGATAATTCTATAAATCGAGGGTAAAACGATAATTCTA
1 TAAATCGAGGGTAAAATGGTAATTCTATAAATCGAGGGTAAAACGATAATTCTA
* * ** *
56382888 TAAATCGAGGGTAAAATGGTAATTCTGTAAATTGAAAGTAAAACGATAATTTTA
1 TAAATCGAGGGTAAAATGGTAATTCTATAAATCGAGGGTAAAACGATAATTCTA
* *
56382942 TAAATCGAGGGTAAAATGGTAATTCTATAAATCGAGGGTAAAACGGTAATTCTG
1 TAAATCGAGGGTAAAATGGTAATTCTATAAATCGAGGGTAAAACGATAATTCTA
56382996 TAAATCGAGGGTA
1 TAAATCGAGGGTA
56383009 CTTTGGTAAT
Statistics
Matches: 107, Mismatches: 14, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
54 107 1.00
ACGTcount: A:0.42, C:0.08, G:0.21, T:0.29
Consensus pattern (54 bp):
TAAATCGAGGGTAAAATGGTAATTCTATAAATCGAGGGTAAAACGATAATTCTA
Found at i:56383033 original size:81 final size:81
Alignment explanation
Indices: 56382825--56383004 Score: 279
Period size: 81 Copynumber: 2.2 Consensus size: 81
56382815 GGGTATTTTA
* * *
56382825 GTAATTTTGTAAATCGAGTGTAAAATGATAATTCTATAAATCGAGGGTAAAACGATAATTCTATA
1 GTAATTCTGTAAATCGAGAGTAAAATGATAATTTTATAAATCGAGGGTAAAACGATAATTCTATA
*
56382890 AATCGAGGGTAAAATG
66 AATCGAGGGTAAAACG
* * * * *
56382906 GTAATTCTGTAAATTGAAAGTAAAACGATAATTTTATAAATCGAGGGTAAAATGGTAATTCTATA
1 GTAATTCTGTAAATCGAGAGTAAAATGATAATTTTATAAATCGAGGGTAAAACGATAATTCTATA
56382971 AATCGAGGGTAAAACG
66 AATCGAGGGTAAAACG
56382987 GTAATTCTGTAAATCGAG
1 GTAATTCTGTAAATCGAG
56383005 GGTACTTTGG
Statistics
Matches: 88, Mismatches: 11, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
81 88 1.00
ACGTcount: A:0.42, C:0.08, G:0.20, T:0.31
Consensus pattern (81 bp):
GTAATTCTGTAAATCGAGAGTAAAATGATAATTTTATAAATCGAGGGTAAAACGATAATTCTATA
AATCGAGGGTAAAACG
Found at i:56385162 original size:43 final size:43
Alignment explanation
Indices: 56385101--56385214 Score: 192
Period size: 43 Copynumber: 2.7 Consensus size: 43
56385091 CACCGGCATT
*
56385101 AAGCCTGCTAGGCACGAAGGCCCGAATACACATCACTAGCACG
1 AAGCCTGCTAGGCACGAAGGCCCGAATACACATCACCAGCACG
* * *
56385144 AAGCCTGCTAGGCACGAAGGCCTGAATACACATCACCGGCATG
1 AAGCCTGCTAGGCACGAAGGCCCGAATACACATCACCAGCACG
56385187 AAGCCTGCTAGGCACGAAGGCCCGAATA
1 AAGCCTGCTAGGCACGAAGGCCCGAATA
56385215 TGTGGCCACT
Statistics
Matches: 66, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
43 66 1.00
ACGTcount: A:0.32, C:0.31, G:0.25, T:0.12
Consensus pattern (43 bp):
AAGCCTGCTAGGCACGAAGGCCCGAATACACATCACCAGCACG
Found at i:56399076 original size:21 final size:21
Alignment explanation
Indices: 56399025--56399078 Score: 99
Period size: 21 Copynumber: 2.6 Consensus size: 21
56399015 ACAGAATTAA
*
56399025 AAGAATTGAAAGCTCAGTTGC
1 AAGAATTGAGAGCTCAGTTGC
56399046 AAGAATTGAGAGCTCAGTTGC
1 AAGAATTGAGAGCTCAGTTGC
56399067 AAGAATTGAGAG
1 AAGAATTGAGAG
56399079 ATAGAGGTTT
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 32 1.00
ACGTcount: A:0.39, C:0.11, G:0.28, T:0.22
Consensus pattern (21 bp):
AAGAATTGAGAGCTCAGTTGC
Found at i:56401354 original size:58 final size:58
Alignment explanation
Indices: 56401264--56401381 Score: 218
Period size: 58 Copynumber: 2.0 Consensus size: 58
56401254 AAACGTAAAG
56401264 ACATAAAATTTCAGATTGGAGATAAAGTCTTCTTAAAAGCCTCACCATGGAAGAAAAT
1 ACATAAAATTTCAGATTGGAGATAAAGTCTTCTTAAAAGCCTCACCATGGAAGAAAAT
* *
56401322 ACATAGAATTTCAGATTGGAGATAAAGTCTTCTTGAAAGCCTCACCATGGAAGAAAAT
1 ACATAAAATTTCAGATTGGAGATAAAGTCTTCTTAAAAGCCTCACCATGGAAGAAAAT
56401380 AC
