Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr07 ID=Chr07-JGI_221_v2.0
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: 60982465
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 868082 characters in sequence are not A, C, G, or T
File 44 of 204
Found at i:14912508 original size:3 final size:3
Alignment explanation
Indices: 14912500--14912529 Score: 51
Period size: 3 Copynumber: 10.0 Consensus size: 3
14912490 CATCAAACCA
*
14912500 ATT ATT ATT ATT ATT ATT ATT ATC ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
14912530 GTTACCTGTA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.33, C:0.03, G:0.00, T:0.63
Consensus pattern (3 bp):
ATT
Found at i:14913736 original size:19 final size:18
Alignment explanation
Indices: 14913712--14913767 Score: 62
Period size: 18 Copynumber: 3.1 Consensus size: 18
14913702 GTGAAAAACT
*
14913712 TTAAAAAATATTTTAAAAA
1 TTAAAAAAT-TATTAAAAA
14913731 TT-AAAAATTATTAAAAA
1 TTAAAAAATTATTAAAAA
*
14913748 TTACGAAAATTA-TAAAAA
1 TTA-AAAAATTATTAAAAA
14913766 TT
1 TT
14913768 TAAATATGTA
Statistics
Matches: 33, Mismatches: 2, Indels: 5
0.82 0.05 0.12
Matches are distributed among these distances:
17 10 0.30
18 14 0.42
19 9 0.27
ACGTcount: A:0.61, C:0.02, G:0.02, T:0.36
Consensus pattern (18 bp):
TTAAAAAATTATTAAAAA
Found at i:14913743 original size:10 final size:9
Alignment explanation
Indices: 14913732--14913837 Score: 58
Period size: 9 Copynumber: 11.7 Consensus size: 9
14913722 TTTTAAAAAT
14913732 TAAAAATTA
1 TAAAAATTA
14913741 TTAAAAATTA
1 -TAAAAATTA
**
14913751 CGAAAATTA
1 TAAAAATTA
14913760 TAAAAATT-
1 TAAAAATTA
*
14913768 TAAATATGTA
1 TAAAAAT-TA
14913778 -AAAAA-TA
1 TAAAAATTA
*
14913785 TTAATAATTCA
1 -TAAAAATT-A
*
14913796 TAAATATTTA
1 TAAA-AATTA
*
14913806 AAAAAATTA
1 TAAAAATTA
***
14913815 TAAACGCTA
1 TAAAAATTA
14913824 -AAAAATTA
1 TAAAAATTA
14913832 TAAAAA
1 TAAAAA
14913838 AGTTTCTAAA
Statistics
Matches: 70, Mismatches: 18, Indels: 17
0.67 0.17 0.16
Matches are distributed among these distances:
7 2 0.03
8 11 0.16
9 36 0.51
10 17 0.24
11 4 0.06
ACGTcount: A:0.61, C:0.04, G:0.03, T:0.32
Consensus pattern (9 bp):
TAAAAATTA
Found at i:14913787 original size:28 final size:28
Alignment explanation
Indices: 14913753--14913818 Score: 75
Period size: 26 Copynumber: 2.4 Consensus size: 28
14913743 AAAAATTACG
14913753 AAAATTATAAAAATT-TAAATATGT-AA
1 AAAATTATAAAAATTATAAATATGTAAA
* *
14913779 AAAA-TATTAATAATTCATAAATATTTAAA
1 AAAATTA-TAAAAATT-ATAAATATGTAAA
14913808 AAAATTATAAA
1 AAAATTATAAA
14913819 CGCTAAAAAA
Statistics
Matches: 32, Mismatches: 3, Indels: 7
0.76 0.07 0.17
Matches are distributed among these distances:
25 2 0.06
26 11 0.34
28 8 0.25
29 9 0.28
30 2 0.06
ACGTcount: A:0.62, C:0.02, G:0.02, T:0.35
Consensus pattern (28 bp):
AAAATTATAAAAATTATAAATATGTAAA
Found at i:14915804 original size:21 final size:18
Alignment explanation
Indices: 14915778--14915827 Score: 55
Period size: 21 Copynumber: 2.6 Consensus size: 18
14915768 AAAATAATTC
14915778 GAAAAAAAATGTTAAAATTTA
1 GAAAAAAAAT-TTAAAA--TA
*
14915799 GAAAAAGGAATTTAAAATA
1 GAAAAA-AAATTTAAAATA
14915818 GAAAAAAAAT
1 GAAAAAAAAT
14915828 ATGCATTATT
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
18 3 0.12
19 8 0.31
21 12 0.46
22 3 0.12
ACGTcount: A:0.66, C:0.00, G:0.12, T:0.22
Consensus pattern (18 bp):
GAAAAAAAATTTAAAATA
Found at i:14916651 original size:23 final size:24
Alignment explanation
Indices: 14916617--14916662 Score: 69
Period size: 23 Copynumber: 2.0 Consensus size: 24
14916607 AATTAAACAA
14916617 TAAACGAATTTTAAAT-AATTTAT
1 TAAACGAATTTTAAATGAATTTAT
14916640 TAAAC-AAGTTTTAAATGAATTTA
1 TAAACGAA-TTTTAAATGAATTTA
14916663 AAAAAACTAG
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
22 2 0.10
23 13 0.62
24 6 0.29
ACGTcount: A:0.48, C:0.04, G:0.07, T:0.41
Consensus pattern (24 bp):
TAAACGAATTTTAAATGAATTTAT
Found at i:14918935 original size:18 final size:18
Alignment explanation
Indices: 14918912--14918958 Score: 85
Period size: 18 Copynumber: 2.6 Consensus size: 18
14918902 CAGGCCCCCC
*
14918912 CAAAGCAAGCCCTGGGGG
1 CAAAGCAAGCCCTGGCGG
14918930 CAAAGCAAGCCCTGGCGG
1 CAAAGCAAGCCCTGGCGG
14918948 CAAAGCAAGCC
1 CAAAGCAAGCC
14918959 TCGGTGCAAC
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
18 28 1.00
ACGTcount: A:0.32, C:0.32, G:0.32, T:0.04
Consensus pattern (18 bp):
CAAAGCAAGCCCTGGCGG
Found at i:14919709 original size:21 final size:22
Alignment explanation
Indices: 14919683--14919724 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 22
14919673 AAATATAAGT
*
14919683 ATAAATAATATAATT-AAGAAC
1 ATAAATAACATAATTCAAGAAC
*
14919704 ATAAATAGCATAATTCAAGAA
1 ATAAATAACATAATTCAAGAA
14919725 GAGAACTATC
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 13 0.72
22 5 0.28
ACGTcount: A:0.60, C:0.07, G:0.07, T:0.26
Consensus pattern (22 bp):
ATAAATAACATAATTCAAGAAC
Found at i:14921758 original size:3 final size:3
Alignment explanation
Indices: 14921750--14921826 Score: 154
Period size: 3 Copynumber: 25.7 Consensus size: 3
14921740 TTATAACATA
14921750 AAT AAT AAT AAT AAT 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 AAT
14921798 AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
14921827 GGGCACAAAA
Statistics
Matches: 74, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 74 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:14922340 original size:5 final size:5
Alignment explanation
Indices: 14922330--14922358 Score: 58
Period size: 5 Copynumber: 5.8 Consensus size: 5
14922320 CCTATGGACC
14922330 AAAAT AAAAT AAAAT AAAAT AAAAT AAAA
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAAA
14922359 GAAAGTGGTA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 24 1.00
ACGTcount: A:0.83, C:0.00, G:0.00, T:0.17
Consensus pattern (5 bp):
AAAAT
Found at i:14923377 original size:21 final size:23
Alignment explanation
Indices: 14923328--14923379 Score: 65
Period size: 21 Copynumber: 2.4 Consensus size: 23
14923318 GAAAAAAATT
14923328 TTAGGTTA-TGGGCTTATTAGGC
1 TTAGGTTATTGGGCTTATTAGGC
* *
14923350 TTGGGTTATTGGG-TT-TTAGGG
1 TTAGGTTATTGGGCTTATTAGGC
14923371 TTAGGTTAT
1 TTAGGTTAT
14923380 ATATTTGGGC
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
21 13 0.50
22 9 0.35
23 4 0.15
ACGTcount: A:0.15, C:0.04, G:0.35, T:0.46
Consensus pattern (23 bp):
TTAGGTTATTGGGCTTATTAGGC
Found at i:14925209 original size:12 final size:12
Alignment explanation
Indices: 14925192--14925217 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
14925182 AGGATATGCA
14925192 ATCTTAGATATG
1 ATCTTAGATATG
14925204 ATCTTAGATATG
1 ATCTTAGATATG
14925216 AT
1 AT
14925218 ATATGCAATC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.35, C:0.08, G:0.15, T:0.42
Consensus pattern (12 bp):
ATCTTAGATATG
Found at i:14925240 original size:19 final size:20
Alignment explanation
Indices: 14925204--14925251 Score: 80
Period size: 19 Copynumber: 2.4 Consensus size: 20
14925194 CTTAGATATG
14925204 ATCTTAGATATGATATATGCA
1 ATCTTAGATATGA-ATATGCA
14925225 ATCTTAGATATG-ATATGCA
1 ATCTTAGATATGAATATGCA
14925244 ATCTTAGA
1 ATCTTAGA
14925252 AGATATGATT
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
19 15 0.56
21 12 0.44
ACGTcount: A:0.38, C:0.10, G:0.15, T:0.38
Consensus pattern (20 bp):
ATCTTAGATATGAATATGCA
Found at i:14925273 original size:23 final size:22
Alignment explanation
Indices: 14925209--14925274 Score: 66
Period size: 19 Copynumber: 3.0 Consensus size: 22
14925199 ATATGATCTT
14925209 AGATATGATATATGCAATCTT---
1 AGATATG--ATATGCAATCTTAGA
14925230 AGATATGATATGCAATCTTAGA
1 AGATATGATATGCAATCTTAGA
* *
14925252 AGATATGATTTTGTAATCTTAGA
1 AGATATGA-TATGCAATCTTAGA
14925275 GATTTAATTT
Statistics
Matches: 39, Mismatches: 2, Indels: 6
0.83 0.04 0.13
Matches are distributed among these distances:
19 12 0.31
21 7 0.18
22 8 0.21
23 12 0.31
ACGTcount: A:0.38, C:0.08, G:0.17, T:0.38
Consensus pattern (22 bp):
AGATATGATATGCAATCTTAGA
Found at i:14925857 original size:17 final size:17
Alignment explanation
Indices: 14925826--14925869 Score: 63
Period size: 17 Copynumber: 2.6 Consensus size: 17
14925816 CATAACTTTT
*
14925826 ATATACA-TATATATAC
1 ATATACATTTTATATAC
*
14925842 ATTTACATTTTATATAC
1 ATATACATTTTATATAC
14925859 ATATACATTTT
1 ATATACATTTT
14925870 TTTCCTAACT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
16 6 0.25
17 18 0.75
ACGTcount: A:0.41, C:0.11, G:0.00, T:0.48
Consensus pattern (17 bp):
ATATACATTTTATATAC
Found at i:14926070 original size:30 final size:30
Alignment explanation
Indices: 14926034--14926090 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
14926024 TATTTGTTTA
*
14926034 TATATATATGTA-ATTATCTTTTTTATAATC
1 TATATATATGTATATAAT-TTTTTTATAATC
14926064 TATATATATGTATATAATTTTTTTATA
1 TATATATATGTATATAATTTTTTTATA
14926091 TACGTACATG
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
30 21 0.84
31 4 0.16
ACGTcount: A:0.35, C:0.04, G:0.04, T:0.58
Consensus pattern (30 bp):
TATATATATGTATATAATTTTTTTATAATC
Found at i:14926252 original size:14 final size:14
Alignment explanation
Indices: 14926233--14926260 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
14926223 GCTTTGCATG
14926233 TTATTGATTTATTT
1 TTATTGATTTATTT
14926247 TTATTGATTTATTT
1 TTATTGATTTATTT
14926261 ATTTGTTTAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.21, C:0.00, G:0.07, T:0.71
Consensus pattern (14 bp):
TTATTGATTTATTT
Found at i:14930083 original size:6 final size:6
Alignment explanation
Indices: 14930069--14930097 Score: 51
Period size: 6 Copynumber: 5.0 Consensus size: 6
14930059 AAAATATTTC
14930069 AAAAA- AAAAAG AAAAAG AAAAAG AAAAAG
1 AAAAAG AAAAAG AAAAAG AAAAAG AAAAAG
14930098 GAGAGGCTAA
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
5 5 0.22
6 18 0.78
ACGTcount: A:0.86, C:0.00, G:0.14, T:0.00
Consensus pattern (6 bp):
AAAAAG
Found at i:14931381 original size:44 final size:44
Alignment explanation
Indices: 14931316--14931596 Score: 253
Period size: 44 Copynumber: 6.3 Consensus size: 44
14931306 GTAGATCAGT
* *
14931316 GAAGATAGCAGATCCTGTCTTCCTATATTGGTAGCGAAGTGGATC
1 GAAGAT-GCAGATCTTGTCTTCCTATATTGGTAGCGAAGTAGATC
* * * *
14931361 GAAGATGCAGATCTTATCTTCCCATACTGGTGGCGAAGTAGATC
1 GAAGATGCAGATCTTGTCTTCCTATATTGGTAGCGAAGTAGATC
* * * * * *
14931405 GAAGAAAGCATATCTTGTCTTCATGTATTGGCA-TGAAGTAGATC
1 GAAG-ATGCAGATCTTGTCTTCCTATATTGGTAGCGAAGTAGATC
* * *
14931449 GAAGATAGCAGGTCCTGTCTTCCTATATTGGTAG-GAAGTGGATC
1 GAAGAT-GCAGATCTTGTCTTCCTATATTGGTAGCGAAGTAGATC
* * * * *
14931493 GAAGATACAGATCTTGTCTTCCCATACTAGTGGCGAAGTAGATC
1 GAAGATGCAGATCTTGTCTTCCTATATTGGTAGCGAAGTAGATC
* * * * * * *
14931537 GAAGAAAGCAGATCTTTTCTTCATGTATTAG-CGTGAAGTAGATC
1 GAAG-ATGCAGATCTTGTCTTCCTATATTGGTAGCGAAGTAGATC
14931581 GAAGATAGCAGATCTT
1 GAAGAT-GCAGATCTT
14931597 ACCTTCCTGC
Statistics
Matches: 188, Mismatches: 42, Indels: 13
0.77 0.17 0.05
Matches are distributed among these distances:
43 22 0.12
44 122 0.65
45 44 0.23
ACGTcount: A:0.29, C:0.17, G:0.25, T:0.29
Consensus pattern (44 bp):
GAAGATGCAGATCTTGTCTTCCTATATTGGTAGCGAAGTAGATC
Found at i:14931604 original size:132 final size:133
Alignment explanation
Indices: 14931316--14931594 Score: 479
Period size: 132 Copynumber: 2.1 Consensus size: 133
14931306 GTAGATCAGT
*
14931316 GAAGATAGCAGATCCTGTCTTCCTATATTGGTAGCGAAGTGGATCGAAGATGCAGATCTTATCTT
1 GAAGATAGCAGATCCTGTCTTCCTATATTGGTAGCGAAGTGGATCGAAGATACAGATCTTATCTT
* * *
14931381 CCCATACTGGTGGCGAAGTAGATCGAAGAAAGCATATCTTGTCTTCATGTATTGGCATGAAGTAG
66 CCCATACTAGTGGCGAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATGTATTAGCATGAAGTAG
14931446 ATC
131 ATC
* *
14931449 GAAGATAGCAGGTCCTGTCTTCCTATATTGGTAG-GAAGTGGATCGAAGATACAGATCTTGTCTT
1 GAAGATAGCAGATCCTGTCTTCCTATATTGGTAGCGAAGTGGATCGAAGATACAGATCTTATCTT
* *
14931513 CCCATACTAGTGGCGAAGTAGATCGAAGAAAGCAGATCTTTTCTTCATGTATTAGCGTGAAGTAG
66 CCCATACTAGTGGCGAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATGTATTAGCATGAAGTAG
14931578 ATC
131 ATC
14931581 GAAGATAGCAGATC
1 GAAGATAGCAGATC
14931595 TTACCTTCCT
Statistics
Matches: 137, Mismatches: 9, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
132 104 0.76
133 33 0.24
ACGTcount: A:0.29, C:0.17, G:0.25, T:0.29
Consensus pattern (133 bp):
GAAGATAGCAGATCCTGTCTTCCTATATTGGTAGCGAAGTGGATCGAAGATACAGATCTTATCTT
CCCATACTAGTGGCGAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATGTATTAGCATGAAGTAG
ATC
Found at i:14931700 original size:88 final size:88
Alignment explanation
Indices: 14931585--14931814 Score: 345
Period size: 88 Copynumber: 2.6 Consensus size: 88
14931575 TAGATCGAAG
*
14931585 ATAGCAGATCTTACCTTCCTGCACCGACAGCGAAGCAGATCGAAGACACCAGCCTTG-GCTCCCT
1 ATAGCAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGACACCAGCCTTGCG-TCCCT
*
14931649 GGGTTGCAGCGGAGCAGGCTAAAA
65 GGGTTGCAGCAGAGCAGGCTAAAA
* * * *
14931673 ATAGTAGATCTTGCCTTTCTGCACCGACAGCAAAGCAGATCGAAGGCACCAGCCTTGCGTCCCTG
1 ATAGCAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGACACCAGCCTTGCGTCCCTG
* *
14931738 GGTTGCAGCAGAGTAGGTTAAAA
66 GGTTGCAGCAGAGCAGGCTAAAA
* * *
14931761 ATAGCAGATCTTGCCTTCCTGCACCGACAGCGAAGTAGATCGATGACCCCAGCC
1 ATAGCAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGACACCAGCC
14931815 CTATCTCCCT
Statistics
Matches: 126, Mismatches: 15, Indels: 2
0.88 0.10 0.01
Matches are distributed among these distances:
88 125 0.99
89 1 0.01
ACGTcount: A:0.27, C:0.29, G:0.25, T:0.19
Consensus pattern (88 bp):
ATAGCAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGACACCAGCCTTGCGTCCCTG
GGTTGCAGCAGAGCAGGCTAAAA
Found at i:14931877 original size:44 final size:44
Alignment explanation
Indices: 14931814--14932023 Score: 307
Period size: 44 Copynumber: 4.8 Consensus size: 44
14931804 TGACCCCAGC
*
14931814 CCTATCTCCCTGGTCAGCAGTGGAATAGGTTAAAGATTGTGAAT
1 CCTATCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATTGTGAAT
*
14931858 CCTATCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATTGAGAAT
1 CCTATCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATTGTGAAT
* * * * *
14931902 TCTATCTCCCTGGGCAGTAGTGGAATAGATTGAAGATTGT-AGGT
1 CCTATCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATTGTGA-AT
14931946 CCTATCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATTGTGAAT
1 CCTATCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATTGTGAAT
* *
14931990 CCTATCTCCTTGAG-CAGCAGTGGAGTAGGTTGAA
1 CCTATCTCCCTG-GTCAGCAGTGGAATAGGTTGAA
14932024 AATAGCAGAC
Statistics
Matches: 148, Mismatches: 15, Indels: 6
0.88 0.09 0.04
Matches are distributed among these distances:
43 1 0.01
44 145 0.98
45 2 0.01
ACGTcount: A:0.26, C:0.18, G:0.28, T:0.29
Consensus pattern (44 bp):
CCTATCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATTGTGAAT
Found at i:14932859 original size:19 final size:20
Alignment explanation
Indices: 14932825--14932870 Score: 76
Period size: 19 Copynumber: 2.3 Consensus size: 20
14932815 TAGATATGAC
14932825 CTTAGATATGATATATGCAAT
1 CTTAGATATGA-ATATGCAAT
14932846 CTTAGATATG-ATATGCAAT
1 CTTAGATATGAATATGCAAT
14932865 CTTAGA
1 CTTAGA
14932871 AGATATGATT
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
19 15 0.60
21 10 0.40
ACGTcount: A:0.37, C:0.11, G:0.15, T:0.37
Consensus pattern (20 bp):
CTTAGATATGAATATGCAAT
Found at i:14932892 original size:23 final size:22
Alignment explanation
Indices: 14932828--14932893 Score: 66
Period size: 19 Copynumber: 3.0 Consensus size: 22
14932818 ATATGACCTT
14932828 AGATATGATATATGCAATCTT---
1 AGATATG--ATATGCAATCTTAGA
14932849 AGATATGATATGCAATCTTAGA
1 AGATATGATATGCAATCTTAGA
* *
14932871 AGATATGATTTTGTAATCTTAGA
1 AGATATGA-TATGCAATCTTAGA
14932894 GATTTAATTT
Statistics
Matches: 39, Mismatches: 2, Indels: 6
0.83 0.04 0.13
Matches are distributed among these distances:
19 12 0.31
21 7 0.18
22 8 0.21
23 12 0.31
ACGTcount: A:0.38, C:0.08, G:0.17, T:0.38
Consensus pattern (22 bp):
AGATATGATATGCAATCTTAGA
Found at i:14933194 original size:20 final size:21
Alignment explanation
Indices: 14933168--14933235 Score: 65
Period size: 21 Copynumber: 3.4 Consensus size: 21
14933158 CTTTTTTTAT
14933168 TTATTATTTATTTTTATTAAA
1 TTATTATTTATTTTTATTAAA
*
14933189 TT-TTATTT-TCTTGTTATTAAG
1 TTATTATTTAT-TT-TTATTAAA
*
14933210 TTATTA-TTATTGTTATT--A
1 TTATTATTTATTTTTATTAAA
14933228 TTATTATT
1 TTATTATT
14933236 ACTATGTAAT
Statistics
Matches: 39, Mismatches: 3, Indels: 12
0.72 0.06 0.22
Matches are distributed among these distances:
18 6 0.15
19 2 0.05
20 13 0.33
21 14 0.36
22 4 0.10
ACGTcount: A:0.26, C:0.01, G:0.04, T:0.68
Consensus pattern (21 bp):
TTATTATTTATTTTTATTAAA
Found at i:14933325 original size:44 final size:44
Alignment explanation
Indices: 14933256--14933343 Score: 113
Period size: 44 Copynumber: 2.0 Consensus size: 44
14933246 AAGGCCCAAT
* * *
14933256 CGGCCCAAAACAGTTCCTAGTCCAACATTACAAAATTAAACAGA
1 CGGCCCAAAACAGTCCCTAGCCCAACACTACAAAATTAAACAGA
* * * *
14933300 CGGCCCAAAACGGTCCCTGGCCCAACACTACAAAGTTAAGCAGA
1 CGGCCCAAAACAGTCCCTAGCCCAACACTACAAAATTAAACAGA
14933344 AAAACCCTAA
Statistics
Matches: 37, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
44 37 1.00
ACGTcount: A:0.39, C:0.31, G:0.16, T:0.15
Consensus pattern (44 bp):
CGGCCCAAAACAGTCCCTAGCCCAACACTACAAAATTAAACAGA
Found at i:14934408 original size:3 final size:3
Alignment explanation
Indices: 14934380--14934435 Score: 73
Period size: 3 Copynumber: 19.3 Consensus size: 3
14934370 TGCTATACCC
*
14934380 TTA TT- TTA TT- TTA TT- GTA TATA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA T-TA TTA TTA TTA TTA TTA TTA TTA
14934423 TTA TTA TTA TTA T
1 TTA TTA TTA TTA T
14934436 ACTTATACAT
Statistics
Matches: 47, Mismatches: 2, Indels: 8
0.82 0.04 0.14
Matches are distributed among these distances:
2 5 0.11
3 39 0.83
4 3 0.06
ACGTcount: A:0.30, C:0.00, G:0.02, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:14934728 original size:15 final size:15
Alignment explanation
Indices: 14934708--14934738 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
14934698 TTATTTTTTA
14934708 TACTTTATCTTTATT
1 TACTTTATCTTTATT
*
14934723 TACTTTATTTTTATT
1 TACTTTATCTTTATT
14934738 T
1 T
14934739 TGTAAATATA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.19, C:0.10, G:0.00, T:0.71
Consensus pattern (15 bp):
TACTTTATCTTTATT
Found at i:14935869 original size:2 final size:2
Alignment explanation
Indices: 14935858--14935888 Score: 55
Period size: 2 Copynumber: 16.0 Consensus size: 2
14935848 ACACATGCAC
14935858 AT AT -T 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
14935889 TATTATTCTA
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 27 0.96
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
AT
Found at i:14936157 original size:30 final size:30
Alignment explanation
Indices: 14936123--14936179 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
14936113 TATTTGTTTA
*
14936123 TATATATATGTA-ATTATCTTTTTTATAATC
1 TATATATATGTATATAAT-TTTTTTATAATC
14936153 TATATATATGTATATAATTTTTTTATA
1 TATATATATGTATATAATTTTTTTATA
14936180 TATGTACATG
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
30 21 0.84
31 4 0.16
ACGTcount: A:0.35, C:0.04, G:0.04, T:0.58
Consensus pattern (30 bp):
TATATATATGTATATAATTTTTTTATAATC
Found at i:14938356 original size:17 final size:17
Alignment explanation
Indices: 14938333--14938366 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
14938323 ATTAAAGATA
*
14938333 TTTTTTTGTTTTGTTTTG
1 TTTTTTT-TTTAGTTTTG
14938351 TTTTTTTTTTAGTTTT
1 TTTTTTTTTTAGTTTT
14938367 AGATTCGTAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 8 0.53
18 7 0.47
ACGTcount: A:0.03, C:0.00, G:0.12, T:0.85
Consensus pattern (17 bp):
TTTTTTTTTTAGTTTTG
Found at i:14938516 original size:114 final size:113
Alignment explanation
Indices: 14938211--14938541 Score: 344
Period size: 119 Copynumber: 2.8 Consensus size: 113
14938201 TATTTAAAAG
* * *
14938211 AAAGATTTTTTTGTTGTTGTTGTGTTTTATTAGATTTAAGTTTGTATTAAATGTATGATTAGTTT
1 AAAGATATTTTT-TTGTTGTTGTGTTTTATTAG-TTTAAGTTTGTATTAAAGGTATGATTAATTT
* * * * * *
14938276 GTTTTATTACTGTTATTGTTGTATCTTATATCATTTTTTTTGTGTGTATT
64 GTTTTATTAATGTTTTTGTGGTATCTTATATCATGTTCTTTGTATGTATT
* * * *
14938326 AAAGATATTTTTTTGTTTTGTTTTGTTTTTTTTTTAGTTTTAGATTCGTATTAAAGGTATGATTA
1 AAAGATATTTTTTTG--TTG--TTG-TGTTTTATTAGTTTAAG-TTTGTATTAAAGGTATGATTA
* *
14938391 ATTTGTTTTATTAATGTTTTTGTGGTATCTTATATTA-GTTCTTTGTATTTACTT
60 ATTTGTTTTATTAATGTTTTTGTGGTATCTTATATCATGTTCTTTGTATGTA-TT
* * *
14938445 GAAATGTTA-TTTTTTGTTGTTGTGTTTTATTAGCTTTAAGTTTGTATT-AAGGTTTGATTATTT
1 -AAA-GATATTTTTTTGTTGTTGTGTTTTATTAG-TTTAAGTTTGTATTAAAGGTATGATTAATT
** *
14938508 TGTTTTATTAATGTTTTTGAAGAATCTTATATCA
63 TGTTTTATTAATGTTTTTGTGGTATCTTATATCA
14938542 GGCTTTCGTA
Statistics
Matches: 180, Mismatches: 26, Indels: 21
0.79 0.11 0.09
Matches are distributed among these distances:
114 46 0.26
115 27 0.15
116 11 0.06
118 21 0.12
119 62 0.34
120 10 0.06
121 3 0.02
ACGTcount: A:0.22, C:0.03, G:0.16, T:0.60
Consensus pattern (113 bp):
AAAGATATTTTTTTGTTGTTGTGTTTTATTAGTTTAAGTTTGTATTAAAGGTATGATTAATTTGT
TTTATTAATGTTTTTGTGGTATCTTATATCATGTTCTTTGTATGTATT
Found at i:14943817 original size:32 final size:32
Alignment explanation
Indices: 14943781--14943842 Score: 88
Period size: 32 Copynumber: 1.9 Consensus size: 32
14943771 TTTGTATGTG
*
14943781 TATTTAAAATATTTCGCATATAAACATAATGA
1 TATTTAAAATATTTCACATATAAACATAATGA
* * *
14943813 TATTTGAAATATTTTACATATAAAGATAAT
1 TATTTAAAATATTTCACATATAAACATAAT
14943843 AATTATATTT
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
32 26 1.00
ACGTcount: A:0.47, C:0.06, G:0.06, T:0.40
Consensus pattern (32 bp):
TATTTAAAATATTTCACATATAAACATAATGA
Found at i:14946529 original size:37 final size:37
Alignment explanation
Indices: 14946487--14946670 Score: 305
Period size: 37 Copynumber: 5.0 Consensus size: 37
14946477 TAGTTTTAGG
*
14946487 TACACTTATCTGATCAAGTGACAAAGTGATAAGTGGC
1 TACACTTATCTGATCAAGAGACAAAGTGATAAGTGGC
* *
14946524 TACACTTATCTGATCAAGAAACAAAGTGATAAGTGGT
1 TACACTTATCTGATCAAGAGACAAAGTGATAAGTGGC
* *
14946561 TACACTTATCTGATCAAGAAACAAAGTGATAAGTGGT
1 TACACTTATCTGATCAAGAGACAAAGTGATAAGTGGC
14946598 TACACTTATCTGATCAAGAGACAAAGTGATAAGTGGC
1 TACACTTATCTGATCAAGAGACAAAGTGATAAGTGGC
* *
14946635 TACACTTATCTGATCAAGTGATAAAGTGATAAGTGG
1 TACACTTATCTGATCAAGAGACAAAGTGATAAGTGG
14946671 TAGCTTCAGC
Statistics
Matches: 140, Mismatches: 7, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
37 140 1.00
ACGTcount: A:0.38, C:0.14, G:0.21, T:0.27
Consensus pattern (37 bp):
TACACTTATCTGATCAAGAGACAAAGTGATAAGTGGC
Found at i:14946742 original size:45 final size:46
Alignment explanation
Indices: 14946633--14946756 Score: 200
Period size: 46 Copynumber: 2.8 Consensus size: 46
14946623 GTGATAAGTG
* *
14946633 GCTACACTTATCTGATCAAGTGATAAAGTGATAAGTGGTAGCTTCA
1 GCTACACTTATCTGATCAAGTGACAAAGTGATAAGTGGTAGCCTCA
*
14946679 GCTACACTTATCTGATCAAGTGGCAAAGTGATAAGTGGTAGCCT-A
1 GCTACACTTATCTGATCAAGTGACAAAGTGATAAGTGGTAGCCTCA
14946724 GCTACACTTATCTGATCAAG-GAC-AAGTGATAAG
1 GCTACACTTATCTGATCAAGTGACAAAGTGATAAG
14946757 AGGTCATATG
Statistics
Matches: 74, Mismatches: 4, Indels: 3
0.91 0.05 0.04
Matches are distributed among these distances:
43 10 0.14
44 2 0.03
45 21 0.28
46 41 0.55
ACGTcount: A:0.33, C:0.17, G:0.23, T:0.27
Consensus pattern (46 bp):
GCTACACTTATCTGATCAAGTGACAAAGTGATAAGTGGTAGCCTCA
Found at i:14950226 original size:14 final size:14
Alignment explanation
Indices: 14950207--14950240 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
14950197 TTAAATAGGT
* *
14950207 TAATATTAAAGTCC
1 TAATATTAAAATAC
14950221 TAATATTAAAATAC
1 TAATATTAAAATAC
14950235 TAATAT
1 TAATAT
14950241 GATTAAAAAC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.50, C:0.09, G:0.03, T:0.38
Consensus pattern (14 bp):
TAATATTAAAATAC
Found at i:14963738 original size:7 final size:7
Alignment explanation
Indices: 14963726--14963751 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
14963716 AAGTTTCTTT
14963726 TATTTAA
1 TATTTAA
14963733 TATTTAA
1 TATTTAA
14963740 TATTTAA
1 TATTTAA
14963747 TATTT
1 TATTT
14963752 GATTATTTGT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (7 bp):
TATTTAA
Found at i:14973661 original size:2 final size:2
Alignment explanation
Indices: 14973654--14973685 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
14973644 GTCAATTTGA
14973654 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
14973686 TTTATTGTTA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:14974642 original size:44 final size:45
Alignment explanation
Indices: 14974553--14974645 Score: 120
Period size: 44 Copynumber: 2.1 Consensus size: 45
14974543 ATAATTGTAA
*
14974553 ATTAAATTATAATATTTTGTAATGTATAATAATTATCATAACTTCT
1 ATTAAATTATAATATTTTGTAATGTAT-ATAATTATCACAACTTCT
*
14974599 ATTAAATTATAATTATTTT-TAAATG-AT-TAATTATCACATCTTCT
1 ATTAAATTATAA-TATTTTGT-AATGTATATAATTATCACAACTTCT
14974643 ATT
1 ATT
14974646 TTGTTTCAAC
Statistics
Matches: 43, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
44 18 0.42
46 15 0.35
47 10 0.23
ACGTcount: A:0.40, C:0.08, G:0.03, T:0.49
Consensus pattern (45 bp):
ATTAAATTATAATATTTTGTAATGTATATAATTATCACAACTTCT
Found at i:14977817 original size:50 final size:50
Alignment explanation
Indices: 14977759--14978332 Score: 384
Period size: 50 Copynumber: 11.5 Consensus size: 50
14977749 CGGGGAAACC
*
14977759 AGATCCGCCGTCGTAGCTTCAATCTGTTCCACTGCACCGCTAAGGAAGTA
1 AGATCCGCCGTCGTAGCTTCAATCTGTTCCACTGCACTGCTAAGGAAGTA
* * ** * * * * ***
14977809 AGATCCGCCGTTGTGGCTTCAATCT-TTTAATTGCAAT-ATCAGGGAAACC
1 AGATCCGCCGTCGTAGCTTCAATCTGTTCCACTGCACTGCT-AAGGAAGTA
*
14977858 AGATCCGTCGTCGTAGCTTCAATCTGTTCCACTGCACTGCTAAGGAAGTA
1 AGATCCGCCGTCGTAGCTTCAATCTGTTCCACTGCACTGCTAAGGAAGTA
* * * ** * * ** * ***
14977908 AGATCCGCCGTTGTGGCTTCAATCTTTTTAATTGCAATATTAGGGAAACC
1 AGATCCGCCGTCGTAGCTTCAATCTGTTCCACTGCACTGCTAAGGAAGTA
*
14977958 AGATCCGTCGTCGTAGCTTCAATCTGTTCCACTGCACTGCTAAGGAAGTA
1 AGATCCGCCGTCGTAGCTTCAATCTGTTCCACTGCACTGCTAAGGAAGTA
* * * ** * * * * * *
14978008 AGATCCGCCGTTGTGGCTTCAATCTTTTTAATTGCAAT-ATCAGGGAAATC
1 AGATCCGCCGTCGTAGCTTCAATCTGTTCCACTGCACTGCT-AAGGAAGTA
* *
14978058 AGATCTGTCGTCGTAGCTTCAATCTGTTCCACTGCACTGCTAAGGAAGTA
1 AGATCCGCCGTCGTAGCTTCAATCTGTTCCACTGCACTGCTAAGGAAGTA
* * * * * ** * * * * ***
14978108 ATATCCGCCTTTGTGGCTTCAATCTTTTTAATTGCAAT-ATCAGGGAAACC
1 AGATCCGCCGTCGTAGCTTCAATCTGTTCCACTGCACTGCT-AAGGAAGTA
* * *
14978158 AGATCTGTCGACGTAGCTTCAATCTGTTCCACTGCACTGCTAAGGAAGTA
1 AGATCCGCCGTCGTAGCTTCAATCTGTTCCACTGCACTGCTAAGGAAGTA
* * * **** * * * ***
14978208 AGATCCGCCGTTGTGGCTTCAATCTTTTTTTTTGCAAT-ATCAGGGAAACC
1 AGATCCGCCGTCGTAGCTTCAATCTGTTCCACTGCACTGCT-AAGGAAGTA
* * *
14978258 AGATCCACCGTCGTAGCTTCAATCAGTTCCACTGCACTACTAAGGAAGTA
1 AGATCCGCCGTCGTAGCTTCAATCTGTTCCACTGCACTGCTAAGGAAGTA
* * * *
14978308 AAATCTGCCGTTGTGGCTTCAATCT
1 AGATCCGCCGTCGTAGCTTCAATCT
14978333 TTTTACTTTT
Statistics
Matches: 368, Mismatches: 147, Indels: 18
0.69 0.28 0.03
Matches are distributed among these distances:
48 1 0.00
49 37 0.10
50 326 0.89
51 4 0.01
ACGTcount: A:0.25, C:0.24, G:0.20, T:0.30
Consensus pattern (50 bp):
AGATCCGCCGTCGTAGCTTCAATCTGTTCCACTGCACTGCTAAGGAAGTA
Found at i:14977993 original size:100 final size:100
Alignment explanation
Indices: 14977735--14978337 Score: 1019
Period size: 100 Copynumber: 6.0 Consensus size: 100
14977725 TTTTAATTTG
* * * * *
14977735 TTTAACTGCAATGTCGGGGAAACCAGATCCGCCGTCGTAGCTTCAATCTGTTCCACTGCACCGCT
1 TTTAATTGCAATATCAGGGAAACCAGATCCGTCGTCGTAGCTTCAATCTGTTCCACTGCACTGCT
14977800 AAGGAAGTAAGATCCGCCGTTGTGGCTTCAATC-T
66 AAGGAAGTAAGATCCGCCGTTGTGGCTTCAATCTT
14977834 TTTAATTGCAATATCAGGGAAACCAGATCCGTCGTCGTAGCTTCAATCTGTTCCACTGCACTGCT
1 TTTAATTGCAATATCAGGGAAACCAGATCCGTCGTCGTAGCTTCAATCTGTTCCACTGCACTGCT
14977899 AAGGAAGTAAGATCCGCCGTTGTGGCTTCAATCTT
66 AAGGAAGTAAGATCCGCCGTTGTGGCTTCAATCTT
*
14977934 TTTAATTGCAATATTAGGGAAACCAGATCCGTCGTCGTAGCTTCAATCTGTTCCACTGCACTGCT
1 TTTAATTGCAATATCAGGGAAACCAGATCCGTCGTCGTAGCTTCAATCTGTTCCACTGCACTGCT
14977999 AAGGAAGTAAGATCCGCCGTTGTGGCTTCAATCTT
66 AAGGAAGTAAGATCCGCCGTTGTGGCTTCAATCTT
* *
14978034 TTTAATTGCAATATCAGGGAAATCAGATCTGTCGTCGTAGCTTCAATCTGTTCCACTGCACTGCT
1 TTTAATTGCAATATCAGGGAAACCAGATCCGTCGTCGTAGCTTCAATCTGTTCCACTGCACTGCT
* *
14978099 AAGGAAGTAATATCCGCCTTTGTGGCTTCAATCTT
66 AAGGAAGTAAGATCCGCCGTTGTGGCTTCAATCTT
* *
14978134 TTTAATTGCAATATCAGGGAAACCAGATCTGTCGACGTAGCTTCAATCTGTTCCACTGCACTGCT
1 TTTAATTGCAATATCAGGGAAACCAGATCCGTCGTCGTAGCTTCAATCTGTTCCACTGCACTGCT
14978199 AAGGAAGTAAGATCCGCCGTTGTGGCTTCAATCTT
66 AAGGAAGTAAGATCCGCCGTTGTGGCTTCAATCTT
** ** * *
14978234 TTTTTTTGCAATATCAGGGAAACCAGATCCACCGTCGTAGCTTCAATCAGTTCCACTGCACTACT
1 TTTAATTGCAATATCAGGGAAACCAGATCCGTCGTCGTAGCTTCAATCTGTTCCACTGCACTGCT
* *
14978299 AAGGAAGTAAAATCTGCCGTTGTGGCTTCAATCTT
66 AAGGAAGTAAGATCCGCCGTTGTGGCTTCAATCTT
14978334 TTTA
1 TTTA
14978338 CTTTTCAACC
Statistics
Matches: 477, Mismatches: 26, Indels: 1
0.95 0.05 0.00
Matches are distributed among these distances:
99 93 0.19
100 384 0.81
ACGTcount: A:0.25, C:0.24, G:0.20, T:0.31
Consensus pattern (100 bp):
TTTAATTGCAATATCAGGGAAACCAGATCCGTCGTCGTAGCTTCAATCTGTTCCACTGCACTGCT
AAGGAAGTAAGATCCGCCGTTGTGGCTTCAATCTT
Found at i:14979229 original size:11 final size:11
Alignment explanation
Indices: 14979210--14979239 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
14979200 TCTTTCTTCC
*
14979210 TTTTCTTTTCT
1 TTTTTTTTTCT
14979221 TTTTTTTTTCT
1 TTTTTTTTTCT
14979232 TTTTTTTT
1 TTTTTTTT
14979240 AAAATCAAAG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.00, C:0.10, G:0.00, T:0.90
Consensus pattern (11 bp):
TTTTTTTTTCT
Found at i:14979231 original size:16 final size:15
Alignment explanation
Indices: 14979210--14979239 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
14979200 TCTTTCTTCC
14979210 TTTTCTTTTCTTTTTT
1 TTTTCTTTT-TTTTTT
14979226 TTTTCTTTTTTTTT
1 TTTTCTTTTTTTTT
14979240 AAAATCAAAG
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:0.00, C:0.10, G:0.00, T:0.90
Consensus pattern (15 bp):
TTTTCTTTTTTTTTT
Found at i:14982160 original size:44 final size:45
Alignment explanation
Indices: 14982071--14982163 Score: 111
Period size: 44 Copynumber: 2.1 Consensus size: 45
14982061 ATAATTGTAA
**
14982071 ATTAAATTATAATATTTTGTAATGTATAATAATTATCGTAGCTTCT
1 ATTAAATTATAATATTTTGTAATGTAT-ATAATTATCACAGCTTCT
*
14982117 ATTAAATTATAATTATTTT-TAAATG-AT-TAATTATCACATCTTCT
1 ATTAAATTATAA-TATTTTGT-AATGTATATAATTATCACAGCTTCT
14982161 ATT
1 ATT
14982164 TTGTTTCAAC
Statistics
Matches: 42, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
44 17 0.40
46 15 0.36
47 10 0.24
ACGTcount: A:0.38, C:0.08, G:0.05, T:0.49
Consensus pattern (45 bp):
ATTAAATTATAATATTTTGTAATGTATATAATTATCACAGCTTCT
Found at i:14986216 original size:138 final size:139
Alignment explanation
Indices: 14985958--14986236 Score: 314
Period size: 138 Copynumber: 2.0 Consensus size: 139
14985948 TACCGATATT
* * * **
14985958 AACTATTTGGACTAATTAATGGCATTATAAAAGTAATGGAATCAAGTTATACCAAATTAAAGTGT
1 AACTATTTAGACTAAGTAATGACATTATAAAAGTAATGGAATCAACATATACCAAATTAAAGTGT
* ** * * **
14986023 AGGAACTAAATCTCAAATTTGAACATAGTAGAGACACCAAAAATGAAAGTCAACCATTTTCTTAT
66 AGGAACTAAATCTCAAATTTAAACATAAAAAAGACACCAAAAATGAAAGTAAACCATTACCTTAT
14986088 AATAACTAA
131 AATAACTAA
* * **
14986097 AACTATTTAGATTAAGTAATGACATTATAAAAGTAA-GAGAATCGACATATGTCAAA-TAAAGTG
1 AACTATTTAGACTAAGTAATGACATTATAAAAGTAATG-GAATCAACATATACCAAATTAAAGTG
* * *
14986160 TAGGGACTAAATCTCAGATTTAAACATAAAAAAGGCACCAAAATTAT-AAA-TAAACCATTACCT
65 TAGGAACTAAATCTCAAATTTAAACATAAAAAAGACACCAAAA--ATGAAAGTAAACCATTACCT
* *
14986223 TGTAATGACTAA
128 TATAATAACTAA
14986235 AA
1 AA
14986237 AGAGACCGTG
Statistics
Matches: 116, Mismatches: 21, Indels: 7
0.81 0.15 0.05
Matches are distributed among these distances:
138 66 0.57
139 48 0.41
140 2 0.02
ACGTcount: A:0.47, C:0.13, G:0.13, T:0.28
Consensus pattern (139 bp):
AACTATTTAGACTAAGTAATGACATTATAAAAGTAATGGAATCAACATATACCAAATTAAAGTGT
AGGAACTAAATCTCAAATTTAAACATAAAAAAGACACCAAAAATGAAAGTAAACCATTACCTTAT
AATAACTAA
Found at i:14991423 original size:33 final size:36
Alignment explanation
Indices: 14991379--14991444 Score: 102
Period size: 35 Copynumber: 1.9 Consensus size: 36
14991369 GTTAGGGAAC
14991379 AAATATAAAT-AAA-AAATATTTATATATAAAAATA
1 AAATATAAATAAAATAAATATTTATATATAAAAATA
*
14991413 AAATA-AAATAAAATAAATATTTATATTTAAAA
1 AAATATAAATAAAATAAATATTTATATATAAAA
14991445 TATTAGATAA
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
33 4 0.14
34 8 0.28
35 17 0.59
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (36 bp):
AAATATAAATAAAATAAATATTTATATATAAAAATA
Found at i:14991459 original size:33 final size:32
Alignment explanation
Indices: 14991383--14991459 Score: 75
Period size: 35 Copynumber: 2.3 Consensus size: 32
14991373 GGGAACAAAT
14991383 ATAAATAAA-AAATATTTATATATAAAAATAAA
1 ATAAA-AAATAAATATTTATATATAAAAATAAA
* * *
14991415 ATAAAATAAAATAAATATTTATATTTAAAATATTAG
1 AT--AA-AAAATAAATATTTATATATAAAA-ATAAA
14991451 ATAAAAAAT
1 ATAAAAAAT
14991460 CAATTAAATA
Statistics
Matches: 37, Mismatches: 3, Indels: 9
0.76 0.06 0.18
Matches are distributed among these distances:
32 2 0.05
33 5 0.14
34 7 0.19
35 18 0.49
36 5 0.14
ACGTcount: A:0.65, C:0.00, G:0.01, T:0.34
Consensus pattern (32 bp):
ATAAAAAATAAATATTTATATATAAAAATAAA
Found at i:15001449 original size:21 final size:21
Alignment explanation
Indices: 15001425--15001475 Score: 57
Period size: 21 Copynumber: 2.4 Consensus size: 21
15001415 CTCGTGTAAG
* * *
15001425 TGAGATACATGGCCGTGTGGC
1 TGAGATACATGCCCATGTGAC
*
15001446 TGAGACACATGCCCATGTGAC
1 TGAGATACATGCCCATGTGAC
*
15001467 TGAGGTACA
1 TGAGATACA
15001476 CAGCCATGTG
Statistics
Matches: 24, Mismatches: 6, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.25, C:0.22, G:0.31, T:0.22
Consensus pattern (21 bp):
TGAGATACATGCCCATGTGAC
Found at i:15004734 original size:23 final size:22
Alignment explanation
Indices: 15004708--15004753 Score: 58
Period size: 22 Copynumber: 2.0 Consensus size: 22
15004698 TTGGATTATA
*
15004708 TGTTT-TGATATAACAAATTAAAG
1 TGTTTCTGA-ATAA-AAAGTAAAG
15004731 TGTTTCTGAATAAAAAGTAAAG
1 TGTTTCTGAATAAAAAGTAAAG
15004753 T
1 T
15004754 TTAGAAATTT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
22 9 0.43
23 9 0.43
24 3 0.14
ACGTcount: A:0.43, C:0.04, G:0.15, T:0.37
Consensus pattern (22 bp):
TGTTTCTGAATAAAAAGTAAAG
Found at i:15005976 original size:20 final size:21
Alignment explanation
Indices: 15005932--15005977 Score: 60
Period size: 22 Copynumber: 2.2 Consensus size: 21
15005922 CTCTTTATTT
15005932 AACCCAATTTTTAACACTATAA
1 AACCCAATTTTTAACAC-ATAA
15005954 AACCCAATTTTATAAC-C-TAA
1 AACCCAATTTT-TAACACATAA
15005974 AACC
1 AACC
15005978 ATATCTATTT
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
20 7 0.30
22 12 0.52
23 4 0.17
ACGTcount: A:0.46, C:0.26, G:0.00, T:0.28
Consensus pattern (21 bp):
AACCCAATTTTTAACACATAA
Found at i:15008505 original size:20 final size:20
Alignment explanation
Indices: 15008482--15008548 Score: 73
Period size: 20 Copynumber: 3.4 Consensus size: 20
15008472 AAAGACACCT
*
15008482 AGTGCTAACAATGGCACCGA
1 AGTGCAAACAATGGCACCGA
*
15008502 AGTGCAAACAATGGCATCGA
1 AGTGCAAACAATGGCACCGA
* * *
15008522 AATGCAAATAGTGGCACC-A
1 AGTGCAAACAATGGCACCGA
15008541 ATGTGCAA
1 A-GTGCAA
15008549 TCTCGTACAA
Statistics
Matches: 39, Mismatches: 7, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
19 2 0.05
20 37 0.95
ACGTcount: A:0.39, C:0.21, G:0.24, T:0.16
Consensus pattern (20 bp):
AGTGCAAACAATGGCACCGA
Found at i:15009757 original size:31 final size:31
Alignment explanation
Indices: 15009701--15009769 Score: 102
Period size: 31 Copynumber: 2.2 Consensus size: 31
15009691 TCATAAAAAC
* *
15009701 GAAAAATTGGATCGTTTACAGCTCTACAAGT
1 GAAACATTGGATAGTTTACAGCTCTACAAGT
* *
15009732 GAAACATTGGATAGTTTTCATCTCTACAAGT
1 GAAACATTGGATAGTTTACAGCTCTACAAGT
15009763 GAAACAT
1 GAAACAT
15009770 GCTGTTGCTC
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
31 34 1.00
ACGTcount: A:0.36, C:0.16, G:0.17, T:0.30
Consensus pattern (31 bp):
GAAACATTGGATAGTTTACAGCTCTACAAGT
Found at i:15013420 original size:13 final size:13
Alignment explanation
Indices: 15013402--15013428 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
15013392 TTAAATTACA
15013402 TGAAATAGTATAC
1 TGAAATAGTATAC
15013415 TGAAATAGTATAC
1 TGAAATAGTATAC
15013428 T
1 T
15013429 AGAGAACGTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.44, C:0.07, G:0.15, T:0.33
Consensus pattern (13 bp):
TGAAATAGTATAC
Found at i:15023494 original size:42 final size:43
Alignment explanation
Indices: 15023429--15023584 Score: 157
Period size: 42 Copynumber: 3.7 Consensus size: 43
15023419 ACCTCGTAAA
*
15023429 ATGCCAA-TGTCCCAGACGTGGTCTTACATGTAATCAATATCG
1 ATGCCAACTGTCCCAGACGTGGTCTTACATGAAATCAATATCG
*
15023471 ATGCC-ACTGTCCCAGACAG-GGTCTTACACGAAATCAAATAT-G
1 ATGCCAACTGTCCCAGAC-GTGGTCTTACATGAAATC-AATATCG
* * *
15023513 ATGCCGA-TGACCCAGACATGGTCTTATACAT-AAATCTCAA-ATCG
1 ATGCCAACTGTCCCAGACGTGGTC-T-TACATGAAA--TCAATATCG
15023557 ATGCCAAC-GTCCCAGACGTGGTCTTACA
1 ATGCCAACTGTCCCAGACGTGGTCTTACA
15023585 CGATAACACA
Statistics
Matches: 95, Mismatches: 8, Indels: 22
0.76 0.06 0.18
Matches are distributed among these distances:
41 1 0.01
42 52 0.55
43 14 0.15
44 26 0.27
45 2 0.02
ACGTcount: A:0.31, C:0.26, G:0.19, T:0.24
Consensus pattern (43 bp):
ATGCCAACTGTCCCAGACGTGGTCTTACATGAAATCAATATCG
Found at i:15057164 original size:23 final size:22
Alignment explanation
Indices: 15057120--15057164 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 22
15057110 AATTTAAACA
* *
15057120 TTTTTATTTATTTTGTTCTATT
1 TTTTTATTTATTTTGATATATT
15057142 TTTTTATTTAATTTTGATATATT
1 TTTTTATTT-ATTTTGATATATT
15057165 GGCTCATTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
22 9 0.45
23 11 0.55
ACGTcount: A:0.20, C:0.02, G:0.04, T:0.73
Consensus pattern (22 bp):
TTTTTATTTATTTTGATATATT
Found at i:15059917 original size:19 final size:19
Alignment explanation
Indices: 15059882--15059919 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
15059872 TTTCTTTGTG
15059882 GCTTTTCTGTTTGTTCATT
1 GCTTTTCTGTTTGTTCATT
*
15059901 GCTTCTTCT-TTTTTTCATT
1 GCTT-TTCTGTTTGTTCATT
15059920 TTGAGCTTGT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 13 0.76
20 4 0.24
ACGTcount: A:0.05, C:0.18, G:0.11, T:0.66
Consensus pattern (19 bp):
GCTTTTCTGTTTGTTCATT
Found at i:15062986 original size:40 final size:40
Alignment explanation
Indices: 15062942--15063020 Score: 106
Period size: 40 Copynumber: 2.0 Consensus size: 40
15062932 GAGGAAGAAG
*
15062942 GGTATCAATACATAGTGAAAGGTAATGATA-TTTTCTTTAT
1 GGTATCAATACATAGTAAAAGGTAATGATACTTTT-TTTAT
* * *
15062982 GGTATCTATACATGGTAAAAGGTATTGATACTTTTTTTA
1 GGTATCAATACATAGTAAAAGGTAATGATACTTTTTTTA
15063021 AGGGTGTCGA
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
40 30 0.88
41 4 0.12
ACGTcount: A:0.33, C:0.08, G:0.18, T:0.42
Consensus pattern (40 bp):
GGTATCAATACATAGTAAAAGGTAATGATACTTTTTTTAT
Found at i:15065392 original size:31 final size:33
Alignment explanation
Indices: 15065357--15065423 Score: 111
Period size: 31 Copynumber: 2.1 Consensus size: 33
15065347 TTTTTTAGTT
*
15065357 AAATTTGACCCTCAACC-TTTT-AAAAAGAGTC
1 AAATTTGACCATCAACCTTTTTGAAAAAGAGTC
15065388 AAATTTGACCATCAACCTTTTTGAAAAAGAGTC
1 AAATTTGACCATCAACCTTTTTGAAAAAGAGTC
15065421 AAA
1 AAA
15065424 ATAATATTCT
Statistics
Matches: 33, Mismatches: 1, Indels: 2
0.92 0.03 0.06
Matches are distributed among these distances:
31 16 0.48
32 4 0.12
33 13 0.39
ACGTcount: A:0.42, C:0.19, G:0.10, T:0.28
Consensus pattern (33 bp):
AAATTTGACCATCAACCTTTTTGAAAAAGAGTC
Found at i:15065562 original size:20 final size:20
Alignment explanation
Indices: 15065539--15065581 Score: 61
Period size: 20 Copynumber: 2.1 Consensus size: 20
15065529 GAACTCTTTA
15065539 TATTT-TTTAATTTTTATTTT
1 TATTTATTTAA-TTTTATTTT
*
15065559 TATTTATTTTATTTTATTTT
1 TATTTATTTAATTTTATTTT
15065579 TAT
1 TAT
15065582 AATATTTGAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 17 0.81
21 4 0.19
ACGTcount: A:0.21, C:0.00, G:0.00, T:0.79
Consensus pattern (20 bp):
TATTTATTTAATTTTATTTT
Found at i:15066926 original size:22 final size:22
Alignment explanation
Indices: 15066901--15066945 Score: 90
Period size: 22 Copynumber: 2.0 Consensus size: 22
15066891 AATATATACT
15066901 TCATTAAAAATGTAAGGGTAAA
1 TCATTAAAAATGTAAGGGTAAA
15066923 TCATTAAAAATGTAAGGGTAAA
1 TCATTAAAAATGTAAGGGTAAA
15066945 T
1 T
15066946 TATGCTAGTA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.49, C:0.04, G:0.18, T:0.29
Consensus pattern (22 bp):
TCATTAAAAATGTAAGGGTAAA
Found at i:15070490 original size:21 final size:21
Alignment explanation
Indices: 15070464--15070513 Score: 100
Period size: 21 Copynumber: 2.4 Consensus size: 21
15070454 TTGGTTCTTC
15070464 AGCAACAGGTTCTGTTGCAGG
1 AGCAACAGGTTCTGTTGCAGG
15070485 AGCAACAGGTTCTGTTGCAGG
1 AGCAACAGGTTCTGTTGCAGG
15070506 AGCAACAG
1 AGCAACAG
15070514 CCACTACCTC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 29 1.00
ACGTcount: A:0.28, C:0.20, G:0.32, T:0.20
Consensus pattern (21 bp):
AGCAACAGGTTCTGTTGCAGG
Found at i:15070745 original size:22 final size:22
Alignment explanation
Indices: 15070682--15070747 Score: 105
Period size: 22 Copynumber: 3.0 Consensus size: 22
15070672 TATTGTTCAA
* *
15070682 ACATGAGAGCTTAGTACGTGAA
1 ACATGAGAGCTTAGTACGTTAG
15070704 ACATGAGAGCTTAGTACGTTAG
1 ACATGAGAGCTTAGTACGTTAG
*
15070726 CCATGAGAGCTTAGTACGTTAG
1 ACATGAGAGCTTAGTACGTTAG
15070748 GAAAAGAGAA
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
22 41 1.00
ACGTcount: A:0.32, C:0.15, G:0.27, T:0.26
Consensus pattern (22 bp):
ACATGAGAGCTTAGTACGTTAG
Found at i:15075396 original size:2 final size:2
Alignment explanation
Indices: 15075389--15075414 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
15075379 GTGAACTCAC
15075389 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
15075415 TAATCAATTT
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
Found at i:15075665 original size:27 final size:27
Alignment explanation
Indices: 15075599--15075665 Score: 66
Period size: 26 Copynumber: 2.5 Consensus size: 27
15075589 TTTAATTTAT
* * *
15075599 ATTTAAAATGTAAAAATTATAAAGAAA
1 ATTTAAAATGAAAAAAGTACAAAGAAA
*
15075626 ATTTTAAAT-AAAAAAGTACAAA-ATAA
1 ATTTAAAATGAAAAAAGTACAAAGA-AA
*
15075652 CTTTAAAATGAAAA
1 ATTTAAAATGAAAA
15075666 GAGATTAAGT
Statistics
Matches: 32, Mismatches: 6, Indels: 4
0.76 0.14 0.10
Matches are distributed among these distances:
25 1 0.03
26 19 0.59
27 12 0.38
ACGTcount: A:0.63, C:0.03, G:0.06, T:0.28
Consensus pattern (27 bp):
ATTTAAAATGAAAAAAGTACAAAGAAA
Found at i:15076781 original size:15 final size:16
Alignment explanation
Indices: 15076751--15076784 Score: 52
Period size: 15 Copynumber: 2.2 Consensus size: 16
15076741 AAAAATAAAT
15076751 TTTATCATTTTAATAG
1 TTTATCATTTTAATAG
*
15076767 TTTAT-ATTTTTATAG
1 TTTATCATTTTAATAG
15076782 TTT
1 TTT
15076785 TTAAAAGATT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 12 0.71
16 5 0.29
ACGTcount: A:0.26, C:0.03, G:0.06, T:0.65
Consensus pattern (16 bp):
TTTATCATTTTAATAG
Found at i:15078129 original size:50 final size:50
Alignment explanation
Indices: 15078049--15078148 Score: 164
Period size: 50 Copynumber: 2.0 Consensus size: 50
15078039 TTATCATTGT
* * * *
15078049 GCATTTGTTAAATAAGAAAGTTACTGGCCTAATGGTTAAGTGTTAGTGAA
1 GCATTTGTTAAATAAGAAAATTACTAGCCTAATGGTTAAATGTTACTGAA
15078099 GCATTTGTTAAATAAGAAAATTACTAGCCTAATGGTTAAATGTTACTGAA
1 GCATTTGTTAAATAAGAAAATTACTAGCCTAATGGTTAAATGTTACTGAA
15078149 TTTGTCCTTG
Statistics
Matches: 46, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
50 46 1.00
ACGTcount: A:0.37, C:0.09, G:0.20, T:0.34
Consensus pattern (50 bp):
GCATTTGTTAAATAAGAAAATTACTAGCCTAATGGTTAAATGTTACTGAA
Found at i:15079552 original size:8 final size:10
Alignment explanation
Indices: 15079527--15079579 Score: 70
Period size: 10 Copynumber: 5.0 Consensus size: 10
15079517 AACTAAATCC
15079527 TTTCTCTCAA
1 TTTCTCTCAA
15079537 TTTCTCTCAA
1 TTTCTCTCAA
15079547 TTTCTCTCCAA
1 TTTCTCT-CAA
15079558 TATTCTCTCAAA
1 T-TTCTCTC-AA
*
15079570 TTCCTCTCAA
1 TTTCTCTCAA
15079580 ATTCCTTTGA
Statistics
Matches: 39, Mismatches: 1, Indels: 6
0.85 0.02 0.13
Matches are distributed among these distances:
10 19 0.49
11 11 0.28
12 9 0.23
ACGTcount: A:0.23, C:0.32, G:0.00, T:0.45
Consensus pattern (10 bp):
TTTCTCTCAA
Found at i:15079563 original size:22 final size:22
Alignment explanation
Indices: 15079527--15079582 Score: 71
Period size: 23 Copynumber: 2.6 Consensus size: 22
15079517 AACTAAATCC
15079527 TTTCTCT-CAATTTCTCTC-AA
1 TTTCTCTCCAATTTCTCTCAAA
15079547 TTTCTCTCCAATATTCTCTCAAA
1 TTTCTCTCCAAT-TTCTCTCAAA
* *
15079570 TTCCTCTCAAATT
1 TTTCTCTCCAATT
15079583 CCTTTGAAAT
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
20 7 0.23
21 4 0.13
22 8 0.26
23 12 0.39
ACGTcount: A:0.23, C:0.30, G:0.00, T:0.46
Consensus pattern (22 bp):
TTTCTCTCCAATTTCTCTCAAA
Found at i:15079593 original size:11 final size:11
Alignment explanation
Indices: 15079530--15079585 Score: 55
Period size: 10 Copynumber: 5.2 Consensus size: 11
15079520 TAAATCCTTT
*
15079530 CTCTC-AATTT
1 CTCTCAAATTC
*
15079540 CTCTC-AATTT
1 CTCTCAAATTC
15079550 CTCTCCAATATT-
1 CTCT-CAA-ATTC
15079562 CTCTCAAATTC
1 CTCTCAAATTC
15079573 CTCTCAAATTC
1 CTCTCAAATTC
15079584 CT
1 CT
15079586 TTGAAATTTC
Statistics
Matches: 42, Mismatches: 0, Indels: 7
0.86 0.00 0.14
Matches are distributed among these distances:
10 17 0.40
11 17 0.40
12 5 0.12
13 3 0.07
ACGTcount: A:0.23, C:0.34, G:0.00, T:0.43
Consensus pattern (11 bp):
CTCTCAAATTC
Found at i:15081442 original size:18 final size:18
Alignment explanation
Indices: 15081419--15081456 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
15081409 TGCTAGGTGC
* *
15081419 GTATCCTAGCCCTTTTAT
1 GTATCCTAACCCTTATAT
15081437 GTATCCTAACCCTTATAT
1 GTATCCTAACCCTTATAT
15081455 GT
1 GT
15081457 TTCATTTTTC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.21, C:0.26, G:0.11, T:0.42
Consensus pattern (18 bp):
GTATCCTAACCCTTATAT
Found at i:15084484 original size:126 final size:126
Alignment explanation
Indices: 15084258--15084548 Score: 474
Period size: 126 Copynumber: 2.3 Consensus size: 126
15084248 CCAAACATGC
* * *
15084258 GCTACTGTAGCAAAAGTGCGTCCATGTGGGAGCTTATTTCAATACTTTTGCTGACAAAGCATCCT
1 GCTACTGTAGCAAAAGTGCGTCCACGTGGGAGCTTCTTTCAATACTTCTGCTGACAAAGCATCCT
*
15084323 GCTTAAAGCGTTTTTGACACTTTTTGCTCAAAAACGTCTACTCGAAATTATTTTTTCAGGA
66 GCTTAAAGCGTTTTTGACACTATTTGCTCAAAAACGTCTACTCGAAATTATTTTTTCAGGA
* * * * *
15084384 GCTACTGTAGCAAAAGCGCGTCCACATAGGAGCTTCTTTCAGTACTTCTGCTGACAAAGCATCTT
1 GCTACTGTAGCAAAAGTGCGTCCACGTGGGAGCTTCTTTCAATACTTCTGCTGACAAAGCATCCT
* * *
15084449 GCTTAAAGTGTTTTTGACACTATTTGCTTAGAAACGTCTACTCGAAATTATTTTTTCAGGA
66 GCTTAAAGCGTTTTTGACACTATTTGCTCAAAAACGTCTACTCGAAATTATTTTTTCAGGA
15084510 GCTACTGTAGCAAAAGTGCGTCCACGTGGGAGCTTCTTT
1 GCTACTGTAGCAAAAGTGCGTCCACGTGGGAGCTTCTTT
15084549 AATTTAACAA
Statistics
Matches: 150, Mismatches: 15, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
126 150 1.00
ACGTcount: A:0.26, C:0.21, G:0.20, T:0.34
Consensus pattern (126 bp):
GCTACTGTAGCAAAAGTGCGTCCACGTGGGAGCTTCTTTCAATACTTCTGCTGACAAAGCATCCT
GCTTAAAGCGTTTTTGACACTATTTGCTCAAAAACGTCTACTCGAAATTATTTTTTCAGGA
Found at i:15086440 original size:25 final size:25
Alignment explanation
Indices: 15086412--15086495 Score: 80
Period size: 25 Copynumber: 3.3 Consensus size: 25
15086402 CTAATATTGG
*
15086412 GAAGCTCCGGAGAGCCATTAATCGA
1 GAAGCTCCGAAGAGCCATTAATCGA
* * * *
15086437 GAAGCTCATGAAAGAGCCTTTAATTGG
1 GAAGCTC-CG-AAGAGCCATTAATCGA
15086464 GAAGCTCCGAAGAGCCA-TATATCGA
1 GAAGCTCCGAAGAGCCATTA-ATCGA
*
15086489 GATGCTC
1 GAAGCTC
15086496 ATAAGACTTG
Statistics
Matches: 46, Mismatches: 10, Indels: 6
0.74 0.16 0.10
Matches are distributed among these distances:
24 2 0.04
25 23 0.50
26 2 0.04
27 19 0.41
ACGTcount: A:0.32, C:0.21, G:0.26, T:0.20
Consensus pattern (25 bp):
GAAGCTCCGAAGAGCCATTAATCGA
Found at i:15086576 original size:24 final size:24
Alignment explanation
Indices: 15086543--15086617 Score: 64
Period size: 24 Copynumber: 3.1 Consensus size: 24
15086533 ACAACCAAAT
*
15086543 CGGGATGCTCAGAAGAGCTATTAA
1 CGGGAAGCTCAGAAGAGCTATTAA
* *
15086567 CGGGAAGCTC-GCAAGAACCATATAA
1 CGGGAAGCTCAG-AAGAGCTAT-TAA
* *
15086592 CGAGAAGCTCATG-AGAGCTAATAA
1 CGGGAAGCTCA-GAAGAGCTATTAA
15086616 CG
1 CG
15086618 AGACGGTCTT
Statistics
Matches: 40, Mismatches: 7, Indels: 8
0.73 0.13 0.15
Matches are distributed among these distances:
23 1 0.03
24 21 0.52
25 17 0.43
27 1 0.03
ACGTcount: A:0.37, C:0.20, G:0.27, T:0.16
Consensus pattern (24 bp):
CGGGAAGCTCAGAAGAGCTATTAA
Found at i:15086798 original size:20 final size:20
Alignment explanation
Indices: 15086773--15086813 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 20
15086763 TGATAATTAC
15086773 TCAATTC-ACATATATAATAT
1 TCAATTCAACATATA-AATAT
15086793 TCAATTCAAACATATAAATAT
1 TCAATTC-AACATATAAATAT
15086814 ACACAATTTA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 7 0.37
21 5 0.26
22 7 0.37
ACGTcount: A:0.49, C:0.15, G:0.00, T:0.37
Consensus pattern (20 bp):
TCAATTCAACATATAAATAT
Found at i:15088893 original size:33 final size:35
Alignment explanation
Indices: 15088797--15088894 Score: 91
Period size: 33 Copynumber: 2.9 Consensus size: 35
15088787 GTTAATATTT
*
15088797 TAATATATGAAATATAAATTTTAAATATTT--TTAAG
1 TAATATAT-AAAT-TATATTTTAAATATTTAATTAAG
* *
15088832 TAATAAATATTAATTAT-TTATAAA-ATTTAATT-AG
1 TAAT--ATATAAATTATATTTTAAATATTTAATTAAG
15088866 -AATATATAAATTATATTTTAAATATTTAA
1 TAATATATAAATTATATTTTAAATATTTAA
15088895 ATATAACCAT
Statistics
Matches: 52, Mismatches: 5, Indels: 14
0.73 0.07 0.20
Matches are distributed among these distances:
31 10 0.19
32 6 0.12
33 13 0.25
34 8 0.15
35 8 0.15
36 3 0.06
37 4 0.08
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (35 bp):
TAATATATAAATTATATTTTAAATATTTAATTAAG
Found at i:15091077 original size:22 final size:22
Alignment explanation
Indices: 15091049--15091094 Score: 92
Period size: 22 Copynumber: 2.1 Consensus size: 22
15091039 ATCCTATCTA
15091049 AATTTCCTTCCAAAATTCTCTC
1 AATTTCCTTCCAAAATTCTCTC
15091071 AATTTCCTTCCAAAATTCTCTC
1 AATTTCCTTCCAAAATTCTCTC
15091093 AA
1 AA
15091095 ACTCTCAAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.30, C:0.30, G:0.00, T:0.39
Consensus pattern (22 bp):
AATTTCCTTCCAAAATTCTCTC
Found at i:15091102 original size:30 final size:30
Alignment explanation
Indices: 15091066--15091124 Score: 100
Period size: 30 Copynumber: 2.0 Consensus size: 30
15091056 TTCCAAAATT
* *
15091066 CTCTCAATTTCCTTCCAAAATTCTCTCAAA
1 CTCTCAAATTCCTTCCAAAATCCTCTCAAA
15091096 CTCTCAAATTCCTTCCAAAATCCTCTCAA
1 CTCTCAAATTCCTTCCAAAATCCTCTCAA
15091125 TTTCCTTCCA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.31, C:0.36, G:0.00, T:0.34
Consensus pattern (30 bp):
CTCTCAAATTCCTTCCAAAATCCTCTCAAA
Found at i:15091143 original size:22 final size:22
Alignment explanation
Indices: 15091096--15091137 Score: 75
Period size: 22 Copynumber: 1.9 Consensus size: 22
15091086 TTCTCTCAAA
15091096 CTCTCAAATTCCTTCCAAAATC
1 CTCTCAAATTCCTTCCAAAATC
*
15091118 CTCTCAATTTCCTTCCAAAA
1 CTCTCAAATTCCTTCCAAAA
15091138 ATCTCTAAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.31, C:0.36, G:0.00, T:0.33
Consensus pattern (22 bp):
CTCTCAAATTCCTTCCAAAATC
Found at i:15091177 original size:17 final size:18
Alignment explanation
Indices: 15091152--15091185 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
15091142 CTAAAATCCA
15091152 TATTAAATTTC-TTTTTC
1 TATTAAATTTCATTTTTC
*
15091169 TATTCAATTTCATTTTT
1 TATTAAATTTCATTTTT
15091186 TAAGATAATT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 10 0.67
18 5 0.33
ACGTcount: A:0.24, C:0.12, G:0.00, T:0.65
Consensus pattern (18 bp):
TATTAAATTTCATTTTTC
Found at i:15091219 original size:20 final size:19
Alignment explanation
Indices: 15091194--15091248 Score: 69
Period size: 20 Copynumber: 2.9 Consensus size: 19
15091184 TTTAAGATAA
*
15091194 TTTTAAATAATTTTATATTT
1 TTTTAAATAATTTT-TAATT
15091214 TTTTAAAATAATTTTTAATT
1 TTTT-AAATAATTTTTAATT
15091234 TTTT-AAT-ATTTTTAA
1 TTTTAAATAATTTTTAA
15091249 CAATGACCGG
Statistics
Matches: 33, Mismatches: 1, Indels: 5
0.85 0.03 0.13
Matches are distributed among these distances:
17 8 0.24
18 3 0.09
20 12 0.36
21 10 0.30
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (19 bp):
TTTTAAATAATTTTTAATT
Found at i:15091219 original size:31 final size:31
Alignment explanation
Indices: 15091181--15091246 Score: 89
Period size: 31 Copynumber: 2.1 Consensus size: 31
15091171 TTCAATTTCA
*
15091181 TTTTTTAAGATAATTTTAAATAATTTT-ATAT
1 TTTTTTAAAATAATTTTAAAT-ATTTTAATAT
* *
15091212 TTTTTTAAAATAATTTTTAATTTTTTAATAT
1 TTTTTTAAAATAATTTTAAATATTTTAATAT
15091243 TTTT
1 TTTT
15091247 AACAATGACC
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
30 4 0.13
31 27 0.87
ACGTcount: A:0.35, C:0.00, G:0.02, T:0.64
Consensus pattern (31 bp):
TTTTTTAAAATAATTTTAAATATTTTAATAT
Found at i:15093546 original size:29 final size:29
Alignment explanation
Indices: 15093513--15094363 Score: 1045
Period size: 29 Copynumber: 28.1 Consensus size: 29
15093503 ATTATTTGAT
*
15093513 ACCCTAACCTAATTTATTTAAAAACCCTA
1 ACCCTAACCTAATTTAATTAAAAACCCTA
15093542 ACCCTAACCTAATTTAATTAAAAACCCTA
1 ACCCTAACCTAATTTAATTAAAAACCCTA
15093571 ACCCCTAACCGTAA--T-A--AAAAACCCTAA
1 A-CCCTAACC-TAATTTAATTAAAAACCCT-A
**
15093598 ACCCTAATTTAATTTAATTAAAAACCCTA
1 ACCCTAACCTAATTTAATTAAAAACCCTA
** *
15093627 ACCC-AATTTAATTTATTTAAAAACCCTA
1 ACCCTAACCTAATTTAATTAAAAACCCTA
*
15093655 ACCCTAACCTAATTTAATTAAAAACTCTA
1 ACCCTAACCTAATTTAATTAAAAACCCTA
*
15093684 ATCCTAACCTAATTTAATTAAAAACCCTA
1 ACCCTAACCTAATTTAATTAAAAACCCTA
15093713 ACCCTAACCTAATTTAATTAAAAACCCTA
1 ACCCTAACCTAATTTAATTAAAAACCCTA
*
15093742 ACCTTAACCTAATTTAATTAAAAACCCTAA
1 ACCCTAACCTAATTTAATTAAAAACCCT-A
* *
15093772 ACCCTAACCTATTTTAAGTAAAAACCCTAA
1 ACCCTAACCTAATTTAATTAAAAACCCT-A
15093802 ACCCTAACCTAATTTAATTAAAAACCCTA
1 ACCCTAACCTAATTTAATTAAAAACCCTA
**
15093831 A-CCTAATTTAATTTAATTAAAAACCCTA
1 ACCCTAACCTAATTTAATTAAAAACCCTA
** *
15093859 ACCC-AATTTAATTTATTTAAAAACCCTA
1 ACCCTAACCTAATTTAATTAAAAACCCTA
15093887 ACCCTAACCTAATTTAATTAAAAACCCTA
1 ACCCTAACCTAATTTAATTAAAAACCCTA
15093916 ACCCTAACCTAATTTAATTTAATTAAAAACCCTA
1 ACCCTAACC-----TAATTTAATTAAAAACCCTA
15093950 ACCCTAACCTAATTTAATTAAATTAAAAACCCTA
1 ACCCTAACCTAA--T--TT-AATTAAAAACCCTA
*
15093984 ACCCTAACCTATTTTAATTAAAAACCCTA
1 ACCCTAACCTAATTTAATTAAAAACCCTA
15094013 ACCCTAACCTAATTTAATTTAATTTAAAACCCTA
1 ACCCTAACCTAATTTAA-TT-A---AAAACCCTA
15094047 ACCCTAACCTAATTTAATTTAATTAAAAACCCTA
1 ACCCTAACC-----TAATTTAATTAAAAACCCTA
*
15094081 ACCCTAACCTATTTTAATTAAAAACCCTA
1 ACCCTAACCTAATTTAATTAAAAACCCTA
15094110 ACCCTAACCTAATTTAATTTAATTAAAAACCCTA
1 ACCCTAACC-----TAATTTAATTAAAAACCCTA
15094144 ACCCTAACCTAATTTAATTTAATTAAAAACCCTA
1 ACCCTAACC-----TAATTTAATTAAAAACCCTA
15094178 ACCCTAACCTAATTTAATTAAAAACCCTAA
1 ACCCTAACCTAATTTAATTAAAAACCCT-A
*
15094208 ACCCTAACCTATTTTAATTAAAAACCCTA
1 ACCCTAACCTAATTTAATTAAAAACCCTA
15094237 ACCCTAACCTAATTTAATTTAATTAAAAACCCTAATA
1 ACCCTAACC-----TAATTTAATTAAAAACCC---TA
*
15094274 ACCCTAACCTATTTTAATTAAAAACCCTA
1 ACCCTAACCTAATTTAATTAAAAACCCTA
15094303 ACCCTAA-CTAATTTAATTAAAAACCCTAA
1 ACCCTAACCTAATTTAATTAAAAACCCT-A
*
15094332 ACCCTAACCTATTTTAATTAAAAACCCTA
1 ACCCTAACCTAATTTAATTAAAAACCCTA
15094361 ACC
1 ACC
15094364 TAATTTATGT
Statistics
Matches: 742, Mismatches: 32, Indels: 96
0.85 0.04 0.11
Matches are distributed among these distances:
25 3 0.00
26 15 0.02
27 3 0.00
28 101 0.14
29 282 0.38
30 122 0.16
31 5 0.01
32 18 0.02
33 2 0.00
34 169 0.23
37 12 0.02
38 2 0.00
39 8 0.01
ACGTcount: A:0.44, C:0.25, G:0.00, T:0.30
Consensus pattern (29 bp):
ACCCTAACCTAATTTAATTAAAAACCCTA
Found at i:15093918 original size:23 final size:23
Alignment explanation
Indices: 15093800--15093871 Score: 90
Period size: 28 Copynumber: 2.9 Consensus size: 23
15093790 TAAAAACCCT
15093800 AAACCCTAACCTAATTTAATTAA
1 AAACCCTAACCTAATTTAATTAA
15093823 AAACCCTAACCTAATTTAATTTAATTAA
1 AAACCCTAACC-----TAATTTAATTAA
*
15093851 AAACCCTAACCCAATTTAATT
1 AAACCCTAACCTAATTTAATT
15093872 TATTTAAAAA
Statistics
Matches: 43, Mismatches: 1, Indels: 10
0.80 0.02 0.19
Matches are distributed among these distances:
23 20 0.47
28 23 0.53
ACGTcount: A:0.46, C:0.22, G:0.00, T:0.32
Consensus pattern (23 bp):
AAACCCTAACCTAATTTAATTAA
Found at i:15093958 original size:97 final size:97
Alignment explanation
Indices: 15093590--15094320 Score: 955
Period size: 97 Copynumber: 7.9 Consensus size: 97
15093580 CGTAATAAAA
** *
15093590 AACCCTAAACCCTAATTTAATTTAATTAAAAACCCTAACCC-AATTTAATTTATTTAAAAACCCT
1 AACCCT-AACCC-AATTTAATTTAATTAAAAACCCTAACCCTAACCTAATTTAATTAAAAACCCT
*
15093654 AACCCTAACC-----TAATTTAATTAAAAACTCT
64 AACCCTAACCTAATTTAATTTAATTAAAAACCCT
*
15093683 AATCCTAA-CC----TAATTTAATTAAAAACCCTAACCCTAACCTAATTTAATTAAAAACCCTAA
1 AACCCTAACCCAATTTAATTTAATTAAAAACCCTAACCCTAACCTAATTTAATTAAAAACCCTAA
*
15093743 CCTTAACC-----TAATTTAATTAAAAACCCT
66 CCCTAACCTAATTTAATTTAATTAAAAACCCT
* *
15093770 AAACCCTAA-CC----TATTTTAAGTAAAAACCCTAAACCCTAACCTAATTTAATT--AAA----
1 -AACCCTAACCCAATTTAATTTAATTAAAAACCCT-AACCCTAACCTAATTTAATTAAAAACCCT
15093824 AACCCTAACCTAATTTAATTTAATT--AAA----
64 AACCCTAACCTAATTTAATTTAATTAAAAACCCT
*
15093852 AACCCTAACCCAATTTAATTTATTTAAAAACCCTAACCCTAACCTAATTTAATTAAAAACCCTAA
1 AACCCTAACCCAATTTAATTTAATTAAAAACCCTAACCCTAACCTAATTTAATTAAAAACCCTAA
15093917 CCCTAACCTAATTTAATTTAATTAAAAACCCT
66 CCCTAACCTAATTTAATTTAATTAAAAACCCT
* * *
15093949 AACCCTAACCTAATTTAATTAAATTAAAAACCCTAACCCTAACCTATTTTAATTAAAAACCCTAA
1 AACCCTAACCCAATTTAATTTAATTAAAAACCCTAACCCTAACCTAATTTAATTAAAAACCCTAA
*
15094014 CCCTAACCTAATTTAATTTAATTTAAAACCCT
66 CCCTAACCTAATTTAATTTAATTAAAAACCCT
* *
15094046 AACCCTAACCTAATTTAATTTAATTAAAAACCCTAACCCTAACCTATTTTAATTAAAAACCCTAA
1 AACCCTAACCCAATTTAATTTAATTAAAAACCCTAACCCTAACCTAATTTAATTAAAAACCCTAA
15094111 CCCTAACCTAATTTAATTTAATTAAAAACCCT
66 CCCTAACCTAATTTAATTTAATTAAAAACCCT
*
15094143 AACCCTAACCTAATTTAATTTAATTAAAAACCCTAACCCTAACCTAATTTAATTAAAAACCCTAA
1 AACCCTAACCCAATTTAATTTAATTAAAAACCCTAACCCTAACCTAATTTAATTAAAAACCCT-A
15094208 ACCCTAACCT-A--T--TTTAATTAAAAACCCT
65 ACCCTAACCTAATTTAATTTAATTAAAAACCCT
* *
15094236 AACCCTAACCTAATTTAATTTAATTAAAAACCCTAATAACCCTAACCTATTTTAATTAAAAACCC
1 AACCCTAACCCAATTTAATTTAATTAAAAACCC---TAACCCTAACCTAATTTAATTAAAAACCC
15094301 TAACCCTAA-CTAATTTAATT
63 TAACCCTAACCTAATTTAATT
15094321 AAAAACCCTA
Statistics
Matches: 582, Mismatches: 22, Indels: 62
0.87 0.03 0.09
Matches are distributed among these distances:
81 8 0.01
82 2 0.00
83 9 0.02
85 20 0.03
86 43 0.07
87 53 0.09
88 36 0.06
89 20 0.03
91 27 0.05
92 2 0.00
93 57 0.10
94 2 0.00
95 10 0.02
96 29 0.05
97 251 0.43
98 11 0.02
99 2 0.00
ACGTcount: A:0.44, C:0.24, G:0.00, T:0.31
Consensus pattern (97 bp):
AACCCTAACCCAATTTAATTTAATTAAAAACCCTAACCCTAACCTAATTTAATTAAAAACCCTAA
CCCTAACCTAATTTAATTTAATTAAAAACCCT
Found at i:15094370 original size:23 final size:23
Alignment explanation
Indices: 15094330--15094392 Score: 83
Period size: 23 Copynumber: 2.7 Consensus size: 23
15094320 TAAAAACCCT
*
15094330 AAACCCTAACCTATTTTAAT-TAA
1 AAACCCTAACCTAATTT-ATGTAA
15094353 AAACCCTAACCTAATTTATGTAA
1 AAACCCTAACCTAATTTATGTAA
* *
15094376 AAACCATAACATAATTT
1 AAACCCTAACCTAATTT
15094393 TACCTAATTT
Statistics
Matches: 36, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
22 2 0.06
23 34 0.94
ACGTcount: A:0.46, C:0.21, G:0.02, T:0.32
Consensus pattern (23 bp):
AAACCCTAACCTAATTTATGTAA
Found at i:15094446 original size:56 final size:56
Alignment explanation
Indices: 15094386--15094510 Score: 198
Period size: 56 Copynumber: 2.2 Consensus size: 56
15094376 AAACCATAAC
* * *
15094386 ATAATTTTACCTAATTTGATAATCTTACTAACCATTAAC-ACATTTTTTGGGGCTTA
1 ATAATTTTACATAATTTGATAATCTTACTAACCATTAACAAAAGTTTTT-GGGCTTA
*
15094442 ATAATTTTACATAATTTGATAATTTTACTAACCATTAACAAAAGTTTTTGGGCTTA
1 ATAATTTTACATAATTTGATAATCTTACTAACCATTAACAAAAGTTTTTGGGCTTA
15094498 ATAATTTTACATA
1 ATAATTTTACATA
15094511 GTTTTACATA
Statistics
Matches: 64, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
56 57 0.89
57 7 0.11
ACGTcount: A:0.36, C:0.13, G:0.08, T:0.43
Consensus pattern (56 bp):
ATAATTTTACATAATTTGATAATCTTACTAACCATTAACAAAAGTTTTTGGGCTTA
Found at i:15100188 original size:23 final size:21
Alignment explanation
Indices: 15100162--15100205 Score: 52
Period size: 23 Copynumber: 2.0 Consensus size: 21
15100152 AAAAAACCTT
*
15100162 AGAAATGAAGAAGAAAACCTAAG
1 AGAAATAAAG-AGAAAA-CTAAG
*
15100185 AGAACTAAAGAGAAAACTAAG
1 AGAAATAAAGAGAAAACTAAG
15100206 CTAGACTAAG
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
21 5 0.26
22 6 0.32
23 8 0.42
ACGTcount: A:0.61, C:0.09, G:0.20, T:0.09
Consensus pattern (21 bp):
AGAAATAAAGAGAAAACTAAG
Found at i:15100543 original size:92 final size:92
Alignment explanation
Indices: 15100386--15100570 Score: 343
Period size: 92 Copynumber: 2.0 Consensus size: 92
15100376 GTGATATTGT
*
15100386 GATACCTAGGTTTGGATATCGCGATATCGTCGACAATCTTGAGATGGAGTGCTCCTTGACAAGTG
1 GATACCCAGGTTTGGATATCGCGATATCGTCGACAATCTTGAGATGGAGTGCTCCTTGACAAGTG
*
15100451 GGTACCGTAATACCTAAGGAGGATACC
66 GGTACCGAAATACCTAAGGAGGATACC
*
15100478 GATACCCAGGTTTGGATATCGCGATATCGTCGACAATCTTGAGATGGGGTGCTCCTTGACAAGTG
1 GATACCCAGGTTTGGATATCGCGATATCGTCGACAATCTTGAGATGGAGTGCTCCTTGACAAGTG
15100543 GGTACCGAAATACCTAAGGAGGATACC
66 GGTACCGAAATACCTAAGGAGGATACC
15100570 G
1 G
15100571 CAATACCATA
Statistics
Matches: 90, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
92 90 1.00
ACGTcount: A:0.27, C:0.20, G:0.28, T:0.25
Consensus pattern (92 bp):
GATACCCAGGTTTGGATATCGCGATATCGTCGACAATCTTGAGATGGAGTGCTCCTTGACAAGTG
GGTACCGAAATACCTAAGGAGGATACC
Found at i:15106498 original size:19 final size:19
Alignment explanation
Indices: 15106443--15106479 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
15106433 AAATAAACAT
*
15106443 TAAAAAATTATTTTAAAAA
1 TAAAAAAATATTTTAAAAA
15106462 TAAAAAAATATTTTAAAA
1 TAAAAAAATATTTTAAAA
15106480 GTATTTTAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (19 bp):
TAAAAAAATATTTTAAAAA
Found at i:15109172 original size:15 final size:16
Alignment explanation
Indices: 15109145--15109174 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
15109135 AATATATGTA
15109145 TACTATACCATATACT
1 TACTATACCATATACT
15109161 TACTAT-CCATATAC
1 TACTATACCATATAC
15109175 AATTAAGCGA
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:0.37, C:0.27, G:0.00, T:0.37
Consensus pattern (16 bp):
TACTATACCATATACT
Found at i:15110681 original size:41 final size:41
Alignment explanation
Indices: 15110604--15110681 Score: 93
Period size: 41 Copynumber: 1.9 Consensus size: 41
15110594 CCTGATTCAG
*
15110604 TTCACCAGCATAAAGCCTGCTAGACATAAAGTCTGAAATAA
1 TTCACCAGCATAAAGCCTGCTAGACATAAAGCCTGAAATAA
* * * * **
15110645 TTCACCGGCATTAATCCTGCTAGGCATCGAGCCTGAA
1 TTCACCAGCATAAAGCCTGCTAGACATAAAGCCTGAA
15110682 TATCACAAAT
Statistics
Matches: 30, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
41 30 1.00
ACGTcount: A:0.33, C:0.26, G:0.18, T:0.23
Consensus pattern (41 bp):
TTCACCAGCATAAAGCCTGCTAGACATAAAGCCTGAAATAA
Found at i:15121794 original size:19 final size:18
Alignment explanation
Indices: 15121770--15121806 Score: 56
Period size: 19 Copynumber: 2.0 Consensus size: 18
15121760 TTAAGCGACT
*
15121770 TATATTATATATATTATTA
1 TATATTATAAATA-TATTA
15121789 TATATTATAAATATATTA
1 TATATTATAAATATATTA
15121807 AAAATTATTA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 5 0.29
19 12 0.71
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (18 bp):
TATATTATAAATATATTA
Found at i:15121815 original size:10 final size:11
Alignment explanation
Indices: 15121788--15121851 Score: 55
Period size: 10 Copynumber: 6.1 Consensus size: 11
15121778 ATATATTATT
*
15121788 ATATATTATAA
1 ATATATTAAAA
15121799 ATATATTAAAA
1 ATATATTAAAA
15121810 AT-TATTAAAA
1 ATATATTAAAA
*
15121820 ATA-ATGT-ATA
1 ATATAT-TAAAA
**
15121830 ATATATTTTAA
1 ATATATTAAAA
15121841 AT-TATTAAAA
1 ATATATTAAAA
15121851 A
1 A
15121852 ATAATATATA
Statistics
Matches: 43, Mismatches: 6, Indels: 9
0.74 0.10 0.16
Matches are distributed among these distances:
10 25 0.58
11 18 0.42
ACGTcount: A:0.56, C:0.00, G:0.02, T:0.42
Consensus pattern (11 bp):
ATATATTAAAA
Found at i:15121815 original size:21 final size:22
Alignment explanation
Indices: 15121788--15121859 Score: 64
Period size: 21 Copynumber: 3.5 Consensus size: 22
15121778 ATATATTATT
15121788 ATATATTATAAATATATTAAAA
1 ATATATTATAAATATATTAAAA
* *
15121810 AT-TATTAAAAATA-ATGT-ATA
1 ATATATTATAAATATAT-TAAAA
*
15121830 ATATATTTTAAAT-TATTAAAA
1 ATATATTATAAATATATTAAAA
*
15121851 A-ATAATATA
1 ATATATTATA
15121860 TACTAAGAGC
Statistics
Matches: 39, Mismatches: 7, Indels: 10
0.70 0.12 0.18
Matches are distributed among these distances:
20 13 0.33
21 24 0.62
22 2 0.05
ACGTcount: A:0.57, C:0.00, G:0.01, T:0.42
Consensus pattern (22 bp):
ATATATTATAAATATATTAAAA
Found at i:15121833 original size:31 final size:32
Alignment explanation
Indices: 15121794--15121861 Score: 95
Period size: 31 Copynumber: 2.2 Consensus size: 32
15121784 TATTATATAT
15121794 TATA-AATATATTAAAAATTATT-AAAAATAA
1 TATATAATATATTAAAAATTATTAAAAAATAA
* **
15121824 TGTATAATATATTTTAAATTATTAAAAAATAA
1 TATATAATATATTAAAAATTATTAAAAAATAA
15121856 TATATA
1 TATATA
15121862 CTAAGAGCTA
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
30 3 0.09
31 16 0.50
32 13 0.41
ACGTcount: A:0.57, C:0.00, G:0.01, T:0.41
Consensus pattern (32 bp):
TATATAATATATTAAAAATTATTAAAAAATAA
Found at i:15129542 original size:16 final size:18
Alignment explanation
Indices: 15129503--15129536 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
15129493 TAAGTTTATA
15129503 ATATTT-TATATTATGTT
1 ATATTTATATATTATGTT
*
15129520 ATTTTTATATATTATGT
1 ATATTTATATATTATGT
15129537 AATTTAAAAC
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 5 0.33
18 10 0.67
ACGTcount: A:0.29, C:0.00, G:0.06, T:0.65
Consensus pattern (18 bp):
ATATTTATATATTATGTT
Found at i:15129574 original size:17 final size:18
Alignment explanation
Indices: 15129554--15129600 Score: 53
Period size: 17 Copynumber: 2.7 Consensus size: 18
15129544 AACACATTAA
*
15129554 AAATATAAACAT-GTACT
1 AAATATAAACATACTACT
*
15129571 AAATATATA-ATACTACT
1 AAATATAAACATACTACT
15129588 ATAATATAAACAT
1 A-AATATAAACAT
15129601 TAAAATAATG
Statistics
Matches: 24, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
16 2 0.08
17 13 0.54
18 7 0.29
19 2 0.08
ACGTcount: A:0.55, C:0.11, G:0.02, T:0.32
Consensus pattern (18 bp):
AAATATAAACATACTACT
Found at i:15131231 original size:39 final size:40
Alignment explanation
Indices: 15131160--15131252 Score: 161
Period size: 39 Copynumber: 2.4 Consensus size: 40
15131150 CGGGCCTCGT
*
15131160 GCCTAGCAGGCTATAAGGCGGTGTAATGTTTCGGCCTTGA
1 GCCTAGCAGGCTTTAAGGCGGTGTAATGTTTCGGCCTTGA
*
15131200 GCCTAGCAGGCTTTAA-GCGGTGTAATGTTTCGGCCTTGT
1 GCCTAGCAGGCTTTAAGGCGGTGTAATGTTTCGGCCTTGA
15131239 GCCTAGCAGGCTTT
1 GCCTAGCAGGCTTT
15131253 GTGCTGGTGA
Statistics
Matches: 51, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
39 36 0.71
40 15 0.29
ACGTcount: A:0.17, C:0.22, G:0.31, T:0.30
Consensus pattern (40 bp):
GCCTAGCAGGCTTTAAGGCGGTGTAATGTTTCGGCCTTGA
Found at i:15136305 original size:28 final size:28
Alignment explanation
Indices: 15136274--15136333 Score: 111
Period size: 28 Copynumber: 2.1 Consensus size: 28
15136264 ATATTTATAC
15136274 ACATTTATTTACCATTTGTTTAACATAA
1 ACATTTATTTACCATTTGTTTAACATAA
*
15136302 ACATTTATTTACCATTTGTTTAACATAC
1 ACATTTATTTACCATTTGTTTAACATAA
15136330 ACAT
1 ACAT
15136334 ATTAGATTCA
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 31 1.00
ACGTcount: A:0.35, C:0.17, G:0.03, T:0.45
Consensus pattern (28 bp):
ACATTTATTTACCATTTGTTTAACATAA
Found at i:15140476 original size:16 final size:17
Alignment explanation
Indices: 15140455--15140486 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
15140445 TAAACCCGAA
15140455 AACCCGAAAA-ATAAAG
1 AACCCGAAAACATAAAG
15140471 AACCCGAAAACATAAA
1 AACCCGAAAACATAAA
15140487 CACAAAATTC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 10 0.67
17 5 0.33
ACGTcount: A:0.62, C:0.22, G:0.09, T:0.06
Consensus pattern (17 bp):
AACCCGAAAACATAAAG
Found at i:15141571 original size:17 final size:18
Alignment explanation
Indices: 15141541--15141617 Score: 77
Period size: 19 Copynumber: 4.2 Consensus size: 18
15141531 TAAACAAAAG
15141541 AAAA-TAAGAAAAAGAAA
1 AAAATTAAGAAAAAGAAA
*
15141558 AAACTTAA-AAAAAGAAA
1 AAAATTAAGAAAAAGAAA
*
15141575 AAAATTAAAGAAAAAGACA
1 AAAATT-AAGAAAAAGAAA
* *
15141594 AAAGTTAATAAAAAAGTAAA
1 AAAATTAA-GAAAAAG-AAA
15141614 AAAA
1 AAAA
15141618 AAAAGTAAAA
Statistics
Matches: 48, Mismatches: 7, Indels: 7
0.77 0.11 0.11
Matches are distributed among these distances:
17 17 0.35
18 7 0.15
19 19 0.40
20 5 0.10
ACGTcount: A:0.77, C:0.03, G:0.09, T:0.12
Consensus pattern (18 bp):
AAAATTAAGAAAAAGAAA
Found at i:15141596 original size:19 final size:18
Alignment explanation
Indices: 15141546--15141630 Score: 68
Period size: 19 Copynumber: 4.6 Consensus size: 18
15141536 AAAAGAAAAT
15141546 AAGAAAAAGAAAAAACTT-
1 AAGAAAAAGAAAAAA-TTA
15141564 AA-AAAAAGAAAAAAATTA
1 AAGAAAAAG-AAAAAATTA
*
15141582 AAGAAAAAGACAAAAGTTA
1 AAGAAAAAGA-AAAAATTA
**
15141601 ATA-AAAAAGTAAAAAAAAA
1 A-AGAAAAAG-AAAAAATTA
*
15141620 AAGTAAAAGAA
1 AAGAAAAAGAA
15141631 GGGTGTGCGC
Statistics
Matches: 55, Mismatches: 5, Indels: 14
0.74 0.07 0.19
Matches are distributed among these distances:
17 8 0.15
18 14 0.25
19 31 0.56
20 2 0.04
ACGTcount: A:0.76, C:0.02, G:0.11, T:0.11
Consensus pattern (18 bp):
AAGAAAAAGAAAAAATTA
Found at i:15142958 original size:21 final size:22
Alignment explanation
Indices: 15142915--15142960 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 22
15142905 AAAAATTGGT
* **
15142915 AAAAAAATTTTGGGCCAGTTTA
1 AAAAAAATTTTAGGCCACCTTA
15142937 AAAAAAATTTTAGGCC-CCTTA
1 AAAAAAATTTTAGGCCACCTTA
15142958 AAA
1 AAA
15142961 GTTGGTAATA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
21 6 0.29
22 15 0.71
ACGTcount: A:0.46, C:0.13, G:0.13, T:0.28
Consensus pattern (22 bp):
AAAAAAATTTTAGGCCACCTTA
Found at i:15144411 original size:17 final size:18
Alignment explanation
Indices: 15144389--15144422 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
15144379 AAATAATTAG
15144389 ATATAAT-GAAAATAAAA
1 ATATAATAGAAAATAAAA
*
15144406 ATATAATATAAAATAAA
1 ATATAATAGAAAATAAA
15144423 GAAAACTGAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 7 0.47
18 8 0.53
ACGTcount: A:0.71, C:0.00, G:0.03, T:0.26
Consensus pattern (18 bp):
ATATAATAGAAAATAAAA
Found at i:15148339 original size:26 final size:22
Alignment explanation
Indices: 15148309--15148368 Score: 70
Period size: 25 Copynumber: 2.6 Consensus size: 22
15148299 TGTTTATGTA
15148309 TATATTTATATTTAACAATTATAAT
1 TATATTTATATTTAA-AA-TA-AAT
15148334 TAATATTTA-ATTTAAAATAAAT
1 T-ATATTTATATTTAAAATAAAT
15148356 T-TATTTATATTTA
1 TATATTTATATTTA
15148369 TTTTTAAACC
Statistics
Matches: 33, Mismatches: 0, Indels: 8
0.80 0.00 0.20
Matches are distributed among these distances:
20 6 0.18
21 5 0.15
22 4 0.12
23 2 0.06
24 2 0.06
25 7 0.21
26 7 0.21
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.53
Consensus pattern (22 bp):
TATATTTATATTTAAAATAAAT
Found at i:15152886 original size:22 final size:23
Alignment explanation
Indices: 15152860--15153210 Score: 191
Period size: 22 Copynumber: 15.0 Consensus size: 23
15152850 ATTTTCACAC
*
15152860 CAAAATTTGGACAGCATATATA-
1 CAAAATTTGGACAGCATATACAT
*
15152882 CAAAATTTGGACTGCATTTATACAT
1 CAAAATTTGGACAGCA--TATACAT
15152907 CAAAATTT-GACAGCATATACGTAT
1 CAAAATTTGGACAGCATATAC--AT
* * *
15152931 -ATAA-TTGGACTGCATTTGTACAT
1 CAAAATTTGGACAGCA--TATACAT
15152954 CAAAATTT-GACAGCATATACAT
1 CAAAATTTGGACAGCATATACAT
* * *
15152976 -AAATAATTGGACTGCATTTGTACAT
1 CAAA-ATTTGGACAGCA--TATACAT
15153001 CAAAATTT-GACAGCATATACAT
1 CAAAATTTGGACAGCATATACAT
* *
15153023 -ATATAA-TTGGACTGCATTTGTACAT
1 CA-A-AATTTGGACAGCA--TATACAT
15153048 CAAAATTT-GACAGCATATACAT
1 CAAAATTTGGACAGCATATACAT
* * *
15153070 -ATATAA-TTAGACTGCATTTGTACAT
1 CA-A-AATTTGGACAGCA--TATACAT
15153095 CAAAATTT-GACAGCATATACAT
1 CAAAATTTGGACAGCATATACAT
* *
15153117 -ATATAA-CTGGACTGCATTTATACAT
1 CA-A-AATTTGGACAGCA--TATACAT
15153142 CAAAATTT-GACAGCATATACAT
1 CAAAATTTGGACAGCATATACAT
* *
15153164 -ATATAA-TTGGACTGCATTTGTACAT
1 CA-A-AATTTGGACAGCA--TATACAT
15153189 CAAAATTT-GACAGCATATACAT
1 CAAAATTTGGACAGCATATACAT
15153211 TCATTTACTC
Statistics
Matches: 255, Mismatches: 31, Indels: 86
0.69 0.08 0.23
Matches are distributed among these distances:
21 7 0.03
22 73 0.29
23 49 0.19
24 60 0.24
25 59 0.23
26 7 0.03
ACGTcount: A:0.40, C:0.15, G:0.12, T:0.33
Consensus pattern (23 bp):
CAAAATTTGGACAGCATATACAT
Found at i:15153208 original size:47 final size:47
Alignment explanation
Indices: 15152860--15153210 Score: 598
Period size: 47 Copynumber: 7.5 Consensus size: 47
15152850 ATTTTCACAC
* * *
15152860 CAAAATTTGGACAGCATAT--ATACAAAATTTGGACTGCATTTATACAT
1 CAAAATTT-GACAGCATATACATATATAA-TTGGACTGCATTTGTACAT
*
15152907 CAAAATTTGACAGCATATACGTATATAATTGGACTGCATTTGTACAT
1 CAAAATTTGACAGCATATACATATATAATTGGACTGCATTTGTACAT
*
15152954 CAAAATTTGACAGCATATACATAAATAATTGGACTGCATTTGTACAT
1 CAAAATTTGACAGCATATACATATATAATTGGACTGCATTTGTACAT
15153001 CAAAATTTGACAGCATATACATATATAATTGGACTGCATTTGTACAT
1 CAAAATTTGACAGCATATACATATATAATTGGACTGCATTTGTACAT
*
15153048 CAAAATTTGACAGCATATACATATATAATTAGACTGCATTTGTACAT
1 CAAAATTTGACAGCATATACATATATAATTGGACTGCATTTGTACAT
* *
15153095 CAAAATTTGACAGCATATACATATATAACTGGACTGCATTTATACAT
1 CAAAATTTGACAGCATATACATATATAATTGGACTGCATTTGTACAT
15153142 CAAAATTTGACAGCATATACATATATAATTGGACTGCATTTGTACAT
1 CAAAATTTGACAGCATATACATATATAATTGGACTGCATTTGTACAT
15153189 CAAAATTTGACAGCATATACAT
1 CAAAATTTGACAGCATATACAT
15153211 TCATTTACTC
Statistics
Matches: 289, Mismatches: 13, Indels: 4
0.94 0.04 0.01
Matches are distributed among these distances:
46 10 0.03
47 274 0.95
48 5 0.02
ACGTcount: A:0.40, C:0.15, G:0.12, T:0.33
Consensus pattern (47 bp):
CAAAATTTGACAGCATATACATATATAATTGGACTGCATTTGTACAT
Found at i:15153477 original size:14 final size:15
Alignment explanation
Indices: 15153453--15153487 Score: 54
Period size: 15 Copynumber: 2.3 Consensus size: 15
15153443 TATATACATT
15153453 ACCATATAAATACTA
1 ACCATATAAATACTA
15153468 ACCATA-AAATACTA
1 ACCATATAAATACTA
15153482 ATCCAT
1 A-CCAT
15153488 GATTAAAGTA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 9 0.47
15 10 0.53
ACGTcount: A:0.51, C:0.23, G:0.00, T:0.26
Consensus pattern (15 bp):
ACCATATAAATACTA
Found at i:15154222 original size:43 final size:43
Alignment explanation
Indices: 15154134--15154257 Score: 137
Period size: 43 Copynumber: 2.9 Consensus size: 43
15154124 AGCTAGTACA
* * * * * *
15154134 ATGCCAACGTCCTAGACGTGGTCTTACATGTAATCACATA-CCG
1 ATGCCGACGTCCCAGACGTGGTCTTACACGAAAACACA-AGTCG
*
15154177 ATGTC-ACTGTCCCAGACAG-GGTCTTACACGAAAACACAAGTCG
1 ATGCCGAC-GTCCCAGAC-GTGGTCTTACACGAAAACACAAGTCG
15154220 ATGCCGACGTCCCAGACGTGGTCTTACACGAAAACACA
1 ATGCCGACGTCCCAGACGTGGTCTTACACGAAAACACA
15154258 TATCAGAGTC
Statistics
Matches: 69, Mismatches: 7, Indels: 10
0.80 0.08 0.12
Matches are distributed among these distances:
42 4 0.06
43 62 0.90
44 3 0.04
ACGTcount: A:0.31, C:0.29, G:0.20, T:0.20
Consensus pattern (43 bp):
ATGCCGACGTCCCAGACGTGGTCTTACACGAAAACACAAGTCG
Found at i:15156900 original size:29 final size:29
Alignment explanation
Indices: 15156862--15156951 Score: 80
Period size: 28 Copynumber: 3.2 Consensus size: 29
15156852 CTAGGTGCAA
*
15156862 GAACCC-TAATATGCGAACCCTCTAGGTGT
1 GAACCCATAATATGCGAACCC-CTAAGTGT
* *
15156891 G-ATCCATAATGA-GTGAACCCCTAAGTGT
1 GAACCCATAAT-ATGCGAACCCCTAAGTGT
* * *
15156919 GAACCCAT-ATGTGCGAACCCCTATGAGT
1 GAACCCATAATATGCGAACCCCTAAGTGT
15156947 GAACC
1 GAACC
15156952 TTGTATGTGC
Statistics
Matches: 49, Mismatches: 8, Indels: 9
0.74 0.12 0.14
Matches are distributed among these distances:
28 31 0.63
29 17 0.35
30 1 0.02
ACGTcount: A:0.30, C:0.27, G:0.21, T:0.22
Consensus pattern (29 bp):
GAACCCATAATATGCGAACCCCTAAGTGT
Found at i:15156920 original size:14 final size:14
Alignment explanation
Indices: 15156903--15156951 Score: 62
Period size: 14 Copynumber: 3.5 Consensus size: 14
15156893 TCCATAATGA
*
15156903 GTGAACCCCTAAGT
1 GTGAACCCCTATGT
*
15156917 GTGAACCCATATGT
1 GTGAACCCCTATGT
* *
15156931 GCGAACCCCTATGA
1 GTGAACCCCTATGT
15156945 GTGAACC
1 GTGAACC
15156952 TTGTATGTGC
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
14 29 1.00
ACGTcount: A:0.29, C:0.29, G:0.22, T:0.20
Consensus pattern (14 bp):
GTGAACCCCTATGT
Found at i:15156936 original size:28 final size:28
Alignment explanation
Indices: 15156873--15156965 Score: 80
Period size: 28 Copynumber: 3.2 Consensus size: 28
15156863 AACCCTAATA
* *
15156873 TGCGAACCCTCTAGGTGTG-ATCCATAATG
1 TGCGAACCC-CTAAGTGTGAACCCAT-ATG
* *
15156902 AGTGAACCCCTAAGTGTGAACCCATATG
1 TGCGAACCCCTAAGTGTGAACCCATATG
* * **
15156930 TGCGAACCCCTATGAGTGAACCTTGTATG
1 TGCGAACCCCTAAGTGTGAACC-CATATG
15156959 TGCGAAC
1 TGCGAAC
15156966 TCATCTATGT
Statistics
Matches: 52, Mismatches: 10, Indels: 4
0.79 0.15 0.06
Matches are distributed among these distances:
28 29 0.56
29 23 0.44
ACGTcount: A:0.27, C:0.25, G:0.24, T:0.25
Consensus pattern (28 bp):
TGCGAACCCCTAAGTGTGAACCCATATG
Found at i:15157041 original size:172 final size:172
Alignment explanation
Indices: 15156755--15157138 Score: 402
Period size: 172 Copynumber: 2.2 Consensus size: 172
15156745 TGGAAACTGC
* * ** * *
15156755 ATGTGCGAACCCCTGTAAGCAAACCTTGTATGTACGAACTCATCTGTGTAAACCCTAAGTGAGAA
1 ATGTGCGAACCCCTATGAGTGAACCTTGTATGTGCGAACTCATCTATGTAAACCCTAAGTGAGAA
* * * * * *
15156820 CCTATTCGTGTGAACCCCTTGGTGTGCGAACCCTAGGTGCAAGAACCCTAATATGCGAACCCTCT
66 CCCATTCATGTGAACCCCTAGGTGTACAAACCCTAGGTGCAAGAACCCTAATATGCGAACCC-CC
* * *
15156885 AGGTGTGATCCATAATGAGT-GAACCCCTAAGTGT-GAACCCAT
130 AGGTGCGATCCATAACGA-TCGAACCCCTAAGTGTAAAACCCAT
*
15156927 ATGTGCGAACCCCTATGAGTGAACCTTGTATGTGCGAACTCATCTATGTGAACCCT-AGATGCA-
1 ATGTGCGAACCCCTATGAGTGAACCTTGTATGTGCGAACTCATCTATGTAAACCCTAAG-TG-AG
* * * ** *
15156990 AACCCA-TCTATGTGAACCTCTAGGTGTATAAACCGTAGGTGTGAGAACCCTAATGTGCGAACCC
64 AACCCATTC-ATGTGAACCCCTAGGTGTACAAACCCTAGGTGCAAGAACCCTAATATGCGAACCC
* *
15157054 CCAGGTGCGATCCCTAACGATCGAACCCCTATGTGTACAAACCCAT
128 CCAGGTGCGATCCATAACGATCGAACCCCTAAGTGTA-AAACCCAT
* ** * *
15157100 ATGTG-TAACCTTATATGTGTGACCCTTGTATGTGCGAAC
1 ATGTGCGAACC-CCTATGAGTGAACCTTGTATGTGCGAAC
15157139 CCGACTTATG
Statistics
Matches: 176, Mismatches: 29, Indels: 13
0.81 0.13 0.06
Matches are distributed among these distances:
170 1 0.01
171 33 0.19
172 105 0.60
173 37 0.21
ACGTcount: A:0.28, C:0.26, G:0.21, T:0.25
Consensus pattern (172 bp):
ATGTGCGAACCCCTATGAGTGAACCTTGTATGTGCGAACTCATCTATGTAAACCCTAAGTGAGAA
CCCATTCATGTGAACCCCTAGGTGTACAAACCCTAGGTGCAAGAACCCTAATATGCGAACCCCCA
GGTGCGATCCATAACGATCGAACCCCTAAGTGTAAAACCCAT
Found at i:15157117 original size:14 final size:15
Alignment explanation
Indices: 15157098--15157139 Score: 50
Period size: 15 Copynumber: 2.9 Consensus size: 15
15157088 GTACAAACCC
15157098 ATATGTGT-AACCTT
1 ATATGTGTGAACCTT
*
15157112 ATATGTGTGACCCTT
1 ATATGTGTGAACCTT
* *
15157127 GTATGTGCGAACC
1 ATATGTGTGAACC
15157140 CGACTTATGC
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
14 8 0.35
15 15 0.65
ACGTcount: A:0.24, C:0.19, G:0.21, T:0.36
Consensus pattern (15 bp):
ATATGTGTGAACCTT
Found at i:15159376 original size:70 final size:69
Alignment explanation
Indices: 15159248--15159386 Score: 260
Period size: 70 Copynumber: 2.0 Consensus size: 69
15159238 GATGCCCTTT
*
15159248 GGTCTTAAGAATGCAAGGGCAACATACCAAGATTGGTTAATAGCATTTTTAGGAACATTGAGGTA
1 GGTCTTAAGAATGCAAGGGCAACATACCAAGATTGGTCAATAGCATTTTTAGGAACATTGAGGTA
15159313 TATG
66 TATG
15159317 GGTCTTAAGAATGCAAGGGCAACATACCAGAGATTGGTCAATAGCATTTTTAGGAACATTGAGGT
1 GGTCTTAAGAATGCAAGGGCAACATACCA-AGATTGGTCAATAGCATTTTTAGGAACATTGAGGT
15159382 ATATG
65 ATATG
15159387 TGGATGATAT
Statistics
Matches: 68, Mismatches: 1, Indels: 1
0.97 0.01 0.01
Matches are distributed among these distances:
69 29 0.43
70 39 0.57
ACGTcount: A:0.35, C:0.12, G:0.25, T:0.28
Consensus pattern (69 bp):
GGTCTTAAGAATGCAAGGGCAACATACCAAGATTGGTCAATAGCATTTTTAGGAACATTGAGGTA
TATG
Found at i:15160113 original size:39 final size:39
Alignment explanation
Indices: 15160057--15160137 Score: 101
Period size: 39 Copynumber: 2.1 Consensus size: 39
15160047 AAATTTTTAC
*
15160057 AAAGTTACGTTTCCAATAGGACATTGAGTATTTGGTTAG
1 AAAGTTACGTTTCCAATAGGACATTGAGTATTTGGCTAG
* ** *
15160096 AAAGTTGA-GTTTTCAATAGGATTTTGAGTATTTTGCTAG
1 AAAGTT-ACGTTTCCAATAGGACATTGAGTATTTGGCTAG
15160135 AAA
1 AAA
15160138 ATTATATTTT
Statistics
Matches: 36, Mismatches: 5, Indels: 2
0.84 0.12 0.05
Matches are distributed among these distances:
39 35 0.97
40 1 0.03
ACGTcount: A:0.32, C:0.07, G:0.22, T:0.38
Consensus pattern (39 bp):
AAAGTTACGTTTCCAATAGGACATTGAGTATTTGGCTAG
Found at i:15166158 original size:19 final size:20
Alignment explanation
Indices: 15166131--15166176 Score: 60
Period size: 19 Copynumber: 2.4 Consensus size: 20
15166121 TTATAATGAC
* *
15166131 TATATTTTA-ATATTTAAAT
1 TATAATTTATATAATTAAAT
15166150 TATAATTTATATAATTAAAT
1 TATAATTTATATAATTAAAT
15166170 TA-AATTT
1 TATAATTT
15166177 TACAAATAAT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
19 13 0.54
20 11 0.46
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (20 bp):
TATAATTTATATAATTAAAT
Found at i:15166162 original size:28 final size:26
Alignment explanation
Indices: 15166090--15166175 Score: 68
Period size: 28 Copynumber: 3.2 Consensus size: 26
15166080 AATTTGTTTC
15166090 AAATATATAATATTATATATTTTAATTG
1 AAAT-TATAAT-TTATATATTTTAATTG
* * *
15166118 AATTTATAA-TGACTATATTTTAATATTT
1 AAATTATAATTTA-TATATTTT-A-ATTG
* *
15166146 AAATTATAATTTATATAATTAAATT-
1 AAATTATAATTTATATATTTTAATTG
15166171 AAATT
1 AAATT
15166176 TTACAAATAA
Statistics
Matches: 47, Mismatches: 7, Indels: 11
0.72 0.11 0.17
Matches are distributed among these distances:
25 7 0.15
26 11 0.23
27 7 0.15
28 20 0.43
29 2 0.04
ACGTcount: A:0.47, C:0.01, G:0.02, T:0.50
Consensus pattern (26 bp):
AAATTATAATTTATATATTTTAATTG
Found at i:15166178 original size:20 final size:20
Alignment explanation
Indices: 15166134--15166178 Score: 58
Period size: 20 Copynumber: 2.3 Consensus size: 20
15166124 TAATGACTAT
*
15166134 ATTTTAATATTTAAATTATA
1 ATTTTAATAATTAAATTATA
15166154 A-TTTATATAATTAAATTA-A
1 ATTTTA-ATAATTAAATTATA
15166173 ATTTTA
1 ATTTTA
15166179 CAAATAATTA
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
19 6 0.27
20 16 0.73
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (20 bp):
ATTTTAATAATTAAATTATA
Found at i:15173879 original size:15 final size:15
Alignment explanation
Indices: 15173857--15173908 Score: 95
Period size: 15 Copynumber: 3.5 Consensus size: 15
15173847 CAAACATTAC
15173857 GACGATGGACGTCGT
1 GACGATGGACGTCGT
*
15173872 GGCGATGGACGTCGT
1 GACGATGGACGTCGT
15173887 GACGATGGACGTCGT
1 GACGATGGACGTCGT
15173902 GACGATG
1 GACGATG
15173909 CAACAAGTTC
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 35 1.00
ACGTcount: A:0.19, C:0.19, G:0.42, T:0.19
Consensus pattern (15 bp):
GACGATGGACGTCGT
Done.