Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: CP032244.1 Gossypioides kirkii chromosome KI_01
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: 38174113
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 1000 characters in sequence are not A, C, G, or T
File 26 of 126
Found at i:8196532 original size:3 final size:3
Alignment explanation
Indices: 8196515--8196559 Score: 72
Period size: 3 Copynumber: 15.0 Consensus size: 3
8196505 GGGCTTCAAC
* *
8196515 AAT AAT AGT AGT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
8196560 CAAAGATCTA
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 40 1.00
ACGTcount: A:0.62, C:0.00, G:0.04, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:8197270 original size:25 final size:25
Alignment explanation
Indices: 8197242--8197291 Score: 100
Period size: 25 Copynumber: 2.0 Consensus size: 25
8197232 GTCGGTGCGG
8197242 ATGTTGATTGTGAAAGCAACATGGC
1 ATGTTGATTGTGAAAGCAACATGGC
8197267 ATGTTGATTGTGAAAGCAACATGGC
1 ATGTTGATTGTGAAAGCAACATGGC
8197292 TGTGGACTTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.32, C:0.12, G:0.28, T:0.28
Consensus pattern (25 bp):
ATGTTGATTGTGAAAGCAACATGGC
Found at i:8199464 original size:154 final size:153
Alignment explanation
Indices: 8199286--8199565 Score: 443
Period size: 153 Copynumber: 1.8 Consensus size: 153
8199276 TTGAAAGCTC
* * *
8199286 TTGAAAAGGATATCCGATTGGCATGAATCACGAAAATCACACTTAACACGTTAAAGCATGATTTT
1 TTGAAAAGGATATCCGATTCGCATGAATCACGAAAATCACACTTAACACGTTAAAGCACGA-TCT
* * *
8199351 TTCGAAGTTTTCACACGAAAGGATATTGCCTCGTTTTAAAATTATTTGTGATATAGATATATAAA
65 TTCGAAGTTTTCACACGAAAGGACATTGCCTCGCTTTAAAATTATTTGTAATATAGATATATAAA
8199416 AATTGAAGGATGTTTCGGGAACTT
130 AATTGAAGGATGTTTCGGGAACTT
* * * *
8199440 TTGAAGAGGATATTCGATTCGCATGAATTACGAAAATCACACTTAACACGTTAAAGCGCGATCTT
1 TTGAAAAGGATATCCGATTCGCATGAATCACGAAAATCACACTTAACACGTTAAAGCACGATCTT
* *
8199505 TCGAAGTTTTCACATGACAGGACATTGCCTCGCTTTAAAATTATTTGTAATATAGATATAT
66 TCGAAGTTTTCACACGAAAGGACATTGCCTCGCTTTAAAATTATTTGTAATATAGATATAT
8199566 GTTTTGAGAA
Statistics
Matches: 114, Mismatches: 12, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
153 59 0.52
154 55 0.48
ACGTcount: A:0.35, C:0.15, G:0.17, T:0.33
Consensus pattern (153 bp):
TTGAAAAGGATATCCGATTCGCATGAATCACGAAAATCACACTTAACACGTTAAAGCACGATCTT
TCGAAGTTTTCACACGAAAGGACATTGCCTCGCTTTAAAATTATTTGTAATATAGATATATAAAA
ATTGAAGGATGTTTCGGGAACTT
Found at i:8200109 original size:29 final size:28
Alignment explanation
Indices: 8200077--8200147 Score: 74
Period size: 29 Copynumber: 2.5 Consensus size: 28
8200067 CTTAGGGGCA
*
8200077 AAAATGTAATTTTAGGAAAATTC-GGGGTT
1 AAAATGTAATTTT-GGAAAATTCAAGGG-T
*
8200106 AAAATAG-AATTTTGGAAAGTTCAAGGGT
1 AAAAT-GTAATTTTGGAAAATTCAAGGGT
8200134 AAAATGATAATTTT
1 AAAATG-TAATTTT
8200148 TGGTGAAATC
Statistics
Matches: 36, Mismatches: 2, Indels: 8
0.78 0.04 0.17
Matches are distributed among these distances:
27 1 0.03
28 14 0.39
29 20 0.56
30 1 0.03
ACGTcount: A:0.42, C:0.03, G:0.21, T:0.34
Consensus pattern (28 bp):
AAAATGTAATTTTGGAAAATTCAAGGGT
Found at i:8200180 original size:31 final size:30
Alignment explanation
Indices: 8200129--8200237 Score: 95
Period size: 30 Copynumber: 3.6 Consensus size: 30
8200119 GGAAAGTTCA
*
8200129 AGGGT-AAAATGATAATTTTTGGTGAAATCG
1 AGGGTAAAAATG-GAATTTTTGGTGAAATCG
* *
8200159 AGGTTAAAAAATGGAA-TTTT--TGAAAGTTTG
1 AGGGT-AAAAATGGAATTTTTGGTGAAA--TCG
8200189 AGGGT-AAAATGGTAATTTTTGGTGAAATCG
1 AGGGTAAAAATGG-AATTTTTGGTGAAATCG
8200219 -GGGTCAAAAATGGAATTTT
1 AGGGT-AAAAATGGAATTTT
8200238 GGAAAGTTTG
Statistics
Matches: 64, Mismatches: 5, Indels: 20
0.72 0.06 0.22
Matches are distributed among these distances:
28 12 0.19
29 6 0.09
30 26 0.41
31 9 0.14
32 11 0.17
ACGTcount: A:0.37, C:0.03, G:0.27, T:0.34
Consensus pattern (30 bp):
AGGGTAAAAATGGAATTTTTGGTGAAATCG
Found at i:8200184 original size:60 final size:59
Alignment explanation
Indices: 8200077--8200245 Score: 209
Period size: 60 Copynumber: 2.9 Consensus size: 59
8200067 CTTAGGGGCA
* * * *
8200077 AAAATG-TAATTTTAGG-AAAATTCGGGGT-TAAAATAGAATTTTGGAAAGTTCAAGGGT
1 AAAATGATAATTTTTGGTGAAA-TCGGGGTAAAAAATGGAATTTTGGAAAGTTCAAGGGT
* * **
8200134 AAAATGATAATTTTTGGTGAAATCGAGGTTAAAAAATGGAATTTTTGAAAGTTTGAGGGT
1 AAAATGATAATTTTTGGTGAAATCG-GGGTAAAAAATGGAATTTTGGAAAGTTCAAGGGT
* *
8200194 AAAATGGTAATTTTTGGTGAAATCGGGGTCAAAAATGGAATTTTGGAAAGTT
1 AAAATGATAATTTTTGGTGAAATCGGGGTAAAAAATGGAATTTTGGAAAGTT
8200246 TGGGGACTAG
Statistics
Matches: 96, Mismatches: 12, Indels: 6
0.84 0.11 0.05
Matches are distributed among these distances:
57 6 0.06
58 12 0.12
59 30 0.31
60 48 0.50
ACGTcount: A:0.38, C:0.03, G:0.25, T:0.33
Consensus pattern (59 bp):
AAAATGATAATTTTTGGTGAAATCGGGGTAAAAAATGGAATTTTGGAAAGTTCAAGGGT
Found at i:8200250 original size:29 final size:28
Alignment explanation
Indices: 8200165--8200250 Score: 79
Period size: 29 Copynumber: 3.0 Consensus size: 28
8200155 ATCGAGGTTA
*
8200165 AAAAATGGAATTTTTGAAAGTTTGAGGGT
1 AAAAATGGAATTTTGGAAAGTTTG-GGGT
*
8200194 -AAAATGGTAATTTTTGGTGAAA--TCGGGGT
1 AAAAATGG-AA-TTTT-G-GAAAGTTTGGGGT
8200223 CAAAAATGGAATTTTGGAAAGTTTGGGG
1 -AAAAATGGAATTTTGGAAAGTTTGGGG
8200251 ACTAGAGAGC
Statistics
Matches: 46, Mismatches: 3, Indels: 16
0.71 0.05 0.25
Matches are distributed among these distances:
27 4 0.09
28 8 0.17
29 15 0.33
30 8 0.17
31 7 0.15
32 4 0.09
ACGTcount: A:0.35, C:0.02, G:0.30, T:0.33
Consensus pattern (28 bp):
AAAAATGGAATTTTGGAAAGTTTGGGGT
Found at i:8202148 original size:17 final size:16
Alignment explanation
Indices: 8202128--8202169 Score: 50
Period size: 17 Copynumber: 2.6 Consensus size: 16
8202118 GTTTCAAATT
8202128 ATTTTAAATGTATTTAA
1 ATTTTAAATGT-TTTAA
*
8202145 ATTTAAAATTGTTTTAA
1 ATTTTAAA-TGTTTTAA
8202162 A-TTTAAAT
1 ATTTTAAAT
8202170 ACATTTAAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
15 1 0.05
16 5 0.23
17 13 0.59
18 3 0.14
ACGTcount: A:0.43, C:0.00, G:0.05, T:0.52
Consensus pattern (16 bp):
ATTTTAAATGTTTTAA
Found at i:8202151 original size:16 final size:16
Alignment explanation
Indices: 8202130--8202183 Score: 56
Period size: 16 Copynumber: 3.3 Consensus size: 16
8202120 TTCAAATTAT
8202130 TTTAAATGTATTTAAA
1 TTTAAATGTATTTAAA
8202146 TTTAAAATTGT-TTTAAA
1 TTT-AAA-TGTATTTAAA
**
8202163 TTTAAATACATTTAAA
1 TTTAAATGTATTTAAA
*
8202179 ATTAA
1 TTTAA
8202184 TTCAAGCTTA
Statistics
Matches: 32, Mismatches: 3, Indels: 6
0.78 0.07 0.15
Matches are distributed among these distances:
15 1 0.03
16 16 0.50
17 12 0.38
18 3 0.09
ACGTcount: A:0.46, C:0.02, G:0.04, T:0.48
Consensus pattern (16 bp):
TTTAAATGTATTTAAA
Found at i:8202153 original size:27 final size:27
Alignment explanation
Indices: 8202113--8202182 Score: 77
Period size: 27 Copynumber: 2.6 Consensus size: 27
8202103 TTAATTTAAT
* *
8202113 TTTAAGTTTCAAATTATTTTAAATGTA
1 TTTAAATTTAAAATTATTTTAAATGTA
* *
8202140 TTTAAATTTAAAATTGTTTTAAATTTA
1 TTTAAATTTAAAATTATTTTAAATGTA
** *
8202167 AATACATTTAAAATTA
1 TTTAAATTTAAAATTA
8202183 ATTCAAGCTT
Statistics
Matches: 35, Mismatches: 8, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
27 35 1.00
ACGTcount: A:0.43, C:0.03, G:0.04, T:0.50
Consensus pattern (27 bp):
TTTAAATTTAAAATTATTTTAAATGTA
Found at i:8202935 original size:200 final size:200
Alignment explanation
Indices: 8202583--8203980 Score: 2144
Period size: 200 Copynumber: 7.0 Consensus size: 200
8202573 CAATCATCTA
*
8202583 TTTTAATTCGCTTCTCTGGATCTCCTCAGAAAGACGAATTTGGTCCACTTCTCTGTGTCTCATCA
1 TTTTAATTCGCTTCTCTGGATCTCCTCAGGAAGACGAATTTGGTCCACTTCTCTGTGTCTCATCA
* **
8202648 AGAAGCTAACCTTTTTATTGCTTCGACCTGCTTCTCAGTACCTCATCAGGAAGCTGGGTTCGAAG
66 GGAAGCTAACCTTTTTATTGCTTCGACCTGCTTCTCAGTGTCTCATCAGGAAGCTGGGTTCGAAG
* * **
8202713 ATTTTCTCGCGTTGAGCGTTGAGTTGGTATTCTTCTCTGTATCTCATAAGGAAGATGACCATCTC
131 ATTTGCTCGCGTTGAGCGTTGAGTTGGTATTCTTCTCTGTATCTCATCAGGAAGATGACCGCCTC
8202778 GCTTG
196 GCTTG
* * ** *
8202783 TTTCAATTTGCTTCTCTGGATCTCCTCAGGAAGATAAATTTGGTCCACTTCTCTGTGTCTCATTA
1 TTTTAATTCGCTTCTCTGGATCTCCTCAGGAAGACGAATTTGGTCCACTTCTCTGTGTCTCATCA
* * * * *
8202848 GGAAGCTAACCATTTTATTGTTTCAACCTGCTTCTCAATGTCTAATCAGGAAGCTGGGTTCGAAG
66 GGAAGCTAACCTTTTTATTGCTTCGACCTGCTTCTCAGTGTCTCATCAGGAAGCTGGGTTCGAAG
*
8202913 ATTTGCTCGCATTGAGCGTTGAGTTGGTATTCTTCTCTGTATCTCATCAGGAAGATGACCGCCTC
131 ATTTGCTCGCGTTGAGCGTTGAGTTGGTATTCTTCTCTGTATCTCATCAGGAAGATGACCGCCTC
8202978 GCTTG
196 GCTTG
*
8202983 TTTTAATTCGCTTCTCTGGATCTCCTTAGGAAGACGAATTTGGTCCACTTCTCTGTGTCTCATCA
1 TTTTAATTCGCTTCTCTGGATCTCCTCAGGAAGACGAATTTGGTCCACTTCTCTGTGTCTCATCA
* * * * *
8203048 AGAAGCTAACCATTTTATTGTTTCGGCCTGCTTCTCAGTGTCTCATCAGAAAGCTGGGTTCGAAG
66 GGAAGCTAACCTTTTTATTGCTTCGACCTGCTTCTCAGTGTCTCATCAGGAAGCTGGGTTCGAAG
* *
8203113 ATTTGCTCGCTTTGAGCGTTGAGTTGGTATTCTTCTCTGTATCTCATCAAGAAGATGACCGCCTC
131 ATTTGCTCGCGTTGAGCGTTGAGTTGGTATTCTTCTCTGTATCTCATCAGGAAGATGACCGCCTC
*
8203178 GATTG
196 GCTTG
* *
8203183 TTTTAATTCGCTTCTTTGGATCTCCTCAGGAAGACGAATTTGGTCTACTTCTCTGTGTCTCATCA
1 TTTTAATTCGCTTCTCTGGATCTCCTCAGGAAGACGAATTTGGTCCACTTCTCTGTGTCTCATCA
* * *
8203248 GGAAGCTAACCTTTTTATTACTTCGACCTGCTTCTCAGTGTCTCATCAGGATGTTGGGTTCGAAG
66 GGAAGCTAACCTTTTTATTGCTTCGACCTGCTTCTCAGTGTCTCATCAGGAAGCTGGGTTCGAAG
* * * * *
8203313 ATTTGCTCGTGTTTGAGCGCTGAGTTTGTGTTCTTCTTTGTATCTCATCAGGAAGATGACCGCCT
131 ATTTGCTCGCG-TTGAGCGTTGAGTTGGTATTCTTCTCTGTATCTCATCAGGAAGATGACCGCCT
8203378 CAG-TTG
195 C-GCTTG
* *
8203384 TTTTAATTCGCTTCTCTGGGTCTCCTCAGGAAGATGAATTTGGTCCACTTCTCTGTGTCTCATCA
1 TTTTAATTCGCTTCTCTGGATCTCCTCAGGAAGACGAATTTGGTCCACTTCTCTGTGTCTCATCA
*
8203449 GGAAGCTAACCTTTTTATTGCTTCGACCTGCTTCT-AGTATCTCATCAGGAAGCTGGGTTCGAAG
66 GGAAGCTAACCTTTTTATTGCTTCGACCTGCTTCTCAGTGTCTCATCAGGAAGCTGGGTTCGAAG
*
8203513 ATTTGCTCGCGTTGAGCGTTGAGTTGGTATTCTTCTCTGTATCTCATCAGGAAGATGACCGCCTT
131 ATTTGCTCGCGTTGAGCGTTGAGTTGGTATTCTTCTCTGTATCTCATCAGGAAGATGACCGCCTC
*
8203578 GGTTG
196 GCTTG
* * * *
8203583 TTTTAATTCGCTTCTCTGGATCTCCTCAGGAAGAAGAATTTGGTCCACTTCTGTGTGTCCCATTA
1 TTTTAATTCGCTTCTCTGGATCTCCTCAGGAAGACGAATTTGGTCCACTTCTCTGTGTCTCATCA
*
8203648 GGAAGCTAACCTTTTTATTGCTTCGACTTGCTTCTCAGTGTCTCATCAGGAAGCTGGGTTCGAAG
66 GGAAGCTAACCTTTTTATTGCTTCGACCTGCTTCTCAGTGTCTCATCAGGAAGCTGGGTTCGAAG
* * ** * * * *
8203713 ATTTGTTCGTGTTGAGCACTGAGTTGGTGTTCTTCTCTGTATCTCATTAGAAAGATGACTGCCTC
131 ATTTGCTCGCGTTGAGCGTTGAGTTGGTATTCTTCTCTGTATCTCATCAGGAAGATGACCGCCTC
*
8203778 GGTTG
196 GCTTG
* * *
8203783 TTTTAATTCGCTTCTCTAGATCTTCTTAGGAAGACGAATTTGGTCCACTTCTCTGTGTCTCATCA
1 TTTTAATTCGCTTCTCTGGATCTCCTCAGGAAGACGAATTTGGTCCACTTCTCTGTGTCTCATCA
*
8203848 GGAAGCTAACCTTTTTATTGCTTCGACCTGCTTCTTAGTGTCTCATCAGGAAGCTGGGTTCGAAG
66 GGAAGCTAACCTTTTTATTGCTTCGACCTGCTTCTCAGTGTCTCATCAGGAAGCTGGGTTCGAAG
* * * *
8203913 ATTTGCTCGTGTTGAGCGCTGAGTTGGTGTTCTTCTCTG----T-ATCAGGAAGATGACCGCCTT
131 ATTTGCTCGCGTTGAGCGTTGAGTTGGTATTCTTCTCTGTATCTCATCAGGAAGATGACCGCCTC
8203973 GCTTG
196 GCTTG
8203978 TTT
1 TTT
8203981 GTTGAACTAC
Statistics
Matches: 1096, Mismatches: 98, Indels: 13
0.91 0.08 0.01
Matches are distributed among these distances:
195 23 0.02
196 1 0.00
198 1 0.00
199 146 0.13
200 777 0.71
201 147 0.13
202 1 0.00
ACGTcount: A:0.19, C:0.22, G:0.22, T:0.37
Consensus pattern (200 bp):
TTTTAATTCGCTTCTCTGGATCTCCTCAGGAAGACGAATTTGGTCCACTTCTCTGTGTCTCATCA
GGAAGCTAACCTTTTTATTGCTTCGACCTGCTTCTCAGTGTCTCATCAGGAAGCTGGGTTCGAAG
ATTTGCTCGCGTTGAGCGTTGAGTTGGTATTCTTCTCTGTATCTCATCAGGAAGATGACCGCCTC
GCTTG
Found at i:8213561 original size:154 final size:153
Alignment explanation
Indices: 8213383--8213662 Score: 407
Period size: 153 Copynumber: 1.8 Consensus size: 153
8213373 TTGAAAGCTC
* * *
8213383 TTGAAAAGGATATCCGATTGGCATGAATCACGAAAATCACACTTAACACGTTAAAGCGCGATTTT
1 TTGAAAAGGATATCCGATTCGCATGAATCACGAAAATCACACATAACACGTTAAAGCGCGA-TCT
* * * *
8213448 TTTGAAGTTTTCACAGGAAAGGACATTGCCTCGTTTTAAAATTATTTGTGATATAGATATATAAA
