Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: chr2
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: 41236440
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 2030548 characters in sequence are not A, C, G, or T
File 97 of 106
Found at i:36851929 original size:17 final size:17
Alignment explanation
Indices: 36851903--36851947 Score: 56
Period size: 17 Copynumber: 2.6 Consensus size: 17
36851893 GTTTATTGTC
36851903 TATAAATAAAAG-ATAAT
1 TATAAATAAAAGCA-AAT
*
36851920 TATAATTAAAAGCAAAT
1 TATAAATAAAAGCAAAT
*
36851937 TATATATAAAA
1 TATAAATAAAA
36851948 ATTTAATGTT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
17 23 0.96
18 1 0.04
ACGTcount: A:0.62, C:0.02, G:0.04, T:0.31
Consensus pattern (17 bp):
TATAAATAAAAGCAAAT
Found at i:36855810 original size:139 final size:140
Alignment explanation
Indices: 36855576--36855835 Score: 371
Period size: 139 Copynumber: 1.9 Consensus size: 140
36855566 TGCACCATTT
* * * *
36855576 TTTCCCCCTTCGTTTCCCATGATAGGCTTTTATTTTGTGCTTTGCTGCAGTTCTGCTATGTTATT
1 TTTCCCCCTTCCTTTCCCATCATAGGCTTTTATCTTGAGCTTTGCTGCAGTTCTGCTATGTTATT
* * *
36855641 GTTATTTTCTCAATTGCATGAGGGATGTAATCATGTTGTTTGCCTGTACTGTTGGCTCTTTTTAT
66 GTTATATTCTCAATTGCATGAGGAAAGTAATCATGTTGTTTGCCTGTACTGTTGGCTCTTTTTAT
36855706 TGCACCAAAA
131 TGCACCAAAA
* * *
36855716 TTTCCCCC-TCCTTTCCTATCATAGGCTTTTTATCTT-AGCTTTGCTGCAGTTCTGCTTTGTTGT
1 TTTCCCCCTTCCTTTCCCATCATAGGC-TTTTATCTTGAGCTTTGCTGCAGTTCTGCTATGTTAT
* * * *
36855779 TGTTATATTCTCCATTGCATGAGGAAAGTAATCATGTTGTTTTCTTGTTCTGTTGGC
65 TGTTATATTCTCAATTGCATGAGGAAAGTAATCATGTTGTTTGCCTGTACTGTTGGC
36855836 ACCTGGCTAT
Statistics
Matches: 105, Mismatches: 14, Indels: 3
0.86 0.11 0.02
Matches are distributed among these distances:
139 89 0.85
140 16 0.15
ACGTcount: A:0.15, C:0.20, G:0.18, T:0.47
Consensus pattern (140 bp):
TTTCCCCCTTCCTTTCCCATCATAGGCTTTTATCTTGAGCTTTGCTGCAGTTCTGCTATGTTATT
GTTATATTCTCAATTGCATGAGGAAAGTAATCATGTTGTTTGCCTGTACTGTTGGCTCTTTTTAT
TGCACCAAAA
Found at i:36855862 original size:64 final size:64
Alignment explanation
Indices: 36855781--36855909 Score: 258
Period size: 64 Copynumber: 2.0 Consensus size: 64
36855771 TTTGTTGTTG
36855781 TTATATTCTCCATTGCATGAGGAAAGTAATCATGTTGTTTTCTTGTTCTGTTGGCACCTGGCTA
1 TTATATTCTCCATTGCATGAGGAAAGTAATCATGTTGTTTTCTTGTTCTGTTGGCACCTGGCTA
36855845 TTATATTCTCCATTGCATGAGGAAAGTAATCATGTTGTTTTCTTGTTCTGTTGGCACCTGGCTA
1 TTATATTCTCCATTGCATGAGGAAAGTAATCATGTTGTTTTCTTGTTCTGTTGGCACCTGGCTA
36855909 T
1 T
36855910 GTACTAAGTA
Statistics
Matches: 65, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
64 65 1.00
ACGTcount: A:0.20, C:0.17, G:0.20, T:0.43
Consensus pattern (64 bp):
TTATATTCTCCATTGCATGAGGAAAGTAATCATGTTGTTTTCTTGTTCTGTTGGCACCTGGCTA
Found at i:36873591 original size:25 final size:26
Alignment explanation
Indices: 36873563--36873639 Score: 101
Period size: 25 Copynumber: 3.1 Consensus size: 26
36873553 TCCAATTTTT
36873563 AATAAAATATTAATA-TTAAATTATA
1 AATAAAATATTAATATTTAAATTATA
*
36873588 AATAAAATATTAATATTTAAATTATC
1 AATAAAATATTAATATTTAAATTATA
36873614 AAT----TATTAATATTTTAAATTATA
1 AATAAAATATTAATA-TTTAAATTATA