1 AC
56401382 TCAGATTTGG
Statistics
Matches: 58, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
58 58 1.00
ACGTcount: A:0.42, C:0.16, G:0.17, T:0.25
Consensus pattern (58 bp):
ACATAAAATTTCAGATTGGAGATAAAGTCTTCTTAAAAGCCTCACCATGGAAGAAAAT
Found at i:56403368 original size:54 final size:54
Alignment explanation
Indices: 56403309--56403414 Score: 203
Period size: 54 Copynumber: 2.0 Consensus size: 54
56403299 GCATACGCGC
*
56403309 GACATTTATAAAACAAGTCTAATATTCAATAATGAAGTTGTGGATGTGTTCCGT
1 GACATTTATAAAACAAGTCTAATATTCAATAATGAAGTTATGGATGTGTTCCGT
56403363 GACATTTATAAAACAAGTCTAATATTCAATAATGAAGTTATGGATGTGTTCC
1 GACATTTATAAAACAAGTCTAATATTCAATAATGAAGTTATGGATGTGTTCC
56403415 ATGTTCTGTA
Statistics
Matches: 51, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
54 51 1.00
ACGTcount: A:0.37, C:0.11, G:0.17, T:0.35
Consensus pattern (54 bp):
GACATTTATAAAACAAGTCTAATATTCAATAATGAAGTTATGGATGTGTTCCGT
Found at i:56404720 original size:25 final size:25
Alignment explanation
Indices: 56404692--56404761 Score: 113
Period size: 25 Copynumber: 2.8 Consensus size: 25
56404682 CTCTTTTAAT
*
56404692 AACTGGGGCAAAGCCCTTTTTGATA
1 AACTGGGGCAAAGCCCTTTTCGATA
*
56404717 AACTGGGGCAAAGCCCTTTTCGGTA
1 AACTGGGGCAAAGCCCTTTTCGATA
*
56404742 AACTGGGGCATAGCCCTTTT
1 AACTGGGGCAAAGCCCTTTT
56404762 AGCACTTCCT
Statistics
Matches: 42, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
25 42 1.00
ACGTcount: A:0.24, C:0.23, G:0.26, T:0.27
Consensus pattern (25 bp):
AACTGGGGCAAAGCCCTTTTCGATA
Found at i:56406510 original size:27 final size:26
Alignment explanation
Indices: 56406466--56406517 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 26
56406456 CTCCCTGAAA
*
56406466 TCTGGTGGCCTCGCCACATATATCTGT
1 TCTGGTGACCTCGCCACA-ATATCTGT
* *
56406493 TCTGGTGACTTCGTCACAATATCTG
1 TCTGGTGACCTCGCCACAATATCTG
56406518 GCAGCCTCGC
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 7 0.32
27 15 0.68
ACGTcount: A:0.17, C:0.27, G:0.21, T:0.35
Consensus pattern (26 bp):
TCTGGTGACCTCGCCACAATATCTGT
Found at i:56410946 original size:47 final size:47
Alignment explanation
Indices: 56410892--56411270 Score: 544
Period size: 47 Copynumber: 8.1 Consensus size: 47
56410882 TTAGGATTTT
** * * *
56410892 ATGTGATGAATGTGAATGTGTATATATGAGATAAGGCCGAATGGCAA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* *
56410939 ATGTGATGAATGTGAACATGCATATATGAGATAAGGTCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* * *
56410986 ATGTGATGAATGTGAACATGCATATATGTAATAAGGTCGAATGCCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* *
56411033 ATGTGATGAATGTGAACATGCATATGTGTGATAAGGCTGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
*
56411080 ATGTGATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* *
56411127 ATATGATGAATGTGAATATGCATATATGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
*
56411174 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCAGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* * * * * *
56411221 ATGTGATGAACGTGGAA-GTGTATATATGTGGTAAAGCCGAATGGCTA
1 ATGTGATGAATGT-GAACATGCATATATGTGATAAGGCCGAATGGCCA
56411268 ATG
1 ATG
56411271 CAAAATGTGT
Statistics
Matches: 304, Mismatches: 27, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
47 301 0.99
48 3 0.01
ACGTcount: A:0.35, C:0.10, G:0.28, T:0.27