65 TTCGAAGTCTTCACAGGAAAGGACATTGCCTCGCTTTAAAATTATTTGTAATATAGATATATAAA
8213513 AATTGAAGGATGTTTCGGGAACTT
130 AATTGAAGGATGTTTCGGGAACTT
* ** * * *
8213537 TTGAAGAGGATATTTGATTCGCATGATTTATGAAAATCACACATAACACGTTAAAGCGCGATCTT
1 TTGAAAAGGATATCCGATTCGCATGAATCACGAAAATCACACATAACACGTTAAAGCGCGATCTT
* * *
8213602 TCGAAGTCTTCACATGACAGGACATTGCCTCGCTTTAAAATTATTTTTAATATAGATATAT
66 TCGAAGTCTTCACAGGAAAGGACATTGCCTCGCTTTAAAATTATTTGTAATATAGATATAT
8213663 GTTTTGAGAA
Statistics
Matches: 110, Mismatches: 16, Indels: 1
0.87 0.13 0.01
Matches are distributed among these distances:
153 57 0.52
154 53 0.48
ACGTcount: A:0.35, C:0.14, G:0.18, T:0.33
Consensus pattern (153 bp):
TTGAAAAGGATATCCGATTCGCATGAATCACGAAAATCACACATAACACGTTAAAGCGCGATCTT
TCGAAGTCTTCACAGGAAAGGACATTGCCTCGCTTTAAAATTATTTGTAATATAGATATATAAAA
ATTGAAGGATGTTTCGGGAACTT
Found at i:8215752 original size:17 final size:17
Alignment explanation
Indices: 8215732--8215821 Score: 72
Period size: 17 Copynumber: 5.8 Consensus size: 17
8215722 TTTTAAATGT
8215732 ATTTAAATTTAAAACAA
1 ATTTAAATTTAAAACAA
8215749 ATTTAAATTT-----AA
1 ATTTAAATTTAAAACAA
8215761 A--TAAATTTAAAACAA
1 ATTTAAATTTAAAACAA
*
8215776 ATTTAAATTT-AAATAA
1 ATTTAAATTTAAAACAA
* **
8215792 ATTTAAAATTAATTCAA
1 ATTTAAATTTAAAACAA
*
8215809 ACTT-AATTTAAAA
1 ATTTAAATTTAAAA
8215822 TCCAAGTTGG
Statistics
Matches: 56, Mismatches: 9, Indels: 17
0.68 0.11 0.21
Matches are distributed among these distances:
10 7 0.12
12 3 0.05
15 3 0.05
16 20 0.36
17 23 0.41
ACGTcount: A:0.57, C:0.04, G:0.00, T:0.39
Consensus pattern (17 bp):
ATTTAAATTTAAAACAA
Found at i:8215814 original size:27 final size:27
Alignment explanation
Indices: 8215735--8215799 Score: 130
Period size: 27 Copynumber: 2.4 Consensus size: 27
8215725 TAAATGTATT
8215735 TAAATTTAAAACAAATTTAAATTTAAA
1 TAAATTTAAAACAAATTTAAATTTAAA
8215762 TAAATTTAAAACAAATTTAAATTTAAA
1 TAAATTTAAAACAAATTTAAATTTAAA
8215789 TAAATTTAAAA
1 TAAATTTAAAA
8215800 TTAATTCAAA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 38 1.00
ACGTcount: A:0.60, C:0.03, G:0.00, T:0.37
Consensus pattern (27 bp):
TAAATTTAAAACAAATTTAAATTTAAA
Found at i:8219307 original size:30 final size:32
Alignment explanation
Indices: 8219271--8219343 Score: 105
Period size: 30 Copynumber: 2.3 Consensus size: 32
8219261 TTTAATTTAA
*
8219271 ATTTATTTAAGTTTA-TT-TTATTGATTTTTT
1 ATTTATTTAAGTTTATTTCTTATTAATTTTTT
*
8219301 ATTTATTTAAGTTTATTTCTTTTTAATTTTTT
1 ATTTATTTAAGTTTATTTCTTATTAATTTTTT
8219333 ATTTAATTTAA
1 ATTT-ATTTAA
8219344 ATTTTCTTTA
Statistics
Matches: 38, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
30 15 0.39
31 2 0.05
32 15 0.39
33 6 0.16
ACGTcount: A:0.26, C:0.01, G:0.04, T:0.68
Consensus pattern (32 bp):
ATTTATTTAAGTTTATTTCTTATTAATTTTTT
Found at i:8219965 original size:18 final size:19
Alignment explanation
Indices: 8219944--8219979 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
8219934 TTCAATTAGA
*
8219944 TTTTGATTATAT-TTATAT
1 TTTTAATTATATATTATAT
8219962 TTTTAATTATATATTATA
1 TTTTAATTATATATTATA
8219980 ATTTGTATGA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 11 0.69
19 5 0.31
ACGTcount: A:0.33, C:0.00, G:0.03, T:0.64
Consensus pattern (19 bp):
TTTTAATTATATATTATAT
Found at i:8220051 original size:15 final size:15
Alignment explanation
Indices: 8220031--8220060 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
8220021 ATTTCAATTC
8220031 GTATTAATTAAACTT
1 GTATTAATTAAACTT
8220046 GTATTAATTAAACTT
1 GTATTAATTAAACTT
8220061 AAATTTCGTT
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:0.40, C:0.07, G:0.07, T:0.47
Consensus pattern (15 bp):
GTATTAATTAAACTT
Found at i:8220109 original size:54 final size:54
Alignment explanation
Indices: 8220041--8220208 Score: 211
Period size: 54 Copynumber: 3.2 Consensus size: 54
8220031 GTATTAATTA
* * *
8220041 AACTTGTATTAATTAAACTTAAATTTCGTTTCATTTCAGTTTAAATTAAACTTC
1 AACTTGTATTAATTAAACTTAAATTTCATGTCATTTCAATTTAAATTAAACTTC
* * *
8220095 AACTTGTATTAATTAAACTTAAATTTAATGTCATTTCAATTTAAATTTAATTTC
1 AACTTGTATTAATTAAACTTAAATTTCATGTCATTTCAATTTAAATTAAACTTC
* * * *
8220149 AACTTGTATTAATTAAACTT-AATTTCA----ACTTAAATTTAAATTAAAGTTG
1 AACTTGTATTAATTAAACTTAAATTTCATGTCATTTCAATTTAAATTAAACTTC
8220198 AACTTGTATTA
1 AACTTGTATTA
8220209 TAATTTTGAA
Statistics
Matches: 102, Mismatches: 12, Indels: 5
0.86 0.10 0.04
Matches are distributed among these distances:
49 28 0.27
53 6 0.06
54 68 0.67
ACGTcount: A:0.39, C:0.10, G:0.05, T:0.46
Consensus pattern (54 bp):
AACTTGTATTAATTAAACTTAAATTTCATGTCATTTCAATTTAAATTAAACTTC
Found at i:8230656 original size:29 final size:30
Alignment explanation
Indices: 8230602--8230659 Score: 75
Period size: 30 Copynumber: 1.9 Consensus size: 30
8230592 CAAGTTTTAG
*
8230602 AAAATTCATAAAAAAATGAAATCAAATATTA
1 AAAATTCACAAAAAAA-GAAATCAAATATTA
8230633 AAAATT-ACAAAAAAA-AAATCCAAATAT
1 AAAATTCACAAAAAAAGAAAT-CAAATAT
8230660 AATCAAATTA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
28 4 0.16
29 7 0.28
30 8 0.32
31 6 0.24
ACGTcount: A:0.67, C:0.09, G:0.02, T:0.22
Consensus pattern (30 bp):
AAAATTCACAAAAAAAGAAATCAAATATTA
Found at i:8230673 original size:29 final size:28
Alignment explanation
Indices: 8230610--8230673 Score: 69
Period size: 29 Copynumber: 2.2 Consensus size: 28
8230600 AGAAAATTCA
*
8230610 TAAAAAAATGAAATCAAATATTAAAAAT
1 TAAAAAAATAAAATCAAATATTAAAAAT
8230638 TACAAAAAA-AAAATCCAAATA-TAATCAAAT
1 TA-AAAAAATAAAAT-CAAATATTAA--AAAT
8230668 TAAAAA
1 TAAAAA
8230674 GCCTTATAAA
Statistics
Matches: 31, Mismatches: 1, Indels: 7
0.79 0.03 0.18
Matches are distributed among these distances:
28 9 0.29
29 16 0.52
30 6 0.19
ACGTcount: A:0.69, C:0.08, G:0.02, T:0.22
Consensus pattern (28 bp):
TAAAAAAATAAAATCAAATATTAAAAAT
Found at i:8231297 original size:17 final size:17
Alignment explanation
Indices: 8231277--8231313 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 17
8231267 AAAATAGAAG
8231277 AAAAACAAAATATAAAA
1 AAAAACAAAATATAAAA
**
8231294 AAAAACTGAATATAAAA
1 AAAAACAAAATATAAAA
8231311 AAA
1 AAA
8231314 GAAAGGGGCA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.78, C:0.05, G:0.03, T:0.14
Consensus pattern (17 bp):
AAAAACAAAATATAAAA
Found at i:8232331 original size:24 final size:22
Alignment explanation
Indices: 8232279--8232346 Score: 84
Period size: 24 Copynumber: 3.0 Consensus size: 22
8232269 TAAAATATTG
8232279 ATTTAACTCTT-ATATTTTAAA
1 ATTTAACTCTTAATATTTTAAA
* *
8232300 ATTTAACTCTTAATTTTTTAGTTA
1 ATTTAACTCTTAATATTTTA--AA
*
8232324 ATTTAACTTTTAATATTTTAAA
1 ATTTAACTCTTAATATTTTAAA
8232346 A
1 A
8232347 AGAATCAAAT
Statistics
Matches: 39, Mismatches: 5, Indels: 5
0.80 0.10 0.10
Matches are distributed among these distances:
21 11 0.28
22 9 0.23
24 19 0.49
ACGTcount: A:0.37, C:0.07, G:0.01, T:0.54
Consensus pattern (22 bp):
ATTTAACTCTTAATATTTTAAA
Found at i:8232358 original size:31 final size:30
Alignment explanation
Indices: 8232323--8232387 Score: 78
Period size: 31 Copynumber: 2.1 Consensus size: 30
8232313 TTTTTTAGTT
* * *
8232323 AATTTAACTT-TTAATATTTTAAAAAGAATCA
1 AATTTAA-TTATTAACATTTCAAAAAAAAT-A
8232354 AATTTAATTATTAACATTTCAAAAAAAATA
1 AATTTAATTATTAACATTTCAAAAAAAATA
8232384 AATT
1 AATT
8232388 GTTGTTTTTT
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
30 7 0.23
31 23 0.77
ACGTcount: A:0.52, C:0.06, G:0.02, T:0.40
Consensus pattern (30 bp):
AATTTAATTATTAACATTTCAAAAAAAATA
Found at i:8232693 original size:24 final size:23
Alignment explanation
Indices: 8232666--8232711 Score: 56
Period size: 24 Copynumber: 2.0 Consensus size: 23
8232656 AAATGATTTG
*
8232666 ATTATTGACCAAATTAATTAAAAA
1 ATTAATGACCAAATT-ATTAAAAA
**
8232690 ATTAATGATTAAATTATTAAAA
1 ATTAATGACCAAATTATTAAAA
8232712 TATATAAATA
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
23 7 0.37
24 12 0.63
ACGTcount: A:0.54, C:0.04, G:0.04, T:0.37
Consensus pattern (23 bp):
ATTAATGACCAAATTATTAAAAA
Found at i:8232724 original size:24 final size:24
Alignment explanation
Indices: 8232676--8232725 Score: 59
Period size: 24 Copynumber: 2.1 Consensus size: 24
8232666 ATTATTGACC
*
8232676 AAATTAATTAAAAAATTAATGATT
1 AAATTAATTAAAAAATAAATGATT
8232700 AAATT-ATTAAAATATATAAAT-ATT
1 AAATTAATTAAAA-A-ATAAATGATT
8232724 AA
1 AA
8232726 GAATTAAATT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
23 7 0.30
24 11 0.48
25 5 0.22
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.38
Consensus pattern (24 bp):
AAATTAATTAAAAAATAAATGATT
Found at i:8233670 original size:15 final size:16
Alignment explanation
Indices: 8233650--8233679 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
8233640 TCTGATCAAC
8233650 TATGTGAA-AATTTCT
1 TATGTGAAGAATTTCT
8233665 TATGTGAAGAATTTC
1 TATGTGAAGAATTTC
8233680 AAGTTGAAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 8 0.57
16 6 0.43
ACGTcount: A:0.33, C:0.07, G:0.17, T:0.43
Consensus pattern (16 bp):
TATGTGAAGAATTTCT
Found at i:8234153 original size:39 final size:39
Alignment explanation
Indices: 8234109--8234183 Score: 105
Period size: 39 Copynumber: 1.9 Consensus size: 39
8234099 AATTAATAAT
* * * *
8234109 TAAATCATATAACTTAGACCAATAATTAATGCTAATGAC
1 TAAATCATAGAAATTACACCAATAATTAAAGCTAATGAC
*
8234148 TAAATCATGGAAATTACACCAATAATTAAAGCTAAT
1 TAAATCATAGAAATTACACCAATAATTAAAGCTAAT
8234184 AATTATCCGT
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
39 31 1.00
ACGTcount: A:0.48, C:0.15, G:0.08, T:0.29
Consensus pattern (39 bp):
TAAATCATAGAAATTACACCAATAATTAAAGCTAATGAC
Found at i:8235541 original size:6 final size:6
Alignment explanation
Indices: 8235530--8235569 Score: 71
Period size: 6 Copynumber: 6.7 Consensus size: 6
8235520 ATTAACGTGA
*
8235530 CGTCTG CGTCTG CGTCTG CGTCTG CGTCTG CATCTG CGTC
1 CGTCTG CGTCTG CGTCTG CGTCTG CGTCTG CGTCTG CGTC
8235570 CCTACATTTT
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
6 32 1.00
ACGTcount: A:0.03, C:0.35, G:0.30, T:0.33
Consensus pattern (6 bp):
CGTCTG
Found at i:8235754 original size:22 final size:23
Alignment explanation
Indices: 8235720--8235786 Score: 57
Period size: 22 Copynumber: 2.8 Consensus size: 23
8235710 TTAAATATTG
*
8235720 ATTTAAATTTTATATTTT-TTAA
1 ATTTAAATCTTATATTTTATTAA
* *
8235742 ATTTAACTCTTATTTTTTAATTAA
1 ATTTAAATCTTATATTTT-ATTAA
8235766 ATTTTAAA-CTTTAATATTTTA
1 A-TTTAAATC-TT-ATATTTTA
8235787 AAAGAGTCCA
Statistics
Matches: 35, Mismatches: 5, Indels: 7
0.74 0.11 0.15
Matches are distributed among these distances:
22 15 0.43
24 6 0.17
25 8 0.23
26 6 0.17
ACGTcount: A:0.36, C:0.04, G:0.00, T:0.60
Consensus pattern (23 bp):
ATTTAAATCTTATATTTTATTAA
Found at i:8236012 original size:8 final size:8
Alignment explanation
Indices: 8235983--8236028 Score: 56
Period size: 8 Copynumber: 5.4 Consensus size: 8
8235973 TTTTATTTTA
8235983 TTTTTAAT
1 TTTTTAAT
*
8235991 TTTTATGAT
1 TTTT-TAAT
8236000 CTTTTTAAT
1 -TTTTTAAT
8236009 TTTTTAATT
1 TTTTTAA-T
8236018 TTTTTAAT
1 TTTTTAAT
8236026 TTT
1 TTT
8236029 AAATTATTTG
Statistics
Matches: 33, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
8 15 0.45
9 14 0.42
10 4 0.12
ACGTcount: A:0.22, C:0.02, G:0.02, T:0.74
Consensus pattern (8 bp):
TTTTTAAT
Found at i:8236020 original size:9 final size:9
Alignment explanation
Indices: 8235983--8236028 Score: 58
Period size: 9 Copynumber: 5.2 Consensus size: 9
8235973 TTTTATTTTA
8235983 TTTTTAATT
1 TTTTTAATT
* * *
8235992 TTTATGATC
1 TTTTTAATT
8236001 TTTTTAA-T
1 TTTTTAATT
8236009 TTTTTAATT
1 TTTTTAATT
8236018 TTTTTAATT
1 TTTTTAATT
8236027 TT
1 TT
8236029 AAATTATTTG
Statistics
Matches: 30, Mismatches: 6, Indels: 2
0.79 0.16 0.05
Matches are distributed among these distances:
8 7 0.23
9 23 0.77
ACGTcount: A:0.22, C:0.02, G:0.02, T:0.74
Consensus pattern (9 bp):
TTTTTAATT
Found at i:8236021 original size:17 final size:18
Alignment explanation
Indices: 8235983--8236028 Score: 67
Period size: 17 Copynumber: 2.6 Consensus size: 18
8235973 TTTTATTTTA
*
8235983 TTTTTAATTTTTATGATC
1 TTTTTAATTTTTATAATC
*
8236001 TTTTTAATTTTT-TAATT
1 TTTTTAATTTTTATAATC
8236018 TTTTTAATTTT
1 TTTTTAATTTT
8236029 AAATTATTTG
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
17 14 0.54
18 12 0.46
ACGTcount: A:0.22, C:0.02, G:0.02, T:0.74
Consensus pattern (18 bp):
TTTTTAATTTTTATAATC
Found at i:8239996 original size:15 final size:16
Alignment explanation
Indices: 8239978--8240007 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
8239968 TTTGTTGTGT
8239978 TTTCA-ACAAATTTTC
1 TTTCACACAAATTTTC
8239993 TTTCACACAAATTTT
1 TTTCACACAAATTTT
8240008 TTTTGCCTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.33, C:0.20, G:0.00, T:0.47
Consensus pattern (16 bp):
TTTCACACAAATTTTC
Found at i:8242074 original size:28 final size:28
Alignment explanation
Indices: 8242043--8242105 Score: 74
Period size: 28 Copynumber: 2.2 Consensus size: 28
8242033 AAAACGAGGC
*
8242043 TTTTGGA-TACCCGGGGGCAAAATGGTAA
1 TTTTGGACT-CCCGAGGGCAAAATGGTAA
** *
8242071 TTTTGGACTTTCGAGGGCAAAATTGTAA
1 TTTTGGACTCCCGAGGGCAAAATGGTAA
8242099 TTTTGGA
1 TTTTGGA
8242106 GAAATCGAGG
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
28 29 0.97
29 1 0.03
ACGTcount: A:0.27, C:0.11, G:0.29, T:0.33
Consensus pattern (28 bp):
TTTTGGACTCCCGAGGGCAAAATGGTAA
Found at i:8242240 original size:30 final size:30
Alignment explanation
Indices: 8242204--8242346 Score: 135
Period size: 30 Copynumber: 4.5 Consensus size: 30
8242194 AAGGTTCGGA
8242204 GTTAAAATGTAATTTTGGAAAAGTTTTAGG
1 GTTAAAATGTAATTTTGGAAAAGTTTTAGG
*
8242234 GTTAAAATGTAATATTGGAAAAGTTTTAGG
1 GTTAAAATGTAATTTTGGAAAAGTTTTAGG
* *
8242264 GTTTTAGGGTCAAAATGTAATATTGGAAAAGTTTTGGG
1 G---T----T-AAAATGTAATTTTGGAAAAGTTTTAGG
* * * *
8242302 GTCAAAATATAATTTTGGAAAA-ATTTGGG
1 GTTAAAATGTAATTTTGGAAAAGTTTTAGG
*
8242331 GTTAAAATATAATTTT
1 GTTAAAATGTAATTTT
8242347 TGGACAGTTT
Statistics
Matches: 98, Mismatches: 7, Indels: 17
0.80 0.06 0.14
Matches are distributed among these distances:
29 21 0.21
30 47 0.48
33 1 0.01
35 1 0.01
37 1 0.01
38 27 0.28
ACGTcount: A:0.38, C:0.01, G:0.22, T:0.38
Consensus pattern (30 bp):
GTTAAAATGTAATTTTGGAAAAGTTTTAGG
Found at i:8242279 original size:38 final size:38
Alignment explanation
Indices: 8242226--8242303 Score: 138
Period size: 38 Copynumber: 2.1 Consensus size: 38
8242216 TTTTGGAAAA
*
8242226 GTTTTAGGGTTAAAATGTAATATTGGAAAAGTTTTAGG
1 GTTTTAGGGTCAAAATGTAATATTGGAAAAGTTTTAGG
*
8242264 GTTTTAGGGTCAAAATGTAATATTGGAAAAGTTTTGGG
1 GTTTTAGGGTCAAAATGTAATATTGGAAAAGTTTTAGG
8242302 GT
1 GT
8242304 CAAAATATAA
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
38 38 1.00
ACGTcount: A:0.32, C:0.01, G:0.28, T:0.38
Consensus pattern (38 bp):
GTTTTAGGGTCAAAATGTAATATTGGAAAAGTTTTAGG
Found at i:8244117 original size:17 final size:17
Alignment explanation
Indices: 8244097--8244142 Score: 65
Period size: 17 Copynumber: 2.7 Consensus size: 17
8244087 TTATAATAAT
*
8244097 TTTAAATTTAATCCAAA
1 TTTAAATTAAATCCAAA
*
8244114 TTTAAATTAAATTCAAA
1 TTTAAATTAAATCCAAA
*
8244131 TTTAAAATAAAT
1 TTTAAATTAAAT
8244143 TTAATTTTAA
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 26 1.00
ACGTcount: A:0.52, C:0.07, G:0.00, T:0.41
Consensus pattern (17 bp):
TTTAAATTAAATCCAAA
Found at i:8244143 original size:17 final size:17
Alignment explanation
Indices: 8244110--8244164 Score: 74
Period size: 17 Copynumber: 3.2 Consensus size: 17
8244100 AAATTTAATC
*
8244110 CAAATTTAAATTAAATT
1 CAAATTTAAAATAAATT
8244127 CAAATTTAAAATAAATT
1 CAAATTTAAAATAAATT
* * *
8244144 TAATTTTAAAACAAATT
1 CAAATTTAAAATAAATT
8244161 CAAA
1 CAAA
8244165 ATGGTTTGAT
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
17 32 1.00
ACGTcount: A:0.56, C:0.07, G:0.00, T:0.36
Consensus pattern (17 bp):
CAAATTTAAAATAAATT
Found at i:8244568 original size:92 final size:92
Alignment explanation
Indices: 8244428--8245613 Score: 1914
Period size: 92 Copynumber: 12.9 Consensus size: 92
8244418 CGAGGTTTCG
* *
8244428 TCTTGCTCTTA-TTCAATTTCAGAGGGACGAAGGCTTGGTATCCAGCTTTACTTCAATTTCAAGA
1 TCTTACTCTTACTTCAATTTCAGAGGGACGAAGGCTTGATATCCAGCTTTACTTCAATTTCAAGA
* *
8244492 GGATAGGAGAATGATGTTGGTCCTTCA
66 GGATAGGAAAATGATGTTGGTGCTTCA
* * * * *
8244519 TCTTGCTCTTACTTCAACTTCAGAGAGACAAAAGCTTGATATCCAGCTTTACTTCAATTTCAAGA
1 TCTTACTCTTACTTCAATTTCAGAGGGACGAAGGCTTGATATCCAGCTTTACTTCAATTTCAAGA
8244584 GGATAGGAAAATGATGTTGGTGCTTCA
66 GGATAGGAAAATGATGTTGGTGCTTCA
* * *
8244611 TCTTACTCTTACTTCAATTTCAGAGAGACAAAAGCTTGATATCCAGCTTTACTTCAATTTCAAGA
1 TCTTACTCTTACTTCAATTTCAGAGGGACGAAGGCTTGATATCCAGCTTTACTTCAATTTCAAGA
*
8244676 GGATAGGAAAATGATGTTGGTCCTTCA
66 GGATAGGAAAATGATGTTGGTGCTTCA
* * * *
8244703 TCTTGCTCTTACTTCAACTTCAGAGAGAC-AACAGCTTGATATCCAGCTTTACTTCAATTTCAAG
1 TCTTACTCTTACTTCAATTTCAGAGGGACGAA-GGCTTGATATCCAGCTTTACTTCAATTTCAAG
*
8244767 AGGACAGGAAAATGATGTTGGTGCTTCA
65 AGGATAGGAAAATGATGTTGGTGCTTCA
* * *
8244795 TCTTACTCTTACTTCAATTTCAGAGAGACAAAAGCTTGATATCCAGCTTTACTTCAATTTCAAGA
1 TCTTACTCTTACTTCAATTTCAGAGGGACGAAGGCTTGATATCCAGCTTTACTTCAATTTCAAGA
8244860 GGATAGGAAAATGATGTTGGTGCTTCA
66 GGATAGGAAAATGATGTTGGTGCTTCA
* * *
8244887 TCTTACTCTTACTTCAATTCCAGAGGGATGAAGGCTTGTTATCCAGCTTTACTTCAATTTCAAGA
1 TCTTACTCTTACTTCAATTTCAGAGGGACGAAGGCTTGATATCCAGCTTTACTTCAATTTCAAGA
*
8244952 GGATAGGAAAA-GATGTCGGTGCTTCA
66 GGATAGGAAAATGATGTTGGTGCTTCA
* *
8244978 TCTTGCTCTTACTTCAATTTCAGAGGGACGAAGGCTTGTTATCCAGCTTTACTTCAATTTCAAGA
1 TCTTACTCTTACTTCAATTTCAGAGGGACGAAGGCTTGATATCCAGCTTTACTTCAATTTCAAGA
8245043 GGATAGGAAAATGATGTTGGTGCTTCA
66 GGATAGGAAAATGATGTTGGTGCTTCA
* * *
8245070 TCTTACTCTTACTTCAATTTCAGAGAGACAAAAGCTTGATATCCAGCTTTACTTCAATTTCAAGA
1 TCTTACTCTTACTTCAATTTCAGAGGGACGAAGGCTTGATATCCAGCTTTACTTCAATTTCAAGA
8245135 GGATAGGAAAATGATGTTGGTGCTTCA
66 GGATAGGAAAATGATGTTGGTGCTTCA
* * *
8245162 TCTTACTCTTACTTCAATTTCAGAGAGACAAAAGCTTGATATCCAGCTTTACTTCAATTTCAAGA
1 TCTTACTCTTACTTCAATTTCAGAGGGACGAAGGCTTGATATCCAGCTTTACTTCAATTTCAAGA
8245227 GGATAGGAAAATGATGTTGGTGCTTCA
66 GGATAGGAAAATGATGTTGGTGCTTCA
* * *
8245254 TCTTACTCTTACTTTAATTCCAGAGGGACGAAGGCTTGTTATCCAGCTTTACTTCAATTTCAAGA
1 TCTTACTCTTACTTCAATTTCAGAGGGACGAAGGCTTGATATCCAGCTTTACTTCAATTTCAAGA
*
8245319 GGATAGGAAAA-GATGTCGGTGCTTCA
66 GGATAGGAAAATGATGTTGGTGCTTCA
* *
8245345 TCTTGCTCTTACTTCAATTTCAGAGGGACGAAGGCTTGTTATCCAGCTTTACTTCAATTTCAAGA
1 TCTTACTCTTACTTCAATTTCAGAGGGACGAAGGCTTGATATCCAGCTTTACTTCAATTTCAAGA
8245410 GGATAGGAAAATGATGTTGGTGCTTCA
66 GGATAGGAAAATGATGTTGGTGCTTCA
* *
8245437 TCTTACTCTTACTTCAATTCCAGAGGGACGAAGGCTTGTTATCCAGCTTTACTTCAATTTCAAGA
1 TCTTACTCTTACTTCAATTTCAGAGGGACGAAGGCTTGATATCCAGCTTTACTTCAATTTCAAGA
* *
8245502 GCATAGGAAAA-GATGTCGGTGCTTCA
66 GGATAGGAAAATGATGTTGGTGCTTCA
* * *
8245528 TCTTGCTCTTACTTCAATTTCAGAGGGTCGAAGGCTTGTTATCCAGCTTTACTTCAATTTCAAGA
1 TCTTACTCTTACTTCAATTTCAGAGGGACGAAGGCTTGATATCCAGCTTTACTTCAATTTCAAGA
8245593 GGATAGGAAAATGATGTTGGT
66 GGATAGGAAAATGATGTTGGT
8245614 TGATCTGATC
Statistics
Matches: 1036, Mismatches: 53, Indels: 11
0.94 0.05 0.01
Matches are distributed among these distances:
91 273 0.26
92 761 0.73
93 2 0.00
ACGTcount: A:0.29, C:0.18, G:0.20, T:0.34
Consensus pattern (92 bp):
TCTTACTCTTACTTCAATTTCAGAGGGACGAAGGCTTGATATCCAGCTTTACTTCAATTTCAAGA
GGATAGGAAAATGATGTTGGTGCTTCA
Found at i:8245113 original size:367 final size:367
Alignment explanation
Indices: 8244428--8245613 Score: 1991
Period size: 367 Copynumber: 3.2 Consensus size: 367
8244418 CGAGGTTTCG
* * * * *
8244428 TCTTGCTCTTA-TTCAATTTCAGAGGGACGAAGGCTTGGTATCCAGCTTTACTTCAATTTCAAGA
1 TCTTACTCTTACTTCAATTTCAGAGAGACAAAAGCTTGATATCCAGCTTTACTTCAATTTCAAGA
* * * * * *
8244492 GGATAGGAGAATGATGTTGGTCCTTCATCTTGCTCTTACTTCAACTT-CAGAGAGACAAAAGCTT
66 GGATAGGAAAATGATGTTGGTGCTTCATCTTACTCTTACTTCAA-TTCCAGAGGGACGAAGGCTT
* * *
8244556 GATATCCAGCTTTACTTCAATTTCAAGAGGATAGGAAAATGATGTTGGTGCTTCATCTTACTCTT
130 GTTATCCAGCTTTACTTCAATTTCAAGAGGATAGGAAAA-GATGTCGGTGCTTCATCTTGCTCTT
* * * *
8244621 ACTTCAATTTCAGAGAGACAAAAGCTTGATATCCAGCTTTACTTCAATTTCAAGAGGATAGGAAA
194 ACTTCAATTTCAGAGGGACGAAGGCTTGTTATCCAGCTTTACTTCAATTTCAAGAGGATAGGAAA
* * * *
8244686 ATGATGTTGGTCCTTCATCTTGCTCTTACTTCAACTTCAGAGAGACAACAGCTTGATATCCAGCT
259 ATGATGTTGGTGCTTCATCTTACTCTTACTTCAATTTCAGAGAGACAAAAGCTTGATATCCAGCT
*
8244751 TTACTTCAATTTCAAGAGGACAGGAAAATGATGTTGGTGCTTCA
324 TTACTTCAATTTCAAGAGGATAGGAAAATGATGTTGGTGCTTCA
8244795 TCTTACTCTTACTTCAATTTCAGAGAGACAAAAGCTTGATATCCAGCTTTACTTCAATTTCAAGA
1 TCTTACTCTTACTTCAATTTCAGAGAGACAAAAGCTTGATATCCAGCTTTACTTCAATTTCAAGA
*
8244860 GGATAGGAAAATGATGTTGGTGCTTCATCTTACTCTTACTTCAATTCCAGAGGGATGAAGGCTTG
66 GGATAGGAAAATGATGTTGGTGCTTCATCTTACTCTTACTTCAATTCCAGAGGGACGAAGGCTTG
8244925 TTATCCAGCTTTACTTCAATTTCAAGAGGATAGGAAAAGATGTCGGTGCTTCATCTTGCTCTTAC
131 TTATCCAGCTTTACTTCAATTTCAAGAGGATAGGAAAAGATGTCGGTGCTTCATCTTGCTCTTAC
8244990 TTCAATTTCAGAGGGACGAAGGCTTGTTATCCAGCTTTACTTCAATTTCAAGAGGATAGGAAAAT
196 TTCAATTTCAGAGGGACGAAGGCTTGTTATCCAGCTTTACTTCAATTTCAAGAGGATAGGAAAAT
8245055 GATGTTGGTGCTTCATCTTACTCTTACTTCAATTTCAGAGAGACAAAAGCTTGATATCCAGCTTT
261 GATGTTGGTGCTTCATCTTACTCTTACTTCAATTTCAGAGAGACAAAAGCTTGATATCCAGCTTT
8245120 ACTTCAATTTCAAGAGGATAGGAAAATGATGTTGGTGCTTCA
326 ACTTCAATTTCAAGAGGATAGGAAAATGATGTTGGTGCTTCA
8245162 TCTTACTCTTACTTCAATTTCAGAGAGACAAAAGCTTGATATCCAGCTTTACTTCAATTTCAAGA
1 TCTTACTCTTACTTCAATTTCAGAGAGACAAAAGCTTGATATCCAGCTTTACTTCAATTTCAAGA
*
8245227 GGATAGGAAAATGATGTTGGTGCTTCATCTTACTCTTACTTTAATTCCAGAGGGACGAAGGCTTG
66 GGATAGGAAAATGATGTTGGTGCTTCATCTTACTCTTACTTCAATTCCAGAGGGACGAAGGCTTG
8245292 TTATCCAGCTTTACTTCAATTTCAAGAGGATAGGAAAAGATGTCGGTGCTTCATCTTGCTCTTAC
131 TTATCCAGCTTTACTTCAATTTCAAGAGGATAGGAAAAGATGTCGGTGCTTCATCTTGCTCTTAC
8245357 TTCAATTTCAGAGGGACGAAGGCTTGTTATCCAGCTTTACTTCAATTTCAAGAGGATAGGAAAAT
196 TTCAATTTCAGAGGGACGAAGGCTTGTTATCCAGCTTTACTTCAATTTCAAGAGGATAGGAAAAT
* * * * *
8245422 GATGTTGGTGCTTCATCTTACTCTTACTTCAATTCCAGAGGGACGAAGGCTTGTTATCCAGCTTT
261 GATGTTGGTGCTTCATCTTACTCTTACTTCAATTTCAGAGAGACAAAAGCTTGATATCCAGCTTT
* *
8245487 ACTTCAATTTCAAGAGCATAGGAAAA-GATGTCGGTGCTTCA
326 ACTTCAATTTCAAGAGGATAGGAAAATGATGTTGGTGCTTCA
* * * * * *
8245528 TCTTGCTCTTACTTCAATTTCAGAGGGTCGAAGGCTTGTTATCCAGCTTTACTTCAATTTCAAGA
1 TCTTACTCTTACTTCAATTTCAGAGAGACAAAAGCTTGATATCCAGCTTTACTTCAATTTCAAGA
8245593 GGATAGGAAAATGATGTTGGT
66 GGATAGGAAAATGATGTTGGT
8245614 TGATCTGATC
Statistics
Matches: 778, Mismatches: 39, Indels: 5
0.95 0.05 0.01
Matches are distributed among these distances:
366 94 0.12
367 543 0.70
368 141 0.18
ACGTcount: A:0.29, C:0.18, G:0.20, T:0.34
Consensus pattern (367 bp):
TCTTACTCTTACTTCAATTTCAGAGAGACAAAAGCTTGATATCCAGCTTTACTTCAATTTCAAGA
GGATAGGAAAATGATGTTGGTGCTTCATCTTACTCTTACTTCAATTCCAGAGGGACGAAGGCTTG
TTATCCAGCTTTACTTCAATTTCAAGAGGATAGGAAAAGATGTCGGTGCTTCATCTTGCTCTTAC
TTCAATTTCAGAGGGACGAAGGCTTGTTATCCAGCTTTACTTCAATTTCAAGAGGATAGGAAAAT
GATGTTGGTGCTTCATCTTACTCTTACTTCAATTTCAGAGAGACAAAAGCTTGATATCCAGCTTT
ACTTCAATTTCAAGAGGATAGGAAAATGATGTTGGTGCTTCA
Found at i:8247674 original size:22 final size:22
Alignment explanation
Indices: 8247649--8247694 Score: 74
Period size: 22 Copynumber: 2.1 Consensus size: 22
8247639 TATATATGTG
*
8247649 ATGAACAATGTATATGTGAAAT
1 ATGAACAATGTACATGTGAAAT
*
8247671 ATGAACAATGTGCATGTGAAAT
1 ATGAACAATGTACATGTGAAAT
8247693 AT
1 AT
8247695 TATATGTTTA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.43, C:0.07, G:0.20, T:0.30
Consensus pattern (22 bp):
ATGAACAATGTACATGTGAAAT
Found at i:8247856 original size:6 final size:6
Alignment explanation
Indices: 8247845--8247877 Score: 57
Period size: 6 Copynumber: 5.5 Consensus size: 6
8247835 TGATCAAAAT
*
8247845 TGAAAG TGAAAG TGAAAG TGAAAT TGAAAG TGA
1 TGAAAG TGAAAG TGAAAG TGAAAG TGAAAG TGA
8247878 TATGAATTGT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
6 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.30, T:0.21
Consensus pattern (6 bp):
TGAAAG
Found at i:8247869 original size:24 final size:23
Alignment explanation
Indices: 8247841--8247898 Score: 73
Period size: 24 Copynumber: 2.5 Consensus size: 23
8247831 TTTGTGATCA
8247841 AAATTGAAAGTGAAAGTGAAAGTG-
1 AAATTGAAAGTGAAA-TG-AAGTGT
* *
8247865 AAATTGAAAGTGATATGAATTGT
1 AAATTGAAAGTGAAATGAAGTGT
8247888 AAATTGAAAGT
1 AAATTGAAAGT
8247899 CCCTATTAAC
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
22 4 0.13
23 13 0.42
24 14 0.45
ACGTcount: A:0.48, C:0.00, G:0.24, T:0.28
Consensus pattern (23 bp):
AAATTGAAAGTGAAATGAAGTGT
Found at i:8248027 original size:41 final size:40
Alignment explanation
Indices: 8247979--8248079 Score: 100
Period size: 38 Copynumber: 2.6 Consensus size: 40
8247969 TCGACCTTGA
** *
8247979 GTCGATGAGACACTGGGTGTCATTATTTTACTTCGGATAG
1 GTCGATGAGACACTGGGTGTCACCACTTTACTTCGGATAG
* ** *
8248019 ATTCGATGAGGTACT-GG-GT-ACCACTTTACTTCGGCTAG
1 -GTCGATGAGACACTGGGTGTCACCACTTTACTTCGGATAG
*
8248057 GCCGATGAGACACTGGGTGTCAC
1 GTCGATGAGACACTGGGTGTCAC
8248080 TTTATTGCTT
Statistics
Matches: 46, Mismatches: 11, Indels: 7
0.72 0.17 0.11
Matches are distributed among these distances:
37 10 0.22
38 17 0.37
39 4 0.09
40 4 0.09
41 11 0.24
ACGTcount: A:0.22, C:0.20, G:0.29, T:0.30
Consensus pattern (40 bp):
GTCGATGAGACACTGGGTGTCACCACTTTACTTCGGATAG
Found at i:8259538 original size:30 final size:30
Alignment explanation
Indices: 8259284--8259528 Score: 316
Period size: 30 Copynumber: 8.2 Consensus size: 30
8259274 TCAAAAACAA
* *
8259284 AATTTTGG-AAGGTTCTAGGGTTAAAATGT
1 AATTTTGGAAAAGTTTTAGGGTTAAAATGT
*
8259313 AATTTTGGAAAAGTTTTAGGGTCAAAATGT
1 AATTTTGGAAAAGTTTTAGGGTTAAAATGT
*
8259343 AATATTGGAAAAGTTTTAGGGTTAAAATGT
1 AATTTTGGAAAAGTTTTAGGGTTAAAATGT
* * *
8259373 AATATTGGAAAAGTATTAGGGTCAAAATGT
1 AATTTTGGAAAAGTTTTAGGGTTAAAATGT
* *
8259403 AATATTAGAAAAGTTTTAGGGTTAAAATGT
1 AATTTTGGAAAAGTTTTAGGGTTAAAATGT
*
8259433 AATTTTGGAAAAGTTTT-GAGGTTAAAATCT
1 AATTTTGGAAAAGTTTTAG-GGTTAAAATGT
*
8259463 AATTTTAGAAAAGTTTT-GAGGTTAAAATGT
1 AATTTTGGAAAAGTTTTAG-GGTTAAAATGT
** * *
8259493 AATTTTCAAAAAGTTTTGGGGTTAAAATAT
1 AATTTTGGAAAAGTTTTAGGGTTAAAATGT
8259523 AATTTT
1 AATTTT
8259529 TGGACAGTTT
Statistics
Matches: 195, Mismatches: 18, Indels: 5
0.89 0.08 0.02
Matches are distributed among these distances:
29 9 0.05
30 185 0.95
31 1 0.01
ACGTcount: A:0.39, C:0.02, G:0.21, T:0.38
Consensus pattern (30 bp):
AATTTTGGAAAAGTTTTAGGGTTAAAATGT
Found at i:8260536 original size:7 final size:7
Alignment explanation
Indices: 8260524--8260556 Score: 50
Period size: 7 Copynumber: 4.9 Consensus size: 7
8260514 CCTTCCTTTT
8260524 TTATTAA
1 TTATTAA
8260531 TTATTAA
1 TTATTAA
8260538 TTATTAA
1 TTATTAA
8260545 -TATTAA
1 TTATTAA
*
8260551 TAATTA
1 TTATTA
8260557 CTACTACTAT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
6 6 0.25
7 18 0.75
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (7 bp):
TTATTAA
Found at i:8261310 original size:17 final size:17
Alignment explanation
Indices: 8261290--8261335 Score: 56
Period size: 17 Copynumber: 2.7 Consensus size: 17
8261280 TTATAATAAT
*
8261290 TTTAAATTTAATCCAAA
1 TTTAAATTAAATCCAAA
**
8261307 TTTAAATTAAATTTAAA
1 TTTAAATTAAATCCAAA
*
8261324 TTTAAAATAAAT
1 TTTAAATTAAAT
8261336 TTAATTTTAA
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
17 25 1.00
ACGTcount: A:0.52, C:0.04, G:0.00, T:0.43
Consensus pattern (17 bp):
TTTAAATTAAATCCAAA
Found at i:8261313 original size:6 final size:6
Alignment explanation
Indices: 8261290--8261346 Score: 57
Period size: 6 Copynumber: 10.0 Consensus size: 6
8261280 TTATAATAAT
** *
8261290 TTTAAA TTT-AA TCCAAA TTTAAA -TTAAA TTTAAA TTTAAA -ATAAA
1 TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA
*
8261335 TTTAAT TTTAAA
1 TTTAAA TTTAAA
8261347 ACAAATTCAA
Statistics
Matches: 40, Mismatches: 8, Indels: 6
0.74 0.15 0.11
Matches are distributed among these distances:
5 12 0.30
6 28 0.70
ACGTcount: A:0.51, C:0.04, G:0.00, T:0.46
Consensus pattern (6 bp):
TTTAAA
Found at i:8261335 original size:28 final size:27
Alignment explanation
Indices: 8261277--8261339 Score: 72
Period size: 28 Copynumber: 2.3 Consensus size: 27
8261267 TTGGACATTG
* **
8261277 AATTTATAATAATTTTAAATTTAATCCA
1 AATTTA-AATAAATTTAAATTTAAAACA
*
8261305 AATTTAAATTAAATTTAAATTTAAAATA
1 AATTTAAA-TAAATTTAAATTTAAAACA
8261333 AATTTAA
1 AATTTAA
8261340 TTTTAAAACA
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
27 2 0.07
28 28 0.93
ACGTcount: A:0.52, C:0.03, G:0.00, T:0.44
Consensus pattern (27 bp):
AATTTAAATAAATTTAAATTTAAAACA
Found at i:8261336 original size:17 final size:17
Alignment explanation
Indices: 8261304--8261353 Score: 73
Period size: 17 Copynumber: 2.9 Consensus size: 17
8261294 AATTTAATCC
*
8261304 AAATTTAAATTAAATTT
1 AAATTTAAAATAAATTT
8261321 AAATTTAAAATAAATTT
1 AAATTTAAAATAAATTT
* *
8261338 AATTTTAAAACAAATT
1 AAATTTAAAATAAATT
8261354 CAAAATGATT
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
17 30 1.00
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.42
Consensus pattern (17 bp):
AAATTTAAAATAAATTT
Found at i:8266154 original size:15 final size:15
Alignment explanation
Indices: 8266134--8266167 Score: 59
Period size: 15 Copynumber: 2.3 Consensus size: 15
8266124 TAAGAACAAA
*
8266134 AATCGTGAAATCTCT
1 AATCGTGAAATCCCT
8266149 AATCGTGAAATCCCT
1 AATCGTGAAATCCCT
8266164 AATC
1 AATC
8266168 ATTTCGAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.35, C:0.24, G:0.12, T:0.29
Consensus pattern (15 bp):
AATCGTGAAATCCCT
Found at i:8267788 original size:51 final size:51
Alignment explanation
Indices: 8267683--8267791 Score: 155
Period size: 51 Copynumber: 2.1 Consensus size: 51
8267673 CATCAACAAC
* * * * * *
8267683 TTCATCAGCAACATTATCCACTCCATCTGATGTTGCAAAATTAGTATCATA
1 TTCATCAACAACATTATCCACTCCATCTAATGTTGCAAAATCAGCAGCAAA
*
8267734 TTCATCAACAACATTATCCTCTCCATCTAATGTTGCAAAATCAGCAGCAAA
1 TTCATCAACAACATTATCCACTCCATCTAATGTTGCAAAATCAGCAGCAAA
8267785 TTCATCA
1 TTCATCA
8267792 GCAGCAACTT
Statistics
Matches: 51, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
51 51 1.00
ACGTcount: A:0.35, C:0.26, G:0.08, T:0.31
Consensus pattern (51 bp):
TTCATCAACAACATTATCCACTCCATCTAATGTTGCAAAATCAGCAGCAAA
Found at i:8267793 original size:15 final size:15
Alignment explanation
Indices: 8267773--8267804 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
8267763 ATGTTGCAAA
8267773 ATCAGCAGCAAATTC
1 ATCAGCAGCAAATTC
*
8267788 ATCAGCAGCAACTTC
1 ATCAGCAGCAAATTC
8267803 AT
1 AT
8267805 TCTCATTATC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.38, C:0.28, G:0.12, T:0.22
Consensus pattern (15 bp):
ATCAGCAGCAAATTC
Found at i:8267873 original size:33 final size:32
Alignment explanation
Indices: 8267830--8267999 Score: 109
Period size: 33 Copynumber: 5.1 Consensus size: 32
8267820 CAAACGTAGG
*
8267830 CCCTCTTACATCACCCTTCACATCAACTTCTAC
1 CCCTCCTACATCACCCTTC-CATCAACTTCTAC
*
8267863 CCCTCCTACATCA-CCTTCC-TCAATAGCTTTTAC
1 CCCTCCTACATCACCCTTCCATC-A-A-CTTCTAC
* * *
8267896 CCTTTCC-AGATTA-CCTTCACCATCAGA-TTCTTAC
1 CC-CTCCTACATCACCCTT--CCATCA-ACTTC-TAC
* * * *
8267930 CCCTTC-ATCATCACCCTCCCCATCAAATTTTAC
1 CCCTCCTA-CATCACCCT-TCCATCAACTTCTAC
8267963 CCCTCCTACATCACCCTTCCTATCAACTTCTAC
1 CCCTCCTACATCACCCTTCC-ATCAACTTCTAC
8267996 CCCT
1 CCCT
8268000 TCATCATCAC
Statistics
Matches: 106, Mismatches: 17, Indels: 28
0.70 0.11 0.19
Matches are distributed among these distances:
30 2 0.02
31 2 0.02
32 8 0.08
33 65 0.61
34 20 0.19
35 7 0.07
36 2 0.02
ACGTcount: A:0.22, C:0.44, G:0.02, T:0.32
Consensus pattern (32 bp):
CCCTCCTACATCACCCTTCCATCAACTTCTAC
Found at i:8268008 original size:33 final size:33
Alignment explanation
Indices: 8267915--8268016 Score: 116
Period size: 33 Copynumber: 3.1 Consensus size: 33
8267905 ATTACCTTCA
*
8267915 CCATCAGATTCTTACCCCTTCATCATCACCCTCC
1 CCATCAAATTC-TACCCCTTCATCATCACCCTCC
* * *
8267949 CCATCAAATTTTACCCC-TCCTACATCACCCTTC
1 CCATCAAATTCTACCCCTTCAT-CATCACCCTCC
* * *
8267982 CTATCAACTTCTACCCCTTCATCATCACCCCCC
1 CCATCAAATTCTACCCCTTCATCATCACCCTCC
8268015 CC
1 CC
8268017 CCCCCCCAAC
Statistics
Matches: 55, Mismatches: 11, Indels: 5
0.77 0.15 0.07
Matches are distributed among these distances:
32 3 0.05
33 40 0.73
34 12 0.22
ACGTcount: A:0.22, C:0.49, G:0.01, T:0.28
Consensus pattern (33 bp):
CCATCAAATTCTACCCCTTCATCATCACCCTCC
Found at i:8270505 original size:588 final size:585
Alignment explanation
Indices: 8268177--8271603 Score: 5621
Period size: 577 Copynumber: 5.9 Consensus size: 585
8268167 GTAAGCTCAT
* * * * *
8268177 GAAAATATAATAACATGATACTATTAAACCTTAACCCAGTTTTCAAAATTTTACATAATTCAAAA
1 GAAAATATATTAACATGATACTGTTAAACCCTAACCCAATTTTCACAATTTTACATAATTCAAAA
* * *
8268242 TAAGATATTGTGTCTGAGTCCTCTCTAACCCTAATCACTCACTCCCCACCTACATATCTGACATA
66 TAAGATATTGTGTCTGGGTCCTCTTTAAGCCTAATCACT---TCCCCACCTACATATCTGACATA
*
8268307 TGGGTTCTTTACAAACTTCTCACCCACATGCAAAATAATATAATATTCCTCATCACTATTTACCA
128 TGGGTCCTTTACAAACTTCTCACCCACATGCAAAATAATATAATATTCCTCATCACTATTTACCA
8268372 TCTGCAAGAAAGCATAAACAACCAATTTTCATATTCACTAACCAACAATAATAAACAATAAAAAA
193 TCTGCAAGAAAGCATAAACAACCAATTTTCATATTCACTAACCAACAAT-A-AAACAAT---AAA
* * * *
8268437 AAAAACGTCACTACCAACATCGGGACCACTGTAACAAAAAAGTTACAAAGCTTAATAAACTAACA
253 AAACATGTCACTACCTACATCGGGACCACTGTAACAAAAAAGTTACAAAGCTCAATAAACTAACA
* *
8268502 ATACAAAACTCACAAAACAGTAACAGCACTAAACT-AAATTATAGAAATCAACAGAACAGTAACA
318 ATACAAAACTCACAAAACAGTAACAGCACTAAATTAAAATTGTAGAAATCAACAGAACAGTAACA
* * *
8268566 TCGGGACCACTTTCATATCACAAATCAATAAAACATACCCTACATTGTTGCACTAAAATTACAGT
383 TCGGGACCACTTTCATATCACAAATCGACAAAACATACCCTACATTATTGCACTAAAATTACAGT
**
8268631 AACAAAGCACAAATAACCATCTAGAATCACAAATTATTGTAGGCAAAATTAGGACCACTGTCGCA
448 AACAAAGCACAAATAACCATCTAGAATCACAAATTATTGTAGGCAAAATCGGGACCACTGTCGCA
*
8268696 TTATAAATAAGATATTGTAGGAAATTACGGTAACAAAGCACAAATAACCATCTAAAATCACAAAT
513 TTATAAATAAGATATTGTAGGAAATTACGGTAACAAAGCACAAATAACCATCTAAAATCATAAAT
*
8268761 TATTGAAG
578 TATTGTAG
*
8268769 GAAAATATATTAACATGATACTATTAAACCCTAACCCAATTTTCACAATTTTACATAATTCAAAA
1 GAAAATATATTAACATGATACTGTTAAACCCTAACCCAATTTTCACAATTTTACATAATTCAAAA
*
8268834 TAAGATATTGTGTCTGGGTCCTCTTTAAGCCTAATCACTTCCCCACCTACATATCTGACATAAGG
66 TAAGATATTGTGTCTGGGTCCTCTTTAAGCCTAATCACTTCCCCACCTACATATCTGACATATGG
**
8268899 GTCCTTTACAAACTTCTCACCCCACATGCAAAATAATATAATATTCCAAATCACTATTTACCATC
131 GTCCTTTACAAACTTCTCA-CCCACATGCAAAATAATATAATATTCCTCATCACTATTTACCATC
8268964 TGCAAGAAAGCATAAACAACCAATTTTCATATTCACTAA-C--C-----AACAATAAAAAACATG
195 TGCAAGAAAGCATAAACAACCAATTTTCATATTCACTAACCAACAATAAAACAATAAAAAACATG
*** * *
8269021 TCACTACCTACATCGGGTTTACTATAACAAAAAAGTTACAAAGCTTAATAAACTAACAATACAAA
260 TCACTACCTACATCGGGACCACTGTAACAAAAAAGTTACAAAGCTCAATAAACTAACAATACAAA
* *
8269086 ACTCACAAAACAGTAACAGCACTAAATTAAAATTGTAAAAATCAATAGAACAGTAACATCGGGAC
325 ACTCACAAAACAGTAACAGCACTAAATTAAAATTGTAGAAATCAACAGAACAGTAACATCGGGAC
*
8269151 CACTTTCATATCATAAATCGACAAAACATACCCTACATTATTGCACTAAAATTACAGTAACAAAG
390 CACTTTCATATCACAAATCGACAAAACATACCCTACATTATTGCACTAAAATTACAGTAACAAAG
8269216 CACAAATAACCATCTAGAATCACAAATTATTGTAGGCAAAATCGGGACCACTGTCGCATTATAAA
455 CACAAATAACCATCTAGAATCACAAATTATTGTAGGCAAAATCGGGACCACTGTCGCATTATAAA
8269281 TAAGATATTGTAGGAAATTACGGTAACAAAGCACAAATAACCATCTAAAATCATAAATTATTGTA
520 TAAGATATTGTAGGAAATTACGGTAACAAAGCACAAATAACCATCTAAAATCATAAATTATTGTA
8269346 G
585 G
** *
8269347 G-AAATATATTAACATGACGCTGTTAAACCCTAACCCAACTTTCACAATTTTACATAATTCAAAA
1 GAAAATATATTAACATGATACTGTTAAACCCTAACCCAATTTTCACAATTTTACATAATTCAAAA
*
8269411 TAAGATATTGTGTCTGGGTCCTCTTTAAGCCTAATCACTTCCCCACCTACATATCTGACATAAGG
66 TAAGATATTGTGTCTGGGTCCTCTTTAAGCCTAATCACTTCCCCACCTACATATCTGACATATGG
**
8269476 GTCCTTTACAAACTTCTCACCCACATGCAAAATAATATAATATTCCAAATCACTATTTACCATCT
131 GTCCTTTACAAACTTCTCACCCACATGCAAAATAATATAATATTCCTCATCACTATTTACCATCT
8269541 GCAAGAAAGCATAAACAACCAATTTTCATATTCACTAA-C--C-----AACAATAAAAAACATGT
196 GCAAGAAAGCATAAACAACCAATTTTCATATTCACTAACCAACAATAAAACAATAAAAAACATGT
*** *
8269598 CACTACCTACATCGGGTTTACTGTAACAAAAAAGTTACAAAGCTTAATAAACTAACAATACAAAA
261 CACTACCTACATCGGGACCACTGTAACAAAAAAGTTACAAAGCTCAATAAACTAACAATACAAAA
* *
8269663 CTCACAAAACAGTAACAGCACTAAATTAAAATTGTAAAAATCAATAGAACAGTAACATCGGGACC
326 CTCACAAAACAGTAACAGCACTAAATTAAAATTGTAGAAATCAACAGAACAGTAACATCGGGACC
*
8269728 ACTTTCATATCATAAATCGACAAAACATACCCTACATTATTGCACTAAAATTACAGTAACAAAGC
391 ACTTTCATATCACAAATCGACAAAACATACCCTACATTATTGCACTAAAATTACAGTAACAAAGC
8269793 ACAAATAACCATCTAGAATCACAAATTATTGTAGGCAAAATCGGGACCACTGTCGCATTATAAAT
456 ACAAATAACCATCTAGAATCACAAATTATTGTAGGCAAAATCGGGACCACTGTCGCATTATAAAT
8269858 AAGATATTGTAGGAAATTACGGTAACAAAGCACAAATAACCATCTAAAATCATAAATTATTGTAG
521 AAGATATTGTAGGAAATTACGGTAACAAAGCACAAATAACCATCTAAAATCATAAATTATTGTAG
** *
8269923 GAAAATATATTAACATGACGCTGTTAAACCCTAACCCAACTTTCACAATTTTACATAATTCAAAA
1 GAAAATATATTAACATGATACTGTTAAACCCTAACCCAATTTTCACAATTTTACATAATTCAAAA
* * *
8269988 TAAGATATTGTGTCTGGGTCCTCTTTAAGCCTAATCACTTCCCCACCTACATATCTAACATACGA
66 TAAGATATTGTGTCTGGGTCCTCTTTAAGCCTAATCACTTCCCCACCTACATATCTGACATATGG
*
8270053 GTCCTTTACAAACTTCTCACCCACATGCAAAATAATATGATATTCCTCATCACTATTTACCATCT
131 GTCCTTTACAAACTTCTCACCCACATGCAAAATAATATAATATTCCTCATCACTATTTACCATCT
8270118 GCAAGAAAGCATAAACAACCAATTTTCATATTCACTAACCAACAATAAAAAACAATAAAAAAAAC
196 GCAAGAAAGCATAAACAACCAATTTTCATATTCACTAACCAACAAT--AAAACAAT--AAAAAAC
*
8270183 ATGTCACTACCTACATCGGGACCACTATAAC-AAAAAGTTACAAAGCTCAATAAACTAACAATAC
257 ATGTCACTACCTACATCGGGACCACTGTAACAAAAAAGTTACAAAGCTCAATAAACTAACAATAC
8270247 AAAACTCACAAAACAGTAACAGCACTAAATTAAAATTGTAGAAATCAACAGAACAGTAACATCGG
322 AAAACTCACAAAACAGTAACAGCACTAAATTAAAATTGTAGAAATCAACAGAACAGTAACATCGG
* *
8270312 GACCACTTTCATATCATAAATCGACAAAACATACCCTACATTATTACACTAAAATTACAGTAACA
387 GACCACTTTCATATCACAAATCGACAAAACATACCCTACATTATTGCACTAAAATTACAGTAACA
8270377 AAGCACAAATAACCATCTAGAATCACAAATTATTGTAGGCAAAATCGGGACCACTGTCGCATTAT
452 AAGCACAAATAACCATCTAGAATCACAAATTATTGTAGGCAAAATCGGGACCACTGTCGCATTAT
** *
8270442 AAATAAGATATTGTAGGAAATTATAGTAACAAAGCACAAATAACCATCTAAAATCACAAATTATT
517 AAATAAGATATTGTAGGAAATTACGGTAACAAAGCACAAATAACCATCTAAAATCATAAATTATT
8270507 GTAG
582 GTAG
* *
8270511 GAAAATATATTATCATGATACTGTTAAACCCTAATCCAATTTTCACAATTTTACATAATTCAAAA
1 GAAAATATATTAACATGATACTGTTAAACCCTAACCCAATTTTCACAATTTTACATAATTCAAAA
8270576 TAAGATATTGTGTCTGGGTCCTCTTTAAGCCTAATCACTTCCCCACCTACATATCTGACATATGG
66 TAAGATATTGTGTCTGGGTCCTCTTTAAGCCTAATCACTTCCCCACCTACATATCTGACATATGG
*
8270641 ATCCTTTACAAACTTCTCACCCACATGCAAAATAATATAATATTCCTCATCACTATTTACCATCT
131 GTCCTTTACAAACTTCTCACCCACATGCAAAATAATATAATATTCCTCATCACTATTTACCATCT
*
8270706 GCAAGAAAGCATAAACAACCAATTTTCATATTCACTAA-C--C-----AACAATAAAAACCATGT
196 GCAAGAAAGCATAAACAACCAATTTTCATATTCACTAACCAACAATAAAACAATAAAAAACATGT
*
8270763 CACTACCTACATTGGGACCACTGTAACAAAAAAGTTACAAAGCTCAATAAACTAACAATACAAAA
261 CACTACCTACATCGGGACCACTGTAACAAAAAAGTTACAAAGCTCAATAAACTAACAATACAAAA
* * * *
8270828 CTCACAAAACAGTAACAACACTAAACTAAAATTGTAGAAATCAACAGAACAGTAACACCGAGACC
326 CTCACAAAACAGTAACAGCACTAAATTAAAATTGTAGAAATCAACAGAACAGTAACATCGGGACC
* *
8270893 ACTTTCACATCACAAATCGACAAAACATACCCTACATTGTTGCACTAAAATTACAGTAACAAAGC
391 ACTTTCATATCACAAATCGACAAAACATACCCTACATTATTGCACTAAAATTACAGTAACAAAGC
* * * * *
8270958 ACAAATAACCATCTAGAATCACAAATTATTATAGGAAAAATCGAGACCACTATCTCATTATAAAT
456 ACAAATAACCATCTAGAATCACAAATTATTGTAGGCAAAATCGGGACCACTGTCGCATTATAAAT
* *
8271023 AAGATATTTTAGGAAATTA---T-----AGTACAAATAACCATCTAAAATCATAAATTATTGTAG
521 AAGATATTGTAGGAAATTACGGTAACAAAGCACAAATAACCATCTAAAATCATAAATTATTGTAG
8271080 GAAAATATATTAACATGATACTGTTAAACCCTAACCCAATTTTCACAATTTTACATAATTCAAAA
1 GAAAATATATTAACATGATACTGTTAAACCCTAACCCAATTTTCACAATTTTACATAATTCAAAA
* * * * *
8271145 TAAGATATTGCGTCTAGGTCCTC-TTAAGCCTAATCACTTTCCCACCTACATATCTAACATATGT
66 TAAGATATTGTGTCTGGGTCCTCTTTAAGCCTAATCACTTCCCCACCTACATATCTGACATATGG
*
8271209 GTCTTTTACAAACTTCTCACCCACATGCAAAATAATATAATATTCCTCATCACTATTTACCATCT
131 GTCCTTTACAAACTTCTCACCCACATGCAAAATAATATAATATTCCTCATCACTATTTACCATCT
8271274 GCAAGAAAGCATAAACAACCAATTTTCATATTCACTAACCAACAATAATAAACAATAAAAAACAA
196 GCAAGAAAGCATAAACAACCAATTTTCATATTCACTAACCAACAAT-A-AAACAAT--AAAA-AA
8271339 CATGTCACTACCTACATCGGGACCACTGTAACAAAAAAGTTACAAAGCTCAATAAACTAACAATA
256 CATGTCACTACCTACATCGGGACCACTGTAACAAAAAAGTTACAAAGCTCAATAAACTAACAATA
*
8271404 CAAAACTCACAAAACAGTAACAGCACTAAATTAAAATTGTAGAAATCAACAGAACAATAACATCG
321 CAAAACTCACAAAACAGTAACAGCACTAAATTAAAATTGTAGAAATCAACAGAACAGTAACATCG
* *
8271469 GGACCACTTTCATATCACAAATCGACAAAACATACCCTATATTGTTGCACTAAAATTACAGTAAC
386 GGACCACTTTCATATCACAAATCGACAAAACATACCCTACATTATTGCACTAAAATTACAGTAAC
* * * *
8271534 AATGCACAAATAATCATCTAGAATCATAAATTATTGTAGGCAAAATCGAGACCACTGTCGCATTA
451 AAAGCACAAATAACCATCTAGAATCACAAATTATTGTAGGCAAAATCGGGACCACTGTCGCATTA
8271599 TAAAT
516 TAAAT
8271604 CTACAAAAAA
Statistics
Matches: 2700, Mismatches: 106, Indels: 69
0.94 0.04 0.02
Matches are distributed among these distances:
568 139 0.05
569 120 0.04
571 1 0.00
574 1 0.00
576 463 0.17
577 700 0.26
578 235 0.09
580 11 0.00
581 251 0.09
585 1 0.00
587 8 0.00
588 513 0.19
589 78 0.03
590 82 0.03
592 97 0.04
ACGTcount: A:0.44, C:0.22, G:0.09, T:0.26
Consensus pattern (585 bp):
GAAAATATATTAACATGATACTGTTAAACCCTAACCCAATTTTCACAATTTTACATAATTCAAAA
TAAGATATTGTGTCTGGGTCCTCTTTAAGCCTAATCACTTCCCCACCTACATATCTGACATATGG
GTCCTTTACAAACTTCTCACCCACATGCAAAATAATATAATATTCCTCATCACTATTTACCATCT
GCAAGAAAGCATAAACAACCAATTTTCATATTCACTAACCAACAATAAAACAATAAAAAACATGT
CACTACCTACATCGGGACCACTGTAACAAAAAAGTTACAAAGCTCAATAAACTAACAATACAAAA
CTCACAAAACAGTAACAGCACTAAATTAAAATTGTAGAAATCAACAGAACAGTAACATCGGGACC
ACTTTCATATCACAAATCGACAAAACATACCCTACATTATTGCACTAAAATTACAGTAACAAAGC
ACAAATAACCATCTAGAATCACAAATTATTGTAGGCAAAATCGGGACCACTGTCGCATTATAAAT
AAGATATTGTAGGAAATTACGGTAACAAAGCACAAATAACCATCTAAAATCATAAATTATTGTAG
Found at i:8271775 original size:17 final size:16
Alignment explanation
Indices: 8271733--8271779 Score: 67
Period size: 16 Copynumber: 2.9 Consensus size: 16
8271723 TAAGGATTCA
*
8271733 AATATTTGGGGATTTT
1 AATATTTAGGGATTTT
*
8271749 GATATTTAGGGATTTT
1 AATATTTAGGGATTTT
8271765 AATATTTTAGGGATT
1 AATA-TTTAGGGATT
8271780 CAAAGAAGAT
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
16 17 0.63
17 10 0.37
ACGTcount: A:0.28, C:0.00, G:0.23, T:0.49
Consensus pattern (16 bp):
AATATTTAGGGATTTT
Found at i:8271987 original size:29 final size:30
Alignment explanation
Indices: 8271932--8271988 Score: 71
Period size: 29 Copynumber: 1.9 Consensus size: 30
8271922 GATTTCGATC
* *
8271932 GTTCGAACGGTTTGAGGAATTTCGAATTAT
1 GTTCGAACCGTTTGAGGAATTTAGAATTAT
* *
8271962 GTTCG-ACCGTTTGGGGATTTTAGAATT
1 GTTCGAACCGTTTGAGGAATTTAGAATT
8271989 GGGAAAAAAT
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
29 18 0.78
30 5 0.22
ACGTcount: A:0.23, C:0.11, G:0.28, T:0.39
Consensus pattern (30 bp):
GTTCGAACCGTTTGAGGAATTTAGAATTAT
Found at i:8272878 original size:20 final size:22
Alignment explanation
Indices: 8272840--8272879 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
8272830 TTCGGCCATT
*
8272840 AAAATATGAGTATATTACATAA
1 AAAATATGAATATATTACATAA
8272862 AAAATAT-AATATA-TACAT
1 AAAATATGAATATATTACAT
8272880 TTATGTTTGA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 5 0.29
21 5 0.29
22 7 0.41
ACGTcount: A:0.57, C:0.05, G:0.05, T:0.33
Consensus pattern (22 bp):
AAAATATGAATATATTACATAA
Found at i:8272971 original size:21 final size:21
Alignment explanation
Indices: 8272920--8272972 Score: 65
Period size: 23 Copynumber: 2.5 Consensus size: 21
8272910 TTAAGGGTAG
*
8272920 TAAAATATGTATATAATTATC
1 TAAAATATATATATAATTATC
8272941 TGAAAAATATATATATAATTA-C
1 T--AAAATATATATATAATTATC
8272963 T-AAATATATA
1 TAAAATATATA
8272973 ATGAAAGTAA
Statistics
Matches: 29, Mismatches: 1, Indels: 6
0.81 0.03 0.17
Matches are distributed among these distances:
19 9 0.31
21 1 0.03
22 2 0.07
23 17 0.59
ACGTcount: A:0.53, C:0.04, G:0.04, T:0.40
Consensus pattern (21 bp):
TAAAATATATATATAATTATC
Found at i:8273285 original size:40 final size:40
Alignment explanation
Indices: 8273228--8273312 Score: 120
Period size: 40 Copynumber: 2.1 Consensus size: 40
8273218 CAAATGATCA
* *
8273228 AAGTTTTTTTATAGAGAAAATCAAGAT-TTAAGTTAACGCC
1 AAGTTTGTTTATAGAGAAAATCAAG-TCTTAAATTAACGCC
8273268 AAGTTTGTTTACT-GAGAAAATCAAGTCTTAAATTAACGCC
1 AAGTTTGTTTA-TAGAGAAAATCAAGTCTTAAATTAACGCC
8273308 AAGTT
1 AAGTT
8273313 CAGTACAAAT
Statistics
Matches: 41, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
39 1 0.02
40 39 0.95
41 1 0.02
ACGTcount: A:0.39, C:0.12, G:0.15, T:0.34
Consensus pattern (40 bp):
AAGTTTGTTTATAGAGAAAATCAAGTCTTAAATTAACGCC
Found at i:8289957 original size:18 final size:18
Alignment explanation
Indices: 8289934--8289974 Score: 82
Period size: 18 Copynumber: 2.3 Consensus size: 18
8289924 AATGATTTTG
8289934 AGATTAATAAAATGCAAA
1 AGATTAATAAAATGCAAA
8289952 AGATTAATAAAATGCAAA
1 AGATTAATAAAATGCAAA
8289970 AGATT
1 AGATT
8289975 CCCAATGCTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.59, C:0.05, G:0.12, T:0.24
Consensus pattern (18 bp):
AGATTAATAAAATGCAAA
Found at i:8300842 original size:16 final size:16
Alignment explanation
Indices: 8300823--8300864 Score: 57
Period size: 16 Copynumber: 2.6 Consensus size: 16
8300813 AATTTAGTCC
* * *
8300823 TTATGAAATTAGGTAT
1 TTATGTAATTACGCAT
8300839 TTATGTAATTACGCAT
1 TTATGTAATTACGCAT
8300855 TTATGTAATT
1 TTATGTAATT
8300865 TTGTATCAAT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
16 23 1.00
ACGTcount: A:0.33, C:0.05, G:0.14, T:0.48
Consensus pattern (16 bp):
TTATGTAATTACGCAT
Found at i:8301179 original size:19 final size:20
Alignment explanation
Indices: 8301157--8301241 Score: 63
Period size: 19 Copynumber: 4.4 Consensus size: 20
8301147 TATAAAGTTC
8301157 AATATTATTAA-ATATATTT
1 AATATTATTAATATATATTT
* *
8301176 AATAATA-TAATATATTATTA
1 AATATTATTAATATA-TATTT
8301196 AATA-TATTTAATATA-ATTT
1 AATATTA-TTAATATATATTT
** * *
8301215 CTTATT-TTAATATTTTTTT
1 AATATTATTAATATATATTT
8301234 AATATTAT
1 AATATTAT
8301242 ACTTTTTTAA
Statistics
Matches: 50, Mismatches: 9, Indels: 13
0.69 0.12 0.18
Matches are distributed among these distances:
18 10 0.20
19 23 0.46
20 10 0.20
21 7 0.14
ACGTcount: A:0.44, C:0.01, G:0.00, T:0.55
Consensus pattern (20 bp):
AATATTATTAATATATATTT
Found at i:8301264 original size:13 final size:14
Alignment explanation
Indices: 8301246--8301294 Score: 57
Period size: 13 Copynumber: 3.6 Consensus size: 14
8301236 TATTATACTT
8301246 TTTTAATAATAA-A
1 TTTTAATAATAATA
*
8301259 TTTTAACAATAATA
1 TTTTAATAATAATA
*
8301273 ATTTAA-AATAATA
1 TTTTAATAATAATA
8301286 TTCTTAATA
1 TT-TTAATA
8301295 TATTATTCAA
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
13 19 0.63
14 10 0.33
15 1 0.03
ACGTcount: A:0.51, C:0.04, G:0.00, T:0.45
Consensus pattern (14 bp):
TTTTAATAATAATA
Found at i:8303106 original size:63 final size:63
Alignment explanation
Indices: 8303032--8303168 Score: 256
Period size: 63 Copynumber: 2.2 Consensus size: 63
8303022 ACACTTCATT
*
8303032 ATTTCCAATTCATTAACCAATTCATCATTTCATTACATAACATAATAATCGTTAAGTTACACA
1 ATTTCCAATTCATTAACCAATTCATCATTTCATTACATAACATAATAATCATTAAGTTACACA
8303095 ATTTCCAATTCATTAACCAATTCATCATTTCATTACATAACATAATAATCATTAAGTTACACA
1 ATTTCCAATTCATTAACCAATTCATCATTTCATTACATAACATAATAATCATTAAGTTACACA
*
8303158 ATTTTCAATTC
1 ATTTCCAATTC
8303169 TATTCAATTT
Statistics
Matches: 72, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
63 72 1.00
ACGTcount: A:0.39, C:0.20, G:0.02, T:0.38
Consensus pattern (63 bp):
ATTTCCAATTCATTAACCAATTCATCATTTCATTACATAACATAATAATCATTAAGTTACACA
Found at i:8312460 original size:21 final size:21
Alignment explanation
Indices: 8312422--8312461 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
8312412 TTTTATATGA
*
8312422 AATTTTGAATTGATGAGTTTT
1 AATTTTGAATTGAAGAGTTTT
8312443 AATTATTGAATT-AAGAGTT
1 AATT-TTGAATTGAAGAGTT
8312462 AGTATAAGTG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
21 10 0.59
22 7 0.41
ACGTcount: A:0.35, C:0.00, G:0.17, T:0.47
Consensus pattern (21 bp):
AATTTTGAATTGAAGAGTTTT
Found at i:8314822 original size:21 final size:22
Alignment explanation
Indices: 8314798--8314838 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
8314788 TTTCAATAAT
8314798 TTATAAAATTTTAT-AAAATAG
1 TTATAAAATTTTATCAAAATAG
**
8314819 TTATGTAATTTTATCAAAAT
1 TTATAAAATTTTATCAAAAT
8314839 TTAAATAATT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 12 0.71
22 5 0.29
ACGTcount: A:0.46, C:0.02, G:0.05, T:0.46
Consensus pattern (22 bp):
TTATAAAATTTTATCAAAATAG
Found at i:8317245 original size:18 final size:18
Alignment explanation
Indices: 8317222--8317256 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
8317212 CATGGATGAC
*
8317222 AGGAAAAATCCATTATAA
1 AGGAAAAATCAATTATAA
8317240 AGGAAAAATCAATTATA
1 AGGAAAAATCAATTATA
8317257 TATGTAATAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.57, C:0.09, G:0.11, T:0.23
Consensus pattern (18 bp):
AGGAAAAATCAATTATAA
Found at i:8318738 original size:26 final size:25
Alignment explanation
Indices: 8318686--8318743 Score: 80
Period size: 26 Copynumber: 2.3 Consensus size: 25
8318676 AATTGGTAAA
* *
8318686 TTTAATGTATTTCATAAAACCTGTT
1 TTTAATGTATTTCATAAAAACTATT
8318711 TTTAATTGTATTTCATAAAAACTATT
1 TTTAA-TGTATTTCATAAAAACTATT
*
8318737 TTCAATG
1 TTTAATG
8318744 AAACAAATAT
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
25 7 0.24
26 22 0.76
ACGTcount: A:0.34, C:0.10, G:0.07, T:0.48
Consensus pattern (25 bp):
TTTAATGTATTTCATAAAAACTATT
Found at i:8322157 original size:13 final size:14
Alignment explanation
Indices: 8322119--8322158 Score: 57
Period size: 13 Copynumber: 3.0 Consensus size: 14
8322109 CAAAAATAAT
8322119 TATAATTATAAATA
1 TATAATTATAAATA
*
8322133 TATAA-TATAAATC
1 TATAATTATAAATA
8322146 TATAATTA-AAATA
1 TATAATTATAAATA
8322159 AAATAACATA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
13 16 0.70
14 7 0.30
ACGTcount: A:0.57, C:0.03, G:0.00, T:0.40
Consensus pattern (14 bp):
TATAATTATAAATA
Found at i:8323372 original size:14 final size:14
Alignment explanation
Indices: 8323344--8323390 Score: 67
Period size: 14 Copynumber: 3.4 Consensus size: 14
8323334 TCAGAAAAAG
* *
8323344 TCAACGGTCAGCGA
1 TCAACTGTCAACGA
*
8323358 TCAACTGTTAACGA
1 TCAACTGTCAACGA
8323372 TCAACTGTCAACGA
1 TCAACTGTCAACGA
8323386 TCAAC
1 TCAAC
8323391 GGTCGGTCAA
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
14 29 1.00
ACGTcount: A:0.34, C:0.28, G:0.17, T:0.21
Consensus pattern (14 bp):
TCAACTGTCAACGA
Found at i:8323402 original size:11 final size:11
Alignment explanation
Indices: 8323386--8323419 Score: 50
Period size: 11 Copynumber: 3.1 Consensus size: 11
8323376 CTGTCAACGA
8323386 TCAACGGTCGG
1 TCAACGGTCGG
* *
8323397 TCAACGATCGA
1 TCAACGGTCGG
8323408 TCAACGGTCGG
1 TCAACGGTCGG
8323419 T
1 T
8323420 TAATGGTTTG
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.24, C:0.26, G:0.29, T:0.21
Consensus pattern (11 bp):
TCAACGGTCGG
Found at i:8323449 original size:17 final size:16
Alignment explanation
Indices: 8323424--8323455 Score: 55
Period size: 17 Copynumber: 1.9 Consensus size: 16
8323414 GTCGGTTAAT
8323424 GGTTTGACTTGGTTCG
1 GGTTTGACTTGGTTCG
8323440 GGTTTAGACTTGGTTC
1 GGTTT-GACTTGGTTC
8323456 AATTAGGTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 5 0.33
17 10 0.67
ACGTcount: A:0.09, C:0.12, G:0.34, T:0.44
Consensus pattern (16 bp):
GGTTTGACTTGGTTCG
Found at i:8329260 original size:14 final size:13
Alignment explanation
Indices: 8329222--8329264 Score: 54
Period size: 12 Copynumber: 3.4 Consensus size: 13
8329212 ATTTACAAAA
8329222 ATAAATATA-AAT
1 ATAAATATATAAT
8329234 ATAAATATATAAT
1 ATAAATATATAAT
*
8329247 ATTAAATCTATAAT
1 A-TAAATATATAAT
8329261 -TAAA
1 ATAAA
8329265 ATAAAATAAC
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
12 13 0.46
13 4 0.14
14 11 0.39
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.37
Consensus pattern (13 bp):
ATAAATATATAAT
Found at i:8330369 original size:15 final size:15
Alignment explanation
Indices: 8330351--8330384 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
8330341 GGGTTTGGAC
8330351 TTGGTTCAATTGGGT
1 TTGGTTCAATTGGGT
* *
8330366 TTGGTTCACTTTGGT
1 TTGGTTCAATTGGGT
8330381 TTGG
1 TTGG
8330385 GCTTAAGATT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.09, C:0.09, G:0.32, T:0.50
Consensus pattern (15 bp):
TTGGTTCAATTGGGT
Found at i:8347329 original size:41 final size:41
Alignment explanation
Indices: 8347261--8347340 Score: 101
Period size: 41 Copynumber: 2.0 Consensus size: 41
8347251 AAAAATGACC
8347261 ATTAAAAATATTAAATCAAATTATATA-TATATAAAATAAAT
1 ATTAAAAATATTAAATCAAATTATATATTA-ATAAAATAAAT
***
8347302 ATTAAAAATATTAAAATTTTATT-TATATTAATAAAATAA
1 ATTAAAAATATT-AAATCAAATTATATATTAATAAAATAA
8347341 TATCTATATC
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
41 25 0.74
42 9 0.26
ACGTcount: A:0.59, C:0.01, G:0.00, T:0.40
Consensus pattern (41 bp):
ATTAAAAATATTAAATCAAATTATATATTAATAAAATAAAT
Found at i:8347910 original size:19 final size:20
Alignment explanation
Indices: 8347886--8347929 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
8347876 TTAAATATAA
* *
8347886 TTAAAAAA-TATTTTAAAAT
1 TTAAAAAACTATCTCAAAAT
8347905 TTAAAAAACTATCTCAAAAT
1 TTAAAAAACTATCTCAAAAT
8347925 TTAAA
1 TTAAA
8347930 GTTGTGGTAC
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 8 0.36
20 14 0.64
ACGTcount: A:0.57, C:0.07, G:0.00, T:0.36
Consensus pattern (20 bp):
TTAAAAAACTATCTCAAAAT
Found at i:8349873 original size:23 final size:25
Alignment explanation
Indices: 8349847--8349895 Score: 75
Period size: 23 Copynumber: 2.0 Consensus size: 25
8349837 TGGGTTAGTG
8349847 ATTTAATATAAAT-A-TATATAATT
1 ATTTAATATAAATAATTATATAATT
*
8349870 ATTTAATATATATAATTATATAATT
1 ATTTAATATAAATAATTATATAATT
8349895 A
1 A
8349896 ATTTTTATAA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 12 0.52
24 1 0.04
25 10 0.43
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (25 bp):
ATTTAATATAAATAATTATATAATT
Found at i:8349876 original size:8 final size:8
Alignment explanation
Indices: 8349861--8349895 Score: 52
Period size: 8 Copynumber: 4.2 Consensus size: 8
8349851 AATATAAATA
8349861 TATATAAT
1 TATATAAT
*
8349869 TATTTAAT
1 TATATAAT
8349877 ATATATAAT
1 -TATATAAT
8349886 TATATAAT
1 TATATAAT
8349894 TA
1 TA
8349896 ATTTTTATAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
8 17 0.71
9 7 0.29
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (8 bp):
TATATAAT
Found at i:8349879 original size:17 final size:17
Alignment explanation
Indices: 8349852--8349893 Score: 66
Period size: 17 Copynumber: 2.4 Consensus size: 17
8349842 TAGTGATTTA
8349852 ATATAAATATATATAATT
1 ATAT-AATATATATAATT
*
8349870 ATTTAATATATATAATT
1 ATATAATATATATAATT
8349887 ATATAAT
1 ATATAAT
8349894 TAATTTTTAT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
17 19 0.86
18 3 0.14
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (17 bp):
ATATAATATATATAATT
Found at i:8349914 original size:25 final size:22
Alignment explanation
Indices: 8349853--8349915 Score: 56
Period size: 25 Copynumber: 2.6 Consensus size: 22
8349843 AGTGATTTAA
8349853 TATAAAT-ATATATAATTATTT
1 TATAAATAATATATAATTATTT
*
8349874 AATATATATAATTATATAATTAATTTT
1 --TATAAATAA-TATATAATT-A-TTT
8349901 TATAACATAATATAT
1 TATAA-ATAATATAT
8349916 CTGGGTCGAG
Statistics
Matches: 33, Mismatches: 2, Indels: 8
0.77 0.05 0.19
Matches are distributed among these distances:
23 6 0.18
24 1 0.03
25 18 0.55
26 5 0.15
27 3 0.09
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (22 bp):
TATAAATAATATATAATTATTT
Found at i:8353216 original size:30 final size:30
Alignment explanation
Indices: 8353182--8353240 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
8353172 TGGTTTGGCA
8353182 CATGGCCGTGTG-CTCAGCCCGTGTGGCTCG
1 CATGGCCGTGTGTC-CAGCCCGTGTGGCTCG
*
8353212 CATGGCCGTGTGTCCAGCTCGTGTGGCTC
1 CATGGCCGTGTGTCCAGCCCGTGTGGCTC
8353241 ATAAAATTTG
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
30 26 0.96
31 1 0.04
ACGTcount: A:0.07, C:0.32, G:0.36, T:0.25
Consensus pattern (30 bp):
CATGGCCGTGTGTCCAGCCCGTGTGGCTCG
Found at i:8354825 original size:20 final size:21
Alignment explanation
Indices: 8354786--8354832 Score: 69
Period size: 20 Copynumber: 2.3 Consensus size: 21
8354776 AACAACAAGT
*
8354786 AAATAAATAAATAAAATATAA
1 AAATACATAAATAAAATATAA
*
8354807 AAATACATAAA-ATAATATAA
1 AAATACATAAATAAAATATAA
8354827 AAATAC
1 AAATAC
8354833 GCAAAATTGT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
20 14 0.58
21 10 0.42
ACGTcount: A:0.72, C:0.04, G:0.00, T:0.23
Consensus pattern (21 bp):
AAATACATAAATAAAATATAA
Found at i:8354838 original size:20 final size:20
Alignment explanation
Indices: 8354800--8354839 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
8354790 AAATAAATAA
*
8354800 AATATAAAAATACATAAAAT
1 AATATAAAAATACACAAAAT
*
8354820 AATATAAAAATACGCAAAAT
1 AATATAAAAATACACAAAAT
8354840 TGTAATTGAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.68, C:0.07, G:0.03, T:0.23
Consensus pattern (20 bp):
AATATAAAAATACACAAAAT
Found at i:8356929 original size:49 final size:48
Alignment explanation
Indices: 8356855--8357371 Score: 338
Period size: 49 Copynumber: 10.6 Consensus size: 48
8356845 CACTGACATG
* * * * *
8356855 GTTCACCGTTGTGACTTAAACCTTTCCCTCCATATCTTCGTGGCACTGAA
1 GTTCGCCGTTGCGGCTTAAATCTTTCCCTCCATAT-TTCGTGGTACT-AA
* * * * * *
8356905 -TTCGCTGTTACGGCTTAAATCTTTCCCTTCTTGTTTCTGAGGTAC-AA
1 GTTCGCCGTTGCGGCTTAAATCTTTCCCTCCATATTTC-GTGGTACTAA
* * * *
8356952 GGTTCGCCGTTGCGACTTAAACCTTTCCCTCTATATCTTCGTGGTACT-G
1 -GTTCGCCGTTGCGGCTTAAATCTTTCCCTCCATAT-TTCGTGGTACTAA
* * * * *
8357001 GATTCGCCGTTGCGGCTTAAATATTTTCCTTCATGTTTCTGAGGTAC-AA
1 G-TTCGCCGTTGCGGCTTAAATCTTTCCCTCCATATTTC-GTGGTACTAA
* * *
8357050 GGTTCGCCGTTACGACTTAAACCTTTCCCTCCATATCTTCGTGGTACT-A
1 -GTTCGCCGTTGCGGCTTAAATCTTTCCCTCCATAT-TTCGTGGTACTAA
* *
8357099 GATTCGCCGTTGCGGCTTAAATCTTTCCCTTCATGTTTC-TAAGGTAC-AA
1 G-TTCGCCGTTGCGGCTTAAATCTTTCCCTCCATATTTCGT--GGTACTAA
* * * *
8357148 GGTTCGTCGTTGCGGCTTAAATCTTTCCCTTCATGTTTCTGAGGTA-TAA
1 -GTTCGCCGTTGCGGCTTAAATCTTTCCCTCCATATTTC-GTGGTACTAA
* * * * *
8357197 GGTTCACCGTTACGACTTAAACCTTTCCCTCCATATCTTCGTGGTACT-G
1 -GTTCGCCGTTGCGGCTTAAATCTTTCCCTCCATAT-TTCGTGGTACTAA
* * * * * *
8357246 GATTCGTCATTGCGGCTTAAATCTTTCCCTTCATGTTTTTGAGGTA-TAAA
1 G-TTCGCCGTTGCGGCTTAAATCTTTCCCTCCAT-ATTTCGTGGTACT-AA
* * * *
8357296 GTTCGCCGTTGTGACTTAAACCTTTCCCTCAATATCTTCGTGGTACT-A
1 GTTCGCCGTTGCGGCTTAAATCTTTCCCTCCATAT-TTCGTGGTACTAA
** *
8357344 GATTCATCGTTGCGGCTT-AACCTTTCCC
1 G-TTCGCCGTTGCGGCTTAAATCTTTCCC
8357372 ATTTCATCTT
Statistics
Matches: 360, Mismatches: 79, Indels: 58
0.72 0.16 0.12
Matches are distributed among these distances:
47 3 0.01
48 26 0.07
49 316 0.88
50 15 0.04
ACGTcount: A:0.18, C:0.26, G:0.18, T:0.38
Consensus pattern (48 bp):
GTTCGCCGTTGCGGCTTAAATCTTTCCCTCCATATTTCGTGGTACTAA
Found at i:8357032 original size:98 final size:98
Alignment explanation
Indices: 8356854--8357177 Score: 504
Period size: 98 Copynumber: 3.3 Consensus size: 98
8356844 CCACTGACAT
* * * * * *
8356854 GGTTCACCGTTGTGACTTAAACCTTTCCCTCCATATCTTCGTGGCACTGAATTCGCTGTTACGGC
1 GGTTCGCCGTTGCGACTTAAACCTTTCCCTCCATATCTTCGTGGTACTGGATTCGCCGTTGCGGC
*
8356919 TTAAATCTTTCCCTTCTTGTTTCTGAGGTACAA
66 TTAAATCTTTCCCTTCATGTTTCTGAGGTACAA
*
8356952 GGTTCGCCGTTGCGACTTAAACCTTTCCCTCTATATCTTCGTGGTACTGGATTCGCCGTTGCGGC
1 GGTTCGCCGTTGCGACTTAAACCTTTCCCTCCATATCTTCGTGGTACTGGATTCGCCGTTGCGGC
* *
8357017 TTAAATATTTTCCTTCATGTTTCTGAGGTACAA
66 TTAAATCTTTCCCTTCATGTTTCTGAGGTACAA
* *
8357050 GGTTCGCCGTTACGACTTAAACCTTTCCCTCCATATCTTCGTGGTACTAGATTCGCCGTTGCGGC
1 GGTTCGCCGTTGCGACTTAAACCTTTCCCTCCATATCTTCGTGGTACTGGATTCGCCGTTGCGGC
*
8357115 TTAAATCTTTCCCTTCATGTTTCTAAGGTACAA
66 TTAAATCTTTCCCTTCATGTTTCTGAGGTACAA
* * *
8357148 GGTTCGTCGTTGCGGCTTAAATCTTTCCCT
1 GGTTCGCCGTTGCGACTTAAACCTTTCCCT
8357178 TCATGTTTCT
Statistics
Matches: 206, Mismatches: 20, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
98 206 1.00
ACGTcount: A:0.18, C:0.26, G:0.19, T:0.37
Consensus pattern (98 bp):
GGTTCGCCGTTGCGACTTAAACCTTTCCCTCCATATCTTCGTGGTACTGGATTCGCCGTTGCGGC
TTAAATCTTTCCCTTCATGTTTCTGAGGTACAA
Found at i:8357127 original size:147 final size:146
Alignment explanation
Indices: 8356905--8357324 Score: 488
Period size: 147 Copynumber: 2.9 Consensus size: 146
8356895 TGGCACTGAA
* * * * * * * * * *
8356905 TTCGCTGTTACGGCTTAAATCTTTCCCTTCTTGT-TTCTGAGGTACAAGGTTCGCCGTTGCGACT
1 TTCGCCGTTACGACTTAAACCTTTCCCTCCATATCTTC-GTGGTACTAGATTCGCCGTTGCGGCT
* * *
8356969 TAAACCTTTCCC-TCTATATCTTCGT-GGTAC-TGGATTCGCCGTTGCGGCTTAAATATTTTCCT
65 TAAATCTTTCCCTTC-ATAT-TTC-TAGGTACAAGG-TTCGCCGTTGCGGCTTAAATATTTCCCT
8357031 TCATGTTTCTGAGGTACAAGG
126 TCATGTTTCTGAGGTACAAGG
8357052 TTCGCCGTTACGACTTAAACCTTTCCCTCCATATCTTCGTGGTACTAGATTCGCCGTTGCGGCTT
1 TTCGCCGTTACGACTTAAACCTTTCCCTCCATATCTTCGTGGTACTAGATTCGCCGTTGCGGCTT
* * *
8357117 AAATCTTTCCCTTCATGTTTCTAAGGTACAAGGTTCGTCGTTGCGGCTTAAATCTTTCCCTTCAT
66 AAATCTTTCCCTTCATATTTCT-AGGTACAAGGTTCGCCGTTGCGGCTTAAATATTTCCCTTCAT
*
8357182 GTTTCTGAGGTATAAGG
130 GTTTCTGAGGTACAAGG
* * * *
8357199 TTCACCGTTACGACTTAAACCTTTCCCTCCATATCTTCGTGGTACTGGATTCGTCATTGCGGCTT
1 TTCGCCGTTACGACTTAAACCTTTCCCTCCATATCTTCGTGGTACTAGATTCGCCGTTGCGGCTT
* * * * * * **
8357264 AAATCTTTCCCTTCATGTTTTTGAGGTATAAAGTTCGCCGTTGTGACTTAAACCTTTCCCT
66 AAATCTTTCCCTTCATATTTCT-AGGTACAAGGTTCGCCGTTGCGGCTTAAATATTTCCCT
8357325 CAATATCTTC
Statistics
Matches: 239, Mismatches: 29, Indels: 10
0.86 0.10 0.04
Matches are distributed among these distances:
145 1 0.00
146 3 0.01
147 228 0.95
148 7 0.03
ACGTcount: A:0.18, C:0.25, G:0.19, T:0.38
Consensus pattern (146 bp):
TTCGCCGTTACGACTTAAACCTTTCCCTCCATATCTTCGTGGTACTAGATTCGCCGTTGCGGCTT
AAATCTTTCCCTTCATATTTCTAGGTACAAGGTTCGCCGTTGCGGCTTAAATATTTCCCTTCATG
TTTCTGAGGTACAAGG
Found at i:8357207 original size:98 final size:98
Alignment explanation
Indices: 8356854--8357324 Score: 454
Period size: 98 Copynumber: 4.8 Consensus size: 98
8356844 CCACTGACAT
* * * * * * * *
8356854 GGTTCACCGTTGTGACTTAAACCTTTCCCTCCATATCTTCGTGGCACT-GAATTCGCTGTTACGG
1 GGTTCGCCGTTGCGACTTAAACCTTTCCCTTCATATCTTCGAGGTACTAG-GTTCGCCGTTGCGG
*
8356918 CTTAAATCTTTCCCTTCTTGTTTCTGAGGTACAA
65 CTTAAATCTTTCCCTTCATGTTTCTGAGGTACAA
*
8356952 GGTTCGCCGTTGCGACTTAAACCTTTCCC-TCTATATCTTCGTGGTACT-GGATTCGCCGTTGCG
1 GGTTCGCCGTTGCGACTTAAACCTTTCCCTTC-ATATCTTCGAGGTACTAGG-TTCGCCGTTGCG
* *
8357015 GCTTAAATATTTTCCTTCATGTTTCTGAGGTACAA
64 GCTTAAATCTTTCCCTTCATGTTTCTGAGGTACAA
* * * *
8357050 GGTTCGCCGTTACGACTTAAACCTTTCCCTCCATATCTTCGTGGTACTAGATTCGCCGTTGCGGC
1 GGTTCGCCGTTGCGACTTAAACCTTTCCCTTCATATCTTCGAGGTACTAGGTTCGCCGTTGCGGC
*
8357115 TTAAATCTTTCCCTTCATGTTTCTAAGGTACAA
66 TTAAATCTTTCCCTTCATGTTTCTGAGGTACAA
* * * * * *
8357148 GGTTCGTCGTTGCGGCTTAAATCTTTCCCTTCATGT-TTCTGAGGTA-TAAGGTTCACCGTTACG
1 GGTTCGCCGTTGCGACTTAAACCTTTCCCTTCATATCTTC-GAGGTACT-AGGTTCGCCGTTGCG
* * * * * *
8357211 ACTTAAACCTTTCCCTCCATATCTTC-GTGGTAC-T
64 GCTTAAATCTTTCCCTTCATGT-TTCTGAGGTACAA
* * * * * * * * *
8357245 GGATTCGTCATTGCGGCTTAAATCTTTCCCTTCATGTTTTTGAGGTA-TAAAGTTCGCCGTTGTG
1 GG-TTCGCCGTTGCGACTTAAACCTTTCCCTTCATATCTTCGAGGTACT-AGGTTCGCCGTTGCG
* *
8357309 ACTTAAACCTTTCCCT
64 GCTTAAATCTTTCCCT
8357325 CAATATCTTC
Statistics
Matches: 325, Mismatches: 39, Indels: 18
0.85 0.10 0.05
Matches are distributed among these distances:
97 7 0.02
98 311 0.96
99 7 0.02
ACGTcount: A:0.18, C:0.25, G:0.18, T:0.38
Consensus pattern (98 bp):
GGTTCGCCGTTGCGACTTAAACCTTTCCCTTCATATCTTCGAGGTACTAGGTTCGCCGTTGCGGC
TTAAATCTTTCCCTTCATGTTTCTGAGGTACAA
Found at i:8357363 original size:147 final size:147
Alignment explanation
Indices: 8357003--8357477 Score: 460
Period size: 147 Copynumber: 3.2 Consensus size: 147
8356993 TGGTACTGGA
* ** * * * * *
8357003 TTCGCCGTTGCGGCTTAAATATTTTCCTTCATGTTTCTGAGGTACAAGGTTCGCCGTTACGACTT
1 TTCGCCGTTGCGACTTAAACCTTTCCCTTCATATTTCTGAGGTATAAGATTCACCGTTACGACTT
*
8357068 AAACCTTTCCCTCCATATCTTCGTGGTACTAGATTCGCCGTTGCGGCTTAAATCTTTCCCTTCAT
66 AAACCTTTCCCTCCATATCTTCGTGGTACTAGATTCGCCATTGCGGCTTAAATCTTTCCCTTCAT
*
8357133 GTTTCTAAGGTACAAGG
131 GTTTCTAAGGTACAAAG
* * * * *
8357150 TTCGTCGTTGCGGCTTAAATCTTTCCCTTCATGTTTCTGAGGTATAAGGTTCACCGTTACGACTT
1 TTCGCCGTTGCGACTTAAACCTTTCCCTTCATATTTCTGAGGTATAAGATTCACCGTTACGACTT
* *
8357215 AAACCTTTCCCTCCATATCTTCGTGGTACTGGATTCGTCATTGCGGCTTAAATCTTTCCCTTCAT
66 AAACCTTTCCCTCCATATCTTCGTGGTACTAGATTCGCCATTGCGGCTTAAATCTTTCCCTTCAT
* * *
8357280 GTTTTTGAGGTATAAAG
131 GTTTCTAAGGTACAAAG
* * * * *
8357297 TTCGCCGTTGTGACTTAAACCTTTCCC-TCAATATCTTC-GTGGTACT-AGATTCATCGTTGCGG
1 TTCGCCGTTGCGACTTAAACCTTTCCCTTC-ATAT-TTCTGAGGTA-TAAGATTCACCGTTACGA
* * * ** * * * *
8357359 CTT-AACCTTTCCCAT--TTCATCTTCATGGAACCGGATTCGCCATTACGGCCTCAATCCTTCCC
63 CTTAAACCTTTCCC-TCCAT-ATCTTCGTGGTACTAGATTCGCCATTGCGGCTTAAATCTTTCCC
* * * * **
8357421 ATAATATCTGCTAAGGTACCGAG
126 TTCATGT-TTCTAAGGTACAAAG
**
8357444 TTCGCCGTTATGACCTT-AACCTTTCCCTTCATAT
1 TTCGCCGTTGCGA-CTTAAACCTTTCCCTTCATAT
8357478 CTTCGTGGTA
Statistics
Matches: 279, Mismatches: 41, Indels: 16
0.83 0.12 0.05
Matches are distributed among these distances:
145 1 0.00
146 52 0.19
147 217 0.78
148 9 0.03
ACGTcount: A:0.20, C:0.26, G:0.17, T:0.37
Consensus pattern (147 bp):
TTCGCCGTTGCGACTTAAACCTTTCCCTTCATATTTCTGAGGTATAAGATTCACCGTTACGACTT
AAACCTTTCCCTCCATATCTTCGTGGTACTAGATTCGCCATTGCGGCTTAAATCTTTCCCTTCAT
GTTTCTAAGGTACAAAG
Found at i:8362703 original size:29 final size:29
Alignment explanation
Indices: 8362651--8362711 Score: 97
Period size: 29 Copynumber: 2.1 Consensus size: 29
8362641 TTATCATGTC
8362651 ATTTCATAGAAAAATGCAAAAGATCATAAT
1 ATTTCATAGAAAAATGCAAAAGATCAT-AT
*
8362681 ATTTCATAG-AAAATGCAAAAGATTATAT
1 ATTTCATAGAAAAATGCAAAAGATCATAT
8362709 ATT
1 ATT
8362712 AATTTAAACC
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
28 5 0.17
29 16 0.53
30 9 0.30
ACGTcount: A:0.51, C:0.08, G:0.10, T:0.31
Consensus pattern (29 bp):
ATTTCATAGAAAAATGCAAAAGATCATAT
Found at i:8364154 original size:20 final size:20
Alignment explanation
Indices: 8364112--8364155 Score: 70
Period size: 20 Copynumber: 2.2 Consensus size: 20
8364102 GTAAATAAAT
*
8364112 AAATAATATAAAAATACATA
1 AAATAATATAAAAATACACA
*
8364132 AAATAATATAAAAATACGCA
1 AAATAATATAAAAATACACA
8364152 AAAT
1 AAAT
8364156 TGTAATTGAA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.68, C:0.07, G:0.02, T:0.23
Consensus pattern (20 bp):
AAATAATATAAAAATACACA
Found at i:8367734 original size:30 final size:30
Alignment explanation
Indices: 8367692--8367910 Score: 257
Period size: 30 Copynumber: 7.4 Consensus size: 30
8367682 AACTTTAGAG
*
8367692 AAGTTT-GAGGGTCAAAATGTGATTTTGGAA
1 AAGTTTAG-GGGTCAAAATGTAATTTTGGAA
** *
8367722 AAGTTTAGGGGTCAAAAAATGATTTTGGAA
1 AAGTTTAGGGGTCAAAATGTAATTTTGGAA
* * *
8367752 AAGTTTGGGGGTCAAAATATGATTTTGGAA
1 AAGTTTAGGGGTCAAAATGTAATTTTGGAA
*
8367782 AAGTTTAGAGGTCAAAATGTAATTTTGGAA
1 AAGTTTAGGGGTCAAAATGTAATTTTGGAA
* *
8367812 AAGTTTA-GAGTTAAAATGTAATTTTGGAA
1 AAGTTTAGGGGTCAAAATGTAATTTTGGAA
* *
8367841 AAGTTTAGGGGTTAAAATGTAATTTTAGAA
1 AAGTTTAGGGGTCAAAATGTAATTTTGGAA
* * *
8367871 AAGTTT-GAGGGTTAAAATCTAATTTTAGAA
1 AAGTTTAG-GGGTCAAAATGTAATTTTGGAA
8367901 AAGTTT-GGGG
1 AAGTTTAGGGG
8367911 ACCTCATGAG
Statistics
Matches: 172, Mismatches: 14, Indels: 7
0.89 0.07 0.04
Matches are distributed among these distances:
29 30 0.17
30 141 0.82
31 1 0.01
ACGTcount: A:0.37, C:0.02, G:0.26, T:0.34
Consensus pattern (30 bp):
AAGTTTAGGGGTCAAAATGTAATTTTGGAA
Found at i:8367785 original size:60 final size:60
Alignment explanation
Indices: 8367692--8367910 Score: 289
Period size: 60 Copynumber: 3.7 Consensus size: 60
8367682 AACTTTAGAG
* ** *
8367692 AAGTTTGAGGGTCAAAATGTGATTTTGGAAAAGTTTAGGGGTCAAAAAATGATTTTGGAA
1 AAGTTTGAGGGTCAAAATGTAATTTTGGAAAAGTTTAGGGGTCAAAATGTAATTTTGGAA
* * * *
8367752 AAGTTTGGGGGTCAAAATATGATTTTGGAAAAGTTTAGAGGTCAAAATGTAATTTTGGAA
1 AAGTTTGAGGGTCAAAATGTAATTTTGGAAAAGTTTAGGGGTCAAAATGTAATTTTGGAA
* * * *
8367812 AAGTTT-AGAGTTAAAATGTAATTTTGGAAAAGTTTAGGGGTTAAAATGTAATTTTAGAA
1 AAGTTTGAGGGTCAAAATGTAATTTTGGAAAAGTTTAGGGGTCAAAATGTAATTTTGGAA
* * *
8367871 AAGTTTGAGGGTTAAAATCTAATTTTAGAAAAGTTT-GGGG
1 AAGTTTGAGGGTCAAAATGTAATTTTGGAAAAGTTTAGGGG
8367911 ACCTCATGAG
Statistics
Matches: 141, Mismatches: 17, Indels: 3
0.88 0.11 0.02
Matches are distributed among these distances:
59 55 0.39
60 86 0.61
ACGTcount: A:0.37, C:0.02, G:0.26, T:0.34
Consensus pattern (60 bp):
AAGTTTGAGGGTCAAAATGTAATTTTGGAAAAGTTTAGGGGTCAAAATGTAATTTTGGAA
Found at i:8371072 original size:24 final size:24
Alignment explanation
Indices: 8371047--8371118 Score: 92
Period size: 24 Copynumber: 3.0 Consensus size: 24
8371037 ATTAGGCTTG
*
8371047 TTGGATAATTGAGTTTAGGGTTTGT
1 TTGGA-AATTGGGTTTAGGGTTTGT
8371072 TTAGG-AATTGGGTTTAGGGTTTGT
1 TT-GGAAATTGGGTTTAGGGTTTGT
* *
8371096 TTAGAAATTGGGTTTAGTGTTTG
1 TTGGAAATTGGGTTTAGGGTTTG
8371119 GGTTATTCGA
Statistics
Matches: 42, Mismatches: 3, Indels: 5
0.84 0.06 0.10
Matches are distributed among these distances:
23 1 0.02
24 37 0.88
25 2 0.05
26 2 0.05
ACGTcount: A:0.19, C:0.00, G:0.33, T:0.47
Consensus pattern (24 bp):
TTGGAAATTGGGTTTAGGGTTTGT
Found at i:8376190 original size:19 final size:21
Alignment explanation
Indices: 8376159--8376201 Score: 63
Period size: 20 Copynumber: 2.1 Consensus size: 21
8376149 AATATAATAA
8376159 TCTAGTGTGTA-TTAAACATG
1 TCTAGTGTGTATTTAAACATG
*
8376179 TCTAGT-TGTATTTTAACATG
1 TCTAGTGTGTATTTAAACATG
8376199 TCT
1 TCT
8376202 TGTATTTTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 4 0.19
20 17 0.81
ACGTcount: A:0.26, C:0.12, G:0.16, T:0.47
Consensus pattern (21 bp):
TCTAGTGTGTATTTAAACATG
Found at i:8378646 original size:17 final size:17
Alignment explanation
Indices: 8378620--8378653 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
8378610 ATGGCTTCAC
*
8378620 ATATTTTTAAAATTTTT
1 ATATTATTAAAATTTTT
*
8378637 ATATTATTAATATTTTT
1 ATATTATTAAAATTTTT
8378654 CTAGTGTGCA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (17 bp):
ATATTATTAAAATTTTT
Found at i:8386267 original size:15 final size:16
Alignment explanation
Indices: 8386241--8386281 Score: 50
Period size: 15 Copynumber: 2.6 Consensus size: 16
8386231 GAGCTCAATA
8386241 TTATATTTATTATGT-T
1 TTATA-TTATTATGTAT
*
8386257 TTATATTATTATTTAT
1 TTATATTATTATGTAT
8386273 TTAT-TTATT
1 TTATATTATT
8386282 CCAAATTTCA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
15 13 0.57
16 10 0.43
ACGTcount: A:0.27, C:0.00, G:0.02, T:0.71
Consensus pattern (16 bp):
TTATATTATTATGTAT
Found at i:8392530 original size:14 final size:14
Alignment explanation
Indices: 8392511--8392583 Score: 64
Period size: 14 Copynumber: 5.5 Consensus size: 14
8392501 GCAAAATTTG
8392511 ATTCGAATAAAAAA
1 ATTCGAATAAAAAA
* *
8392525 ATTCG-A-AATAAT
1 ATTCGAATAAAAAA
*
8392537 TTTCGAATAAAAAA
1 ATTCGAATAAAAAA
* *
8392551 ATTCG-A-AATAAT
1 ATTCGAATAAAAAA
*
8392563 TTTCGAATAAAAAA
1 ATTCGAATAAAAAA
8392577 ATTCGAA
1 ATTCGAA
8392584 ATAATTTTCG
Statistics
Matches: 43, Mismatches: 12, Indels: 8
0.68 0.19 0.13
Matches are distributed among these distances:
12 16 0.37
13 4 0.09
14 23 0.53
ACGTcount: A:0.55, C:0.08, G:0.08, T:0.29
Consensus pattern (14 bp):
ATTCGAATAAAAAA
Found at i:8392541 original size:26 final size:26
Alignment explanation
Indices: 8392512--8392596 Score: 170
Period size: 26 Copynumber: 3.3 Consensus size: 26
8392502 CAAAATTTGA
8392512 TTCGAATAAAAAAATTCGAAATAATT
1 TTCGAATAAAAAAATTCGAAATAATT
8392538 TTCGAATAAAAAAATTCGAAATAATT
1 TTCGAATAAAAAAATTCGAAATAATT
8392564 TTCGAATAAAAAAATTCGAAATAATT
1 TTCGAATAAAAAAATTCGAAATAATT
8392590 TTCGAAT
1 TTCGAAT
8392597 TTCGAATTAT
Statistics
Matches: 59, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 59 1.00
ACGTcount: A:0.52, C:0.08, G:0.08, T:0.32
Consensus pattern (26 bp):
TTCGAATAAAAAAATTCGAAATAATT
Found at i:8392543 original size:12 final size:12
Alignment explanation
Indices: 8392526--8392595 Score: 50
Period size: 12 Copynumber: 5.5 Consensus size: 12
8392516 AATAAAAAAA
8392526 TTCGAAATAATT
1 TTCGAAATAATT
* **
8392538 TTCGAATAAAAAAA
1 TTCG-A-AATAATT
8392552 TTCGAAATAATT
1 TTCGAAATAATT
* **
8392564 TTCGAATAAAAAAA
1 TTCG-A-AATAATT
8392578 TTCGAAATAATT
1 TTCGAAATAATT
8392590 TTCGAA
1 TTCGAA
8392596 TTTCGAATTA
Statistics
Matches: 42, Mismatches: 12, Indels: 8
0.68 0.19 0.13
Matches are distributed among these distances:
12 22 0.52
13 4 0.10
14 16 0.38
ACGTcount: A:0.50, C:0.09, G:0.09, T:0.33
Consensus pattern (12 bp):
TTCGAAATAATT
Found at i:8392624 original size:9 final size:9
Alignment explanation
Indices: 8392612--8392637 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
8392602 ATTATTCGAA
8392612 TCGAGTTAT
1 TCGAGTTAT
8392621 TCGAGTTAT
1 TCGAGTTAT
8392630 TCGAGTTA
1 TCGAGTTA
8392638 AACGAATCGA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.23, C:0.12, G:0.23, T:0.42
Consensus pattern (9 bp):
TCGAGTTAT
Found at i:8392940 original size:42 final size:42
Alignment explanation
Indices: 8392881--8392964 Score: 134
Period size: 42 Copynumber: 2.0 Consensus size: 42
8392871 CAAATATTTT
*
8392881 TAAACCCAAATATAATTTCATTCTTCAAA-AACACTTATAAAC
1 TAAACCCAAATATAATTTCATTCTT-AAATAACACTCATAAAC
*
8392923 TAAACCCAAATATAATTTTATTCTTAAATAACACTCATAAAC
1 TAAACCCAAATATAATTTCATTCTTAAATAACACTCATAAAC
8392965 AACTCCTTTT
Statistics
Matches: 39, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
41 3 0.08
42 36 0.92
ACGTcount: A:0.48, C:0.20, G:0.00, T:0.32
Consensus pattern (42 bp):
TAAACCCAAATATAATTTCATTCTTAAATAACACTCATAAAC
Found at i:8395173 original size:59 final size:60
Alignment explanation
Indices: 8395108--8395361 Score: 263
Period size: 59 Copynumber: 4.3 Consensus size: 60
8395098 GGGCACTTCA
**
8395108 GGGTAAAATCATAATTTTTGGAAATTTTGGGGTCAAAAAT-GAAATTTTTGGACA-TTCGG
1 GGGTAAAATGGTAATTTTTGGAAATTTTGGGGTCAAAAATGGAAATTTTTGGA-AGTTCGG
* ** * *
8395167 GAGTAAAATGGTAA-TTTTCAAAAGTTTTGGAGTCAAAAAATGG-AATTTTTGGAAGTTTGG
1 GGGTAAAATGGTAATTTTTGGAAA-TTTTGGGGTC-AAAAATGGAAATTTTTGGAAGTTCGG
* * * **
8395227 GGGTAAAATGGTAATTTTTGGAAGTTTGGGGGT--AAAATGGTAATTTTTGGAAAGTT-TA
1 GGGTAAAATGGTAATTTTTGGAAATTTTGGGGTCAAAAATGGAAATTTTTGG-AAGTTCGG
* ** * *
8395285 GGGTAAAATGGT-ATTTTTGGAAGTTTCAGGGTAAAAAATGGAATTTTTTGGAAGTTCGG
1 GGGTAAAATGGTAATTTTTGGAAATTTTGGGGTCAAAAATGGAAATTTTTGGAAGTTCGG
8395344 GGGTAAAATGGTAATTTT
1 GGGTAAAATGGTAATTTT
8395362 GAAAAGTTCG
Statistics
Matches: 163, Mismatches: 21, Indels: 21
0.80 0.10 0.10
Matches are distributed among these distances:
57 25 0.15
58 33 0.20
59 53 0.33
60 45 0.28
61 7 0.04
ACGTcount: A:0.33, C:0.03, G:0.28, T:0.36
Consensus pattern (60 bp):
GGGTAAAATGGTAATTTTTGGAAATTTTGGGGTCAAAAATGGAAATTTTTGGAAGTTCGG
Found at i:8395371 original size:29 final size:29
Alignment explanation
Indices: 8395108--8395361 Score: 198
Period size: 29 Copynumber: 8.6 Consensus size: 29
8395098 GGGCACTTCA
** * **
8395108 GGGTAAAATCATAATTTTTGGAAATTTTG
1 GGGTAAAATGGTAATTTTTGGAAGTTCGG
*
8395137 GGGTCAAAAAT-GAAATTTTTGGACA-TTCGG
1 GGGT--AAAATGGTAATTTTTGGA-AGTTCGG
* *** **
8395167 GAGTAAAATGGTAATTTTCAAAAGTTTTG
1 GGGTAAAATGGTAATTTTTGGAAGTTCGG
* *
8395196 GAGTCAAAAAATGG-AATTTTTGGAAGTTTGG
1 GGGT---AAAATGGTAATTTTTGGAAGTTCGG
*
8395227 GGGTAAAATGGTAATTTTTGGAAGTTTGG
1 GGGTAAAATGGTAATTTTTGGAAGTTCGG
**
8395256 GGGTAAAATGGTAATTTTTGGAAAGTT-TA
1 GGGTAAAATGGTAATTTTTGG-AAGTTCGG
*
8395285 GGGTAAAATGGT-ATTTTTGGAAGTTTC-A
1 GGGTAAAATGGTAATTTTTGGAAG-TTCGG
8395313 GGGTAAAAAATGG-AATTTTTTGGAAGTTCGG
1 GGGT--AAAATGGTAA-TTTTTGGAAGTTCGG
8395344 GGGTAAAATGGTAATTTT
1 GGGTAAAATGGTAATTTT
8395362 GAAAAGTTCG
Statistics
Matches: 188, Mismatches: 19, Indels: 36
0.77 0.08 0.15
Matches are distributed among these distances:
27 3 0.02
28 28 0.15
29 80 0.43
30 34 0.18
31 36 0.19
32 7 0.04
ACGTcount: A:0.33, C:0.03, G:0.28, T:0.36
Consensus pattern (29 bp):
GGGTAAAATGGTAATTTTTGGAAGTTCGG
Found at i:8396451 original size:3 final size:3
Alignment explanation
Indices: 8396443--8396467 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
8396433 TATTGTTGAA
8396443 ATT ATT ATT ATT ATT ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT A
8396468 AAATTATTTA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (3 bp):
ATT
Found at i:8396559 original size:2 final size:2
Alignment explanation
Indices: 8396552--8396613 Score: 124
Period size: 2 Copynumber: 31.0 Consensus size: 2
8396542 ATAATTTAAA
8396552 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
8396594 AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT
8396614 GTTTAAAACG
Statistics
Matches: 60, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 60 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:8397223 original size:15 final size:16
Alignment explanation
Indices: 8397199--8397228 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
8397189 TGTTTAGGTC
8397199 TTTTTAGTAATTTGGG
1 TTTTTAGTAATTTGGG
8397215 TTTTT-GTAATTTGG
1 TTTTTAGTAATTTGG
8397229 ACATTAAAGC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 9 0.64
16 5 0.36
ACGTcount: A:0.17, C:0.00, G:0.23, T:0.60
Consensus pattern (16 bp):
TTTTTAGTAATTTGGG
Found at i:8397371 original size:17 final size:17
Alignment explanation
Indices: 8397322--8397383 Score: 52
Period size: 17 Copynumber: 3.6 Consensus size: 17
8397312 TAAATCTAAC
* *
8397322 TAAATTTAAATTTAAAT
1 TAAATTTAAACTTAAAA
** *
8397339 TCAAAAATAAATTTAAAA
1 T-AAATTTAAACTTAAAA
* *
8397357 TCAATTTAAACTTAATA
1 TAAATTTAAACTTAAAA
8397374 TAAATTTAAA
1 TAAATTTAAA
8397384 AGTTTGATCC
Statistics
Matches: 35, Mismatches: 9, Indels: 2
0.76 0.20 0.04
Matches are distributed among these distances:
17 21 0.60
18 14 0.40
ACGTcount: A:0.56, C:0.05, G:0.00, T:0.39
Consensus pattern (17 bp):
TAAATTTAAACTTAAAA
Found at i:8401153 original size:28 final size:28
Alignment explanation
Indices: 8401121--8401176 Score: 112
Period size: 28 Copynumber: 2.0 Consensus size: 28
8401111 AATTTTTCTC
8401121 CTGAAAACTTATGCTATAAACACAAATT
1 CTGAAAACTTATGCTATAAACACAAATT
8401149 CTGAAAACTTATGCTATAAACACAAATT
1 CTGAAAACTTATGCTATAAACACAAATT
8401177 GTTTACTCTC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.46, C:0.18, G:0.07, T:0.29
Consensus pattern (28 bp):
CTGAAAACTTATGCTATAAACACAAATT
Found at i:8404745 original size:24 final size:23
Alignment explanation
Indices: 8404718--8404799 Score: 85
Period size: 23 Copynumber: 3.5 Consensus size: 23
8404708 ACATTATTCG
*
8404718 TGAACATGTTCAATTATATGTTGA
1 TGAACATGTTCAATTA-ATGTTAA
** *
8404742 TGAACATGTTCGTTTAATGTTTA
1 TGAACATGTTCAATTAATGTTAA
* *
8404765 TGAACATGTTCGATTAAAT-TAAA
1 TGAACATGTTCAATT-AATGTTAA
8404788 TGAACATGTTCA
1 TGAACATGTTCA
8404800 TGAATATTAA
Statistics
Matches: 50, Mismatches: 7, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
23 33 0.66
24 17 0.34
ACGTcount: A:0.34, C:0.10, G:0.16, T:0.40
Consensus pattern (23 bp):
TGAACATGTTCAATTAATGTTAA
Found at i:8404808 original size:23 final size:23
Alignment explanation
Indices: 8404764--8404810 Score: 69
Period size: 23 Copynumber: 2.0 Consensus size: 23
8404754 TTTAATGTTT
*
8404764 ATGAACATGTTCGATTAAATTAA
1 ATGAACATGTTCGATGAAATTAA
8404787 ATGAACATGTTC-ATGAATATTAA
1 ATGAACATGTTCGATGAA-ATTAA
8404810 A
1 A
8404811 CAAACGAACA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 4 0.18
23 18 0.82
ACGTcount: A:0.45, C:0.09, G:0.13, T:0.34
Consensus pattern (23 bp):
ATGAACATGTTCGATGAAATTAA
Found at i:8407452 original size:6 final size:6
Alignment explanation
Indices: 8407441--8407468 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
8407431 TATACTTGAA
8407441 ATTTTG ATTTTG ATTTTG ATTTTG ATTT
1 ATTTTG ATTTTG ATTTTG ATTTTG ATTT
8407469 AATCATACAC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.18, C:0.00, G:0.14, T:0.68
Consensus pattern (6 bp):
ATTTTG
Found at i:8408152 original size:29 final size:28
Alignment explanation
Indices: 8408120--8408180 Score: 70
Period size: 28 Copynumber: 2.1 Consensus size: 28
8408110 TTAATAATAG
8408120 TAAAATTGTAATTT-ATCCCTTTAAAATGA
1 TAAAATT-TAATTTAAT-CCTTTAAAATGA
* * *
8408149 TAAAATTTGATTTAATCTTTTAAAATTA
1 TAAAATTTAATTTAATCCTTTAAAATGA
8408177 TAAA
1 TAAA
8408181 TATATAAACT
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
28 19 0.68
29 9 0.32
ACGTcount: A:0.44, C:0.07, G:0.05, T:0.44
Consensus pattern (28 bp):
TAAAATTTAATTTAATCCTTTAAAATGA
Found at i:8409434 original size:22 final size:22
Alignment explanation
Indices: 8409404--8409450 Score: 69
Period size: 22 Copynumber: 2.1 Consensus size: 22
8409394 TTTTGAGCAA
8409404 TTTACTTTTTTTCTTTTATTT-T
1 TTTACTTTTTTTC-TTTATTTAT
*
8409426 TTTAGTTTTTTTCTTTATTTAT
1 TTTACTTTTTTTCTTTATTTAT
8409448 TTT
1 TTT
8409451 TCATTCTCTT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 7 0.30
22 16 0.70
ACGTcount: A:0.11, C:0.06, G:0.02, T:0.81
Consensus pattern (22 bp):
TTTACTTTTTTTCTTTATTTAT
Found at i:8414201 original size:12 final size:12
Alignment explanation
Indices: 8414184--8414208 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
8414174 TGGAGCTTGA
8414184 TGACGTGGCAGC
1 TGACGTGGCAGC
8414196 TGACGTGGCAGC
1 TGACGTGGCAGC
8414208 T
1 T
8414209 TAGGCAGATT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.16, C:0.24, G:0.40, T:0.20
Consensus pattern (12 bp):
TGACGTGGCAGC
Found at i:8414625 original size:25 final size:26
Alignment explanation
Indices: 8414588--8414638 Score: 77
Period size: 25 Copynumber: 2.0 Consensus size: 26
8414578 AATTGTAAAA
8414588 AAAAAAATATCTTTA-AAATTTTTTT
1 AAAAAAATATCTTTAGAAATTTTTTT
* *
8414613 AAAATAATCTCTTTAGAAATTTTTTT
1 AAAAAAATATCTTTAGAAATTTTTTT
8414639 TTATACAACT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 13 0.57
26 10 0.43
ACGTcount: A:0.43, C:0.06, G:0.02, T:0.49
Consensus pattern (26 bp):
AAAAAAATATCTTTAGAAATTTTTTT
Found at i:8415828 original size:21 final size:21
Alignment explanation
Indices: 8415784--8415828 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
8415774 TTTTTTTTAT
*
8415784 TTTTAAATATTATTTGATAAA
1 TTTTAAATATTATTTCATAAA
*
8415805 TTTTAAAT-TTCTTTCATAATA
1 TTTTAAATATTATTTCATAA-A
8415826 TTT
1 TTT
8415829 CTAATTTTTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 9 0.43
21 12 0.57
ACGTcount: A:0.36, C:0.04, G:0.02, T:0.58
Consensus pattern (21 bp):
TTTTAAATATTATTTCATAAA
Found at i:8421382 original size:21 final size:21
Alignment explanation
Indices: 8421358--8421426 Score: 61
Period size: 21 Copynumber: 3.3 Consensus size: 21
8421348 AAAACTCAAA
8421358 AAAAATATAAAAACTATTTTT
1 AAAAATATAAAAACTATTTTT
* * *
8421379 AAAAATTTAAAATC-ATTTAGT
1 AAAAATATAAAAACTATTT-TT
* * *
8421400 -AATATATAAAAATTATTTTA
1 AAAAATATAAAAACTATTTTT
8421420 AAAAATA
1 AAAAATA
8421427 ATTAATATTG
Statistics
Matches: 35, Mismatches: 10, Indels: 6
0.69 0.20 0.12
Matches are distributed among these distances:
20 13 0.37
21 22 0.63
ACGTcount: A:0.58, C:0.03, G:0.01, T:0.38
Consensus pattern (21 bp):
AAAAATATAAAAACTATTTTT
Found at i:8422779 original size:2 final size:2
Alignment explanation
Indices: 8422772--8422797 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
8422762 GATTATGTAC
8422772 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
8422798 CAGTATTAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Done.