36873637 AAT
1 AAT
36873640 TATTCCTATT
Statistics
Matches: 48, Mismatches: 2, Indels: 6
0.86 0.04 0.11
Matches are distributed among these distances:
22 8 0.17
23 13 0.27
25 15 0.31
26 12 0.25
ACGTcount: A:0.55, C:0.01, G:0.00, T:0.44
Consensus pattern (26 bp):
AATAAAATATTAATATTTAAATTATA
Found at i:36873633 original size:23 final size:22
Alignment explanation
Indices: 36873564--36873653 Score: 92
Period size: 23 Copynumber: 3.9 Consensus size: 22
36873554 CCAATTTTTA
*
36873564 ATAAAATATTAATA-TTAAATT
1 ATAAATTATTAATATTTAAATT
36873585 ATAAATAAAATATTAATATTTAAATT
1 ATAAAT----TATTAATATTTAAATT
*
36873611 ATCAATTATTAATATTTTAAATT
1 ATAAATTATTAATA-TTTAAATT
**
36873634 ATAAATTATTCCTATTTAAA
1 ATAAATTATTAATATTTAAA
36873654 AACAAAATAA
Statistics
Matches: 58, Mismatches: 5, Indels: 11
0.78 0.07 0.15
Matches are distributed among these distances:
21 5 0.09
22 14 0.24
23 19 0.33
25 8 0.14
26 12 0.21
ACGTcount: A:0.51, C:0.03, G:0.00, T:0.46
Consensus pattern (22 bp):
ATAAATTATTAATATTTAAATT
Found at i:36873715 original size:113 final size:105
Alignment explanation
Indices: 36873586--36873997 Score: 355
Period size: 108 Copynumber: 3.7 Consensus size: 105
36873576 TATTAAATTA
* **
36873586 TAAATAAAATATTAATATTTAAATTATCAATTATTAATATTTTAAATTATAAATTATTCCTATTT
1 TAAATAAAATATTAATATTTAAATTATCAATTATTAATATTTTAAATTACAAATTATTAATATTT
* **
36873651 AAAAACAAAATAAATTAAAAATAAATAAACATAATATCATTTAAAT
66 ---AA-AAAATAAAAT-AAAA-AAATAAACATAATAAAATTTAAAT
* * * *
36873697 TAGATAAACAATATTAATAATTAAATCATCAATTATTAATATTTAAATAAATTACCAATTATTAA
1 TAAAT-AA-AATATTAATATTTAAATTATCAATTATTAATATTT---TAAATTACAAATTATTAA
* *
36873762 TATTTAAAAAATAAAATAAAAAATTAATCATAATAAAATTTAAAT
61 TATTTAAAAAATAAAATAAAAAAATAAACATAATAAAATTTAAAT
*
36873807 TAAATAAAATATTAATATTTAAATTATCTATTATTAATATTTTAAATAAATA-ATCAATTATTAA
1 TAAATAAAATATTAATATTTAAATTATCAATTATTAATATTTTAAAT---TACA--AATTATTAA
* * *
36873871 T-TTTCAAAAATAAAATAAAATATAATAATTGATCATCATAATATTTAAAT
61 TATTTAAAAAATAAAATAAAA-A-AATAA---A-CATAATAAAATTTAAAT
** * *
36873921 TAAATAAAATATTAATATTTTAAAAAATAAATAAATATTAATA-TTAAAATTATC-AATTATTAA
1 TAAATAAAATATTAATA-TTTAAATTATCAAT---TATTAATATTTTAAATTA-CAAATTATTAA
36873984 TATTTTAAATAAAT
61 TA-TTTAAA-AAAT
36873998 TATCAATTAT
Statistics
Matches: 248, Mismatches: 28, Indels: 45
0.77 0.09 0.14
Matches are distributed among these distances:
105 5 0.02
108 52 0.21
109 13 0.05
110 28 0.11
111 8 0.03
112 11 0.04
113 45 0.18
114 34 0.14
115 15 0.06
116 23 0.09
117 6 0.02
118 8 0.03
ACGTcount: A:0.55, C:0.04, G:0.00, T:0.40
Consensus pattern (105 bp):
TAAATAAAATATTAATATTTAAATTATCAATTATTAATATTTTAAATTACAAATTATTAATATTT
AAAAAATAAAATAAAAAAATAAACATAATAAAATTTAAAT
Found at i:36873747 original size:26 final size:26
Alignment explanation
Indices: 36873718--36873773 Score: 87
Period size: 26 Copynumber: 2.2 Consensus size: 26
36873708 TATTAATAAT
*
36873718 TAAATCATCAATTATTAATATTTAAA
1 TAAATCACCAATTATTAATATTTAAA
*
36873744 TAAATTACCAATTATTAATATTTAAA
1 TAAATCACCAATTATTAATATTTAAA
36873770 -AAAT
1 TAAAT
36873774 AAAATAAAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
25 4 0.14
26 24 0.86
ACGTcount: A:0.52, C:0.07, G:0.00, T:0.41
Consensus pattern (26 bp):
TAAATCACCAATTATTAATATTTAAA
Found at i:36873750 original size:19 final size:21
Alignment explanation
Indices: 36873704--36873744 Score: 57
Period size: 22 Copynumber: 2.0 Consensus size: 21
36873694 AATTAGATAA
36873704 ACAA-TATTAATAATTAAATC
1 ACAATTATTAATAATTAAATC
*
36873724 ATCAATTATTAATATTTAAAT
1 A-CAATTATTAATAATTAAAT
36873745 AAATTACCAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 1 0.06
21 3 0.17
22 14 0.78
ACGTcount: A:0.51, C:0.07, G:0.00, T:0.41
Consensus pattern (21 bp):
ACAATTATTAATAATTAAATC
Found at i:36873925 original size:68 final size:68
Alignment explanation
Indices: 36873808--36874045 Score: 238
Period size: 70 Copynumber: 3.4 Consensus size: 68
36873798 AATTTAAATT
* * *
36873808 AAATAAAATATTAATATTTAAATTATCTATTATTAATATTTTAAATAAATAATCAATTATTAAT-
1 AAATAAAATA-AAATA-TAAAATTATC-ATCATTAATATTTTAAATAAATAATCAATTATTAATA
*
36873872 TTTCAA
63 TTTTAA
36873878 AAATAAAATAAAATATAATAATTGATCATCA-TAATA-TTTAAATTAAATAA--AA-TATTAATA
1 AAATAAAATAAAATATAA-AATT-ATCATCATTAATATTTTAAA-TAAATAATCAATTATTAATA
36873938 TTTTAAA
63 TTTT-AA
* * *
36873945 AAATAAATAAATATTAATATTAAAATTATCAATTATTAATATTTTAAATAAATTATCAATTATTA
1 AAAT--A-AAATA-AAATA-TAAAATTATC-ATCATTAATATTTTAAATAAATAATCAATTATTA
36874010 ATATTTTAA
60 ATATTTTAA
36874019 AAATAAAATAAAATA-AAAATTAATCAT
1 AAATAAAATAAAATATAAAATT-ATCAT
36874046 ANGAATAATC
Statistics
Matches: 143, Mismatches: 8, Indels: 36
0.76 0.04 0.19
Matches are distributed among these distances:
65 7 0.05
66 5 0.03
67 12 0.08
68 22 0.15
69 15 0.10
70 25 0.17
71 16 0.11
72 15 0.10
73 6 0.04
74 8 0.06
75 12 0.08
ACGTcount: A:0.55, C:0.03, G:0.00, T:0.41
Consensus pattern (68 bp):
AAATAAAATAAAATATAAAATTATCATCATTAATATTTTAAATAAATAATCAATTATTAATATTT
TAA
Found at i:36873953 original size:27 final size:26
Alignment explanation
Indices: 36873909--36874033 Score: 97
Period size: 27 Copynumber: 5.0 Consensus size: 26
36873899 TTGATCATCA
*
36873909 TAATA-TTT-AAATTAAATAAAATAT
1 TAATATTTTAAAAATAAATAAAATAT
36873933 TAATATTTTAAAAAATAAAT-AAATAT
1 TAATATTTT-AAAAATAAATAAAATAT
* * *
36873959 TAATA--TT-AAAAT-TATCAATTAT
1 TAATATTTTAAAAATAAATAAAATAT
*
36873981 TAATATTTT--AAATAAATTATCAATTAT
1 TAATATTTTAAAAATAAA-TA--AAATAT
36874008 TAATATTTTAAAAATAAAATAAAATA
1 TAATATTTTAAAAAT-AAATAAAATA
36874034 AAAATTAATC
Statistics
Matches: 82, Mismatches: 6, Indels: 23
0.74 0.05 0.21
Matches are distributed among these distances:
21 2 0.02
22 15 0.18
23 4 0.05
24 10 0.12
25 4 0.05
26 11 0.13
27 27 0.33
29 6 0.07
30 3 0.04
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.42
Consensus pattern (26 bp):
TAATATTTTAAAAATAAATAAAATAT
Found at i:36874012 original size:75 final size:74
Alignment explanation
Indices: 36873803--36874030 Score: 255
Period size: 75 Copynumber: 3.2 Consensus size: 74
36873793 AATAAAATTT
* * *
36873803 AAATTAAATAAAATATTAATATTTAAATTATCTATTATTAATATTTTAAATAAATAATCAATTAT
1 AAATAAAAT-AAATATTAATATTAAAATTATC-ATTATTAATATTTTAAATAAATTATCAATTAT
*
36873868 TAAT-TTTCAA
64 TAATATTTTAA