Consensus pattern (47 bp):
ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
Found at i:56411300 original size:46 final size:46
Alignment explanation
Indices: 56411244--56411426 Score: 276
Period size: 46 Copynumber: 4.0 Consensus size: 46
56411234 GGAAGTGTAT
* * *
56411244 ATATGTGGTAAAGCCGAATGGCTAATGCAAAATGTGTATGAGATGG
1 ATATGAGGTAAAGCCGAATGGCTAATGCGAAACGTGTATGAGATGG
56411290 ATATGAGGTAAAGCCGAATGGCTAATGCGAAACGTGTATGAGATGG
1 ATATGAGGTAAAGCCGAATGGCTAATGCGAAACGTGTATGAGATGG
56411336 ATATGAGGTAAAGCCGAATGGCTAATGCGAAACGTGTATGAGATGG
1 ATATGAGGTAAAGCCGAATGGCTAATGCGAAACGTGTATGAGATGG
* ** * * **
56411382 ATATGTGGTAAAGCTAAATGGCTAATGTGAGATATGTATGAGATG
1 ATATGAGGTAAAGCCGAATGGCTAATGCGAAACGTGTATGAGATG
56411427 TGTATATATA
Statistics
Matches: 127, Mismatches: 10, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
46 127 1.00
ACGTcount: A:0.35, C:0.09, G:0.31, T:0.25
Consensus pattern (46 bp):
ATATGAGGTAAAGCCGAATGGCTAATGCGAAACGTGTATGAGATGG
Found at i:56418151 original size:27 final size:27
Alignment explanation
Indices: 56418120--56418184 Score: 103
Period size: 27 Copynumber: 2.4 Consensus size: 27
56418110 TGGCCTAGCT
*
56418120 ACAATATCTGTATCTGGTGACTTCGTC
1 ACAATATCTGTATCTAGTGACTTCGTC
*
56418147 TCAATATCTGTATCTAGTGACTTCGTC
1 ACAATATCTGTATCTAGTGACTTCGTC
*
56418174 ACAATTTCTGT
1 ACAATATCTGT
56418185 GGTGTGTAGC
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 34 1.00
ACGTcount: A:0.23, C:0.22, G:0.15, T:0.40
Consensus pattern (27 bp):
ACAATATCTGTATCTAGTGACTTCGTC
Found at i:56419253 original size:27 final size:27
Alignment explanation
Indices: 56418855--56419246 Score: 534
Period size: 27 Copynumber: 14.5 Consensus size: 27
56418845 GGGTGTTACA
* *
56418855 TCTACCCTACAAGGGTATTTCGATAAT
1 TCTACCCTACAGGGGTATTTCGGTAAT
*
56418882 TCTACCCTACAGGGGTATTTCAAG-AAT
1 TCTACCCTACAGGGGTATTTC-GGTAAT
56418909 TCTACCCTACAGGGGTATTTCGGTAAT
1 TCTACCCTACAGGGGTATTTCGGTAAT
* **
56418936 TCTACCCTACAGGGTTATTTTAGTAAT
1 TCTACCCTACAGGGGTATTTCGGTAAT
* *
56418963 TCTACCATACAGGGGTATTTCAGTAAT
1 TCTACCCTACAGGGGTATTTCGGTAAT
*
56418990 TCTACCCTATAGGGGTATTTCGGTAAT
1 TCTACCCTACAGGGGTATTTCGGTAAT
* * *
56419017 TCTACCCTATAGGGTTATTTCAGTAAT
1 TCTACCCTACAGGGGTATTTCGGTAAT
* *
56419044 CCTACCCTACAGGGGTATTTCGGTATT
1 TCTACCCTACAGGGGTATTTCGGTAAT
*
56419071 TCTACCCTACAAGGGTATTTCGGTAAT
1 TCTACCCTACAGGGGTATTTCGGTAAT
**
56419098 TCTACCCTACAGGGGTATTTTAGTAAT
1 TCTACCCTACAGGGGTATTTCGGTAAT
56419125 TCTACCCTACAGGGGGTATTTCGGTAAT
1 TCTACCCTACA-GGGGTATTTCGGTAAT
* * **
56419153 TCTACCTTACAGGGTTATTTTAGTAAT
1 TCTACCCTACAGGGGTATTTCGGTAAT
*
56419180 TCTACCCTACAGGGGTATTTCGGTAAC
1 TCTACCCTACAGGGGTATTTCGGTAAT
* *
56419207 TCTACCCTACAAGGGTATTTTGGTAAT
1 TCTACCCTACAGGGGTATTTCGGTAAT
*
56419234 TCTACGCTACAGG
1 TCTACCCTACAGG
56419247 CACATTTCGA
Statistics
Matches: 320, Mismatches: 42, Indels: 6
0.87 0.11 0.02
Matches are distributed among these distances:
26 1 0.00
27 295 0.92
28 24 0.08
ACGTcount: A:0.25, C:0.21, G:0.19, T:0.35
Consensus pattern (27 bp):
TCTACCCTACAGGGGTATTTCGGTAAT
Found at i:56419293 original size:27 final size:27
Alignment explanation
Indices: 56419250--56419315 Score: 73
Period size: 27 Copynumber: 2.5 Consensus size: 27
56419240 CTACAGGCAC
* *
56419250 ATTTCGAT-ATTTTACAAATC-GAGAGT
1 ATTTTGATAATTTCACAAATCAG-GAGT
*
56419276 ATTTTGATAATTTCACAAATCAGGGGT
1 ATTTTGATAATTTCACAAATCAGGAGT
*
56419303 ATTTTGGTAATTT
1 ATTTTGATAATTT
56419316 TGTAAACCAA
Statistics
Matches: 34, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
26 7 0.21
27 26 0.76
28 1 0.03
ACGTcount: A:0.32, C:0.09, G:0.17, T:0.42
Consensus pattern (27 bp):
ATTTTGATAATTTCACAAATCAGGAGT
Found at i:56419355 original size:27 final size:27
Alignment explanation
Indices: 56419299--56419384 Score: 82
Period size: 27 Copynumber: 3.2 Consensus size: 27
56419289 CACAAATCAG
* ***
56419299 GGGTATTTTGGTAATTTTGTAAACCAA
1 GGGTATTTCGGTAATTTTGTAAATTGA
*
56419326 GGGTATTTCAGTAATTTTGTAAATTGA
1 GGGTATTTCGGTAATTTTGTAAATTGA
*** * *
56419353 GGGTAAAACGGTAATTCTATAAATTGA
1 GGGTATTTCGGTAATTTTGTAAATTGA
56419380 GGGTA
1 GGGTA
56419385 AAATGGTAAT
Statistics
Matches: 48, Mismatches: 11, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
27 48 1.00
ACGTcount: A:0.33, C:0.06, G:0.24, T:0.37
Consensus pattern (27 bp):
GGGTATTTCGGTAATTTTGTAAATTGA
Found at i:56419393 original size:81 final size:80
Alignment explanation
Indices: 56419307--56419573 Score: 275
Period size: 81 Copynumber: 3.3 Consensus size: 80
56419297 AGGGGTATTT
* ** * * * *
56419307 TGGTAATTTTGTAAACCAAGGGTATTTCAGTAATTTTGTAAATTGAGGGTAAAACGGTAATTCTA
1 TGGTAATTCTGTAAACCAAGGGTAAAT-GGTAATTCTATAAATCGAGGGTAAAACGGTAATTCTA
56419372 TAAATTGAGGGTAAAA
65 TAAATTGAGGGTAAAA
* * * * * *
56419388 TGGTAATTCTGTAAATCGAGTGTAAAATGGTAATTCTATAAATCGAGGATAAAACGATAATTCTG
1 TGGTAATTCTGTAAACCAAGGGT-AAATGGTAATTCTATAAATCGAGGGTAAAACGGTAATTCTA
56419453 TAAATTGAGGGTAAAA
65 TAAATTGAGGGTAAAA
* * * * * *
56419469 TGGTAATTCTCTAAATCGAA-AGTAAAACGGTAATTCTATAAATCGAGGGTAAAATGGTAATGCT
1 TGGTAATTCTGTAAA-CCAAGGGT-AAATGGTAATTCTATAAATCGAGGGTAAAACGGTAATTCT
* *
56419533 ATAAATCGAGGATAAAA
64 ATAAATTGAGGGTAAAA
* * *
56419550 CGGTAATTCTGTAAATCGAGGGTA
1 TGGTAATTCTGTAAACCAAGGGTA
56419574 CTTTGGTAAT
Statistics
Matches: 151, Mismatches: 32, Indels: 7
0.79 0.17 0.04
Matches are distributed among these distances:
80 2 0.01
81 146 0.97
82 3 0.02
ACGTcount: A:0.39, C:0.08, G:0.22, T:0.31
Consensus pattern (80 bp):
TGGTAATTCTGTAAACCAAGGGTAAATGGTAATTCTATAAATCGAGGGTAAAACGGTAATTCTAT
AAATTGAGGGTAAAA
Found at i:56419583 original size:54 final size:54
Alignment explanation
Indices: 56419336--56419573 Score: 343
Period size: 54 Copynumber: 4.4 Consensus size: 54
56419326 GGGTATTTCA
* * * * * *
56419336 GTAATTTTGTAAATTGAGGGTAAAACGGTAATTCTATAAATTGAGGGTAAAATG
1 GTAATTCTGTAAATCGAGGGTAAAATGGTAATTCTATAAATCGAGGATAAAACG
*
56419390 GTAATTCTGTAAATCGAGTGTAAAATGGTAATTCTATAAATCGAGGATAAAACG
1 GTAATTCTGTAAATCGAGGGTAAAATGGTAATTCTATAAATCGAGGATAAAACG
* * * *
56419444 ATAATTCTGTAAATTGAGGGTAAAATGGTAATTCTCTAAATCGA-AAGTAAAACG
1 GTAATTCTGTAAATCGAGGGTAAAATGGTAATTCTATAAATCGAGGA-TAAAACG
* *
56419498 GTAATTCTATAAATCGAGGGTAAAATGGTAATGCTATAAATCGAGGATAAAACG
1 GTAATTCTGTAAATCGAGGGTAAAATGGTAATTCTATAAATCGAGGATAAAACG
56419552 GTAATTCTGTAAATCGAGGGTA
1 GTAATTCTGTAAATCGAGGGTA
56419574 CTTTGGTAAT
Statistics
Matches: 163, Mismatches: 19, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
53 1 0.01
54 161 0.99
55 1 0.01
ACGTcount: A:0.40, C:0.08, G:0.22, T:0.30
Consensus pattern (54 bp):
GTAATTCTGTAAATCGAGGGTAAAATGGTAATTCTATAAATCGAGGATAAAACG
Found at i:56419584 original size:27 final size:27
Alignment explanation
Indices: 56419336--56419573 Score: 296
Period size: 27 Copynumber: 8.8 Consensus size: 27
56419326 GGGTATTTCA
* * *
56419336 GTAATTTTGTAAATTGAGGGTAAAACG
1 GTAATTCTGTAAATCGAGGGTAAAATG
* *
56419363 GTAATTCTATAAATTGAGGGTAAAATG
1 GTAATTCTGTAAATCGAGGGTAAAATG
*
56419390 GTAATTCTGTAAATCGAGTGTAAAATG
1 GTAATTCTGTAAATCGAGGGTAAAATG
* * *
56419417 GTAATTCTATAAATCGAGGATAAAACG
1 GTAATTCTGTAAATCGAGGGTAAAATG
* *
56419444 ATAATTCTGTAAATTGAGGGTAAAATG
1 GTAATTCTGTAAATCGAGGGTAAAATG
* ** *
56419471 GTAATTCTCTAAATCGAAAGTAAAACG
1 GTAATTCTGTAAATCGAGGGTAAAATG
*
56419498 GTAATTCTATAAATCGAGGGTAAAATG
1 GTAATTCTGTAAATCGAGGGTAAAATG
* * * *
56419525 GTAATGCTATAAATCGAGGATAAAACG
1 GTAATTCTGTAAATCGAGGGTAAAATG
56419552 GTAATTCTGTAAATCGAGGGTA
1 GTAATTCTGTAAATCGAGGGTA
56419574 CTTTGGTAAT
Statistics
Matches: 180, Mismatches: 31, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 180 1.00
ACGTcount: A:0.40, C:0.08, G:0.22, T:0.30
Consensus pattern (27 bp):
GTAATTCTGTAAATCGAGGGTAAAATG
Found at i:56419598 original size:81 final size:81
Alignment explanation
Indices: 56419336--56419573 Score: 332
Period size: 81 Copynumber: 2.9 Consensus size: 81
56419326 GGGTATTTCA
* * *
56419336 GTAATTTTGTAAATTGAGGGTAAAACGGTAATTCTATAAATTGAGGGTAAAATGGTAATTCTGTA
1 GTAATTCTATAAATCGAGGGTAAAACGGTAATTCTATAAATTGAGGGTAAAATGGTAATTCTGTA
*
56419401 AATCGAGTGTAAAATG
66 AATCGAGGGTAAAATG
* * * *
56419417 GTAATTCTATAAATCGAGGATAAAACGATAATTCTGTAAATTGAGGGTAAAATGGTAATTCTCTA
1 GTAATTCTATAAATCGAGGGTAAAACGGTAATTCTATAAATTGAGGGTAAAATGGTAATTCTGTA
** *
56419482 AATCGAAAGTAAAACG
66 AATCGAGGGTAAAATG
* * * * *
56419498 GTAATTCTATAAATCGAGGGTAAAATGGTAATGCTATAAATCGAGGATAAAACGGTAATTCTGTA
1 GTAATTCTATAAATCGAGGGTAAAACGGTAATTCTATAAATTGAGGGTAAAATGGTAATTCTGTA
56419563 AATCGAGGGTA
66 AATCGAGGGTA
56419574 CTTTGGTAAT
Statistics
Matches: 136, Mismatches: 21, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
81 136 1.00
ACGTcount: A:0.40, C:0.08, G:0.22, T:0.30
Consensus pattern (81 bp):
GTAATTCTATAAATCGAGGGTAAAACGGTAATTCTATAAATTGAGGGTAAAATGGTAATTCTGTA
AATCGAGGGTAAAATG
Found at i:56422287 original size:43 final size:43
Alignment explanation
Indices: 56422132--56422285 Score: 254
Period size: 43 Copynumber: 3.6 Consensus size: 43
56422122 CGGCATTACT
* *
56422132 CCTGCTAGGCACGAAGGCCTGAATACACATCACCGACACGAAG
1 CCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAAG
56422175 CCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAAG
1 CCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAAG
* * *
56422218 CCTGCTAGGCACGAAGGCCCGAATATACATCACTGGCACGAAA
1 CCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAAG
*
56422261 CCTGCTAGGCACAAAGGCCCGAATA
1 CCTGCTAGGCACGAAGGCCCGAATA
56422286 TAATACCAGC
Statistics
Matches: 105, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
43 105 1.00
ACGTcount: A:0.32, C:0.32, G:0.24, T:0.12
Consensus pattern (43 bp):
CCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAAG
Found at i:56422325 original size:38 final size:38
Alignment explanation
Indices: 56422283--56422401 Score: 148
Period size: 38 Copynumber: 3.1 Consensus size: 38
56422273 AAAGGCCCGA
* * * *
56422283 ATATAATACCAGCACTAGGCCTGCGGGATTTATCCCTG
1 ATATAATACCAGCACGAAGCCTGCGGGATTTAACCCAG
*
56422321 ATATAATACCAGCACGAAGCCTACGGGATTTAACCCAG
1 ATATAATACCAGCACGAAGCCTGCGGGATTTAACCCAG
** *
56422359 ATATTTTACCAGCACGAAGCCTGCGGGTCTTTAAGCCCAG
1 ATATAATACCAGCACGAAGCCTGCGGG-ATTTAA-CCCAG
56422399 ATA
1 ATA
56422402 CACATCAAAT
Statistics
Matches: 70, Mismatches: 9, Indels: 2
0.86 0.11 0.02
Matches are distributed among these distances:
38 57 0.81
39 5 0.07
40 8 0.11
ACGTcount: A:0.30, C:0.26, G:0.20, T:0.24
Consensus pattern (38 bp):
ATATAATACCAGCACGAAGCCTGCGGGATTTAACCCAG
Found at i:56426079 original size:25 final size:25
Alignment explanation
Indices: 56426051--56426120 Score: 104
Period size: 25 Copynumber: 2.8 Consensus size: 25
56426041 CTCTTTTAAT
*
56426051 AACTGGGGCAAAGCCCTTTTTGATA
1 AACTGGGGCAAAGCCCTTTTCGATA
*
56426076 AACTGGGGCAAAGCCCTTTTCGGTA
1 AACTGGGGCAAAGCCCTTTTCGATA
* *
56426101 AACTAGGGCATAGCCCTTTT
1 AACTGGGGCAAAGCCCTTTT
56426121 AGCACTTCCT
Statistics
Matches: 41, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 41 1.00
ACGTcount: A:0.26, C:0.23, G:0.24, T:0.27
Consensus pattern (25 bp):
AACTGGGGCAAAGCCCTTTTCGATA
Found at i:56426355 original size:27 final size:27
Alignment explanation
Indices: 56426323--56426701 Score: 587
Period size: 27 Copynumber: 14.0 Consensus size: 27
56426313 GGGGCAAAAT
*
56426323 GGTAATTTTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
**
56426350 ATTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
56426377 GGTAATTCTACCCTACAGGGTTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
56426404 AGTAATTCTACCCTAGAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
56426431 AGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
56426458 GGTAATTCTACCCTACAGGGTTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
56426485 AGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* * *
56426512 GGTATTTCTACCCAACAAGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
56426539 GGTAATTCTACCCTACAGGGGTATTTT
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
56426566 AGTAATTCTACCATACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
56426593 GGTAATTCTACCCTACAAGGTTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
56426620 GGTAATCCTACCCTACATGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
56426647 GGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
56426674 GGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
56426701 G
1 G
56426702 ATATTTTACA
Statistics
Matches: 318, Mismatches: 34, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 318 1.00
ACGTcount: A:0.24, C:0.21, G:0.20, T:0.35
Consensus pattern (27 bp):
GGTAATTCTACCCTACAGGGGTATTTC
Found at i:56426750 original size:27 final size:26
Alignment explanation
Indices: 56426693--56426761 Score: 77
Period size: 27 Copynumber: 2.6 Consensus size: 26
56426683 ACCCTACAGG
* *
56426693 GGTATTTCGAT-ATTTTACAAATCGA
1 GGTATTTCGATAATTTCACAAATCAA
56426718 GAGTATTTCGATAATTTCACAAATCAAA
1 G-GTATTTCGATAATTTCACAAATC-AA
* *
56426746 GGTATTTTGGTAATTT
1 GGTATTTCGATAATTT
56426762 TGTAAACCAA
Statistics
Matches: 37, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
25 1 0.03
26 10 0.27
27 24 0.65
28 2 0.05
ACGTcount: A:0.33, C:0.10, G:0.16, T:0.41
Consensus pattern (26 bp):
GGTATTTCGATAATTTCACAAATCAA
Found at i:56426812 original size:54 final size:54
Alignment explanation
Indices: 56426754--56427017 Score: 312
Period size: 54 Copynumber: 4.9 Consensus size: 54
56426744 AAGGTATTTT
* * *** * *
56426754 GGTAATTTTGTAAACCAAGGGTATTTTAGTAATTTTGTAAATTGAGGGTAAAAC
1 GGTAATTTTGTAAATCGAGGGTAAAATGGTAATTTTATAAATTGAGGGTAAAAC
* *
56426808 GGTAATTTTTTAAATCGAGGGTAAAACGGTAATTTTATAAATTGAGGGTAAAAC
1 GGTAATTTTGTAAATCGAGGGTAAAATGGTAATTTTATAAATTGAGGGTAAAAC
* * * * * *
56426862 GGTAATTCTGTAAATTGAGGGTAAAATGGTAATTCTGTAAATCGAGAGTAAAAC
1 GGTAATTTTGTAAATCGAGGGTAAAATGGTAATTTTATAAATTGAGGGTAAAAC
* * * * *
56426916 GGTAATTCTATAAATTGAGGGTAAAATGGTAATTCTATAAATCGAGGGTAAAAC
1 GGTAATTTTGTAAATCGAGGGTAAAATGGTAATTTTATAAATTGAGGGTAAAAC
*** *
56426970 GGTAATTTTGTAAATCGAGGGTACTTTGGTAATTTTACAAATTGAGGG
1 GGTAATTTTGTAAATCGAGGGTAAAATGGTAATTTTATAAATTGAGGG
56427018 CATTTCAGTA
Statistics
Matches: 181, Mismatches: 29, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
54 181 1.00
ACGTcount: A:0.37, C:0.06, G:0.23, T:0.33
Consensus pattern (54 bp):
GGTAATTTTGTAAATCGAGGGTAAAATGGTAATTTTATAAATTGAGGGTAAAAC
Found at i:56426839 original size:81 final size:81
Alignment explanation
Indices: 56426782--56427017 Score: 346
Period size: 81 Copynumber: 2.9 Consensus size: 81
56426772 GGGTATTTTA
* *
56426782 GTAATTTTGTAAATTGAGGGTAAAACGGTAATTTTTTAAATCGAGGGTAAAACGGTAATTTTATA
1 GTAATTCTGTAAATTGAGGGTAAAACGGTAATTTTGTAAATCGAGGGTAAAACGGTAATTTTATA
*
56426847 AATTGAGGGTAAAACG
66 AATTGAGGGTAAAATG
* * * *
56426863 GTAATTCTGTAAATTGAGGGTAAAATGGTAATTCTGTAAATCGAGAGTAAAACGGTAATTCTATA
1 GTAATTCTGTAAATTGAGGGTAAAACGGTAATTTTGTAAATCGAGGGTAAAACGGTAATTTTATA
56426928 AATTGAGGGTAAAATG
66 AATTGAGGGTAAAATG
* * **** *
56426944 GTAATTCTATAAATCGAGGGTAAAACGGTAATTTTGTAAATCGAGGGTACTTTGGTAATTTTACA
1 GTAATTCTGTAAATTGAGGGTAAAACGGTAATTTTGTAAATCGAGGGTAAAACGGTAATTTTATA
56427009 AATTGAGGG
66 AATTGAGGG
56427018 CATTTCAGTA
Statistics
Matches: 137, Mismatches: 18, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
81 137 1.00
ACGTcount: A:0.37, C:0.06, G:0.24, T:0.33
Consensus pattern (81 bp):
GTAATTCTGTAAATTGAGGGTAAAACGGTAATTTTGTAAATCGAGGGTAAAACGGTAATTTTATA
AATTGAGGGTAAAATG
Found at i:56427005 original size:27 final size:27
Alignment explanation
Indices: 56426782--56426992 Score: 287
Period size: 27 Copynumber: 7.8 Consensus size: 27
56426772 GGGTATTTTA
*
56426782 GTAATTTTGTAAATTGAGGGTAAAACG
1 GTAATTTTGTAAATCGAGGGTAAAACG
*
56426809 GTAATTTTTTAAATCGAGGGTAAAACG
1 GTAATTTTGTAAATCGAGGGTAAAACG
* *
56426836 GTAATTTTATAAATTGAGGGTAAAACG
1 GTAATTTTGTAAATCGAGGGTAAAACG
* * *
56426863 GTAATTCTGTAAATTGAGGGTAAAATG
1 GTAATTTTGTAAATCGAGGGTAAAACG
* *
56426890 GTAATTCTGTAAATCGAGAGTAAAACG
1 GTAATTTTGTAAATCGAGGGTAAAACG
* * * *
56426917 GTAATTCTATAAATTGAGGGTAAAATG
1 GTAATTTTGTAAATCGAGGGTAAAACG
* *
56426944 GTAATTCTATAAATCGAGGGTAAAACG
1 GTAATTTTGTAAATCGAGGGTAAAACG
56426971 GTAATTTTGTAAATCGAGGGTA
1 GTAATTTTGTAAATCGAGGGTA
56426993 CTTTGGTAAT
Statistics
Matches: 166, Mismatches: 18, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 166 1.00
ACGTcount: A:0.38, C:0.06, G:0.24, T:0.32
Consensus pattern (27 bp):
GTAATTTTGTAAATCGAGGGTAAAACG
Found at i:56427011 original size:27 final size:27
Alignment explanation
Indices: 56426782--56427017 Score: 256
Period size: 27 Copynumber: 8.7 Consensus size: 27
56426772 GGGTATTTTA
* * *
56426782 GTAATTTTGTAAATTGAGGGTAAAACG
1 GTAATTTTATAAATCGAGGGTAAAATG
* *
56426809 GTAATTTTTTAAATCGAGGGTAAAACG
1 GTAATTTTATAAATCGAGGGTAAAATG
* *
56426836 GTAATTTTATAAATTGAGGGTAAAACG
1 GTAATTTTATAAATCGAGGGTAAAATG
* * *
56426863 GTAATTCTGTAAATTGAGGGTAAAATG
1 GTAATTTTATAAATCGAGGGTAAAATG
* * * *
56426890 GTAATTCTGTAAATCGAGAGTAAAACG
1 GTAATTTTATAAATCGAGGGTAAAATG
* *
56426917 GTAATTCTATAAATTGAGGGTAAAATG
1 GTAATTTTATAAATCGAGGGTAAAATG
* *
56426944 GTAATTCTATAAATCGAGGGTAAAACG
1 GTAATTTTATAAATCGAGGGTAAAATG
* ***
56426971 GTAATTTTGTAAATCGAGGGTACTTTG
1 GTAATTTTATAAATCGAGGGTAAAATG
* *
56426998 GTAATTTTACAAATTGAGGG
1 GTAATTTTATAAATCGAGGG
56427018 CATTTCAGTA
Statistics
Matches: 184, Mismatches: 25, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 184 1.00
ACGTcount: A:0.37, C:0.06, G:0.24, T:0.33
Consensus pattern (27 bp):
GTAATTTTATAAATCGAGGGTAAAATG
Found at i:56431222 original size:15 final size:16
Alignment explanation
Indices: 56431186--56431224 Score: 55
Period size: 14 Copynumber: 2.6 Consensus size: 16
56431176 GCATATTTTC
56431186 ATTCAAACATTACCAT
1 ATTCAAACATTACCAT
*
56431202 A-CCAAA-ATTACCAT
1 ATTCAAACATTACCAT
56431216 ATTCAAACA
1 ATTCAAACA
56431225 CATATATACA
Statistics
Matches: 19, Mismatches: 2, Indels: 4
0.76 0.08 0.16
Matches are distributed among these distances:
14 9 0.47
15 8 0.42
16 2 0.11
ACGTcount: A:0.49, C:0.26, G:0.00, T:0.26
Consensus pattern (16 bp):
ATTCAAACATTACCAT
Found at i:56431922 original size:23 final size:22
Alignment explanation
Indices: 56431820--56431949 Score: 109
Period size: 23 Copynumber: 5.5 Consensus size: 22
56431810 GATTCATGGT
56431820 CAGTAAGCTCTTACTGAGCTGATAAA
1 CAGTAAGCTCTT--TGAGCTG--AAA
*
56431846 CAGTAAGCTCTATTGAGCTAAAAA
1 CAGTAAGCTCT-TTGAGCT-GAAA
* *
56431870 CGGTAAGCTCTATTGAACT-AAA
1 CAGTAAGCTCT-TTGAGCTGAAA
*
56431892 CAGTAAGCTCTTTCGAGCTGAAT
1 CAGTAAGCTCTTT-GAGCTGAAA
* **
56431915 CAGTAAGCCCCAATGAGCTGAAA
1 CAGTAAG-CTCTTTGAGCTGAAA
56431938 CAGTAAGCTCTT
1 CAGTAAGCTCTT
56431950 ACAAGCTATG
Statistics
Matches: 86, Mismatches: 13, Indels: 14
0.76 0.12 0.12
Matches are distributed among these distances:
21 2 0.02
22 19 0.22
23 24 0.28
24 23 0.27
25 6 0.07
26 11 0.13
27 1 0.01
ACGTcount: A:0.35, C:0.21, G:0.19, T:0.25
Consensus pattern (22 bp):
CAGTAAGCTCTTTGAGCTGAAA
Found at i:56435904 original size:51 final size:52
Alignment explanation
Indices: 56435752--56435905 Score: 161
Period size: 53 Copynumber: 3.0 Consensus size: 52
56435742 CACATATAAT
*
56435752 ACCGATGCCATATCCCATA-TATGGTCTTATAC-GGAATCACATTATCACATCAC
1 ACCGATGCCATAGCCCA-ACTATGGTCTTATACGGGAA-CACA-TATCACATCAC
* * * * **
56435805 ACCGATGCCATAGCCCAGCTATGGTCTTTTACGGGAACACGTCTCACATTGC
1 ACCGATGCCATAGCCCAACTATGGTCTTATACGGGAACACATATCACATCAC
* * * *
56435857 ATCGATGCCATA-CCCAACTATAGTCTTAAACGGGCACACATATCACATC
1 ACCGATGCCATAGCCCAACTATGGTCTTATACGGGAACACATATCACATC
56435906 TTTTCCGTCA
Statistics
Matches: 83, Mismatches: 16, Indels: 6
0.79 0.15 0.06
Matches are distributed among these distances:
51 29 0.35
52 19 0.23
53 31 0.37
54 4 0.05
ACGTcount: A:0.30, C:0.30, G:0.15, T:0.25
Consensus pattern (52 bp):
ACCGATGCCATAGCCCAACTATGGTCTTATACGGGAACACATATCACATCAC
Done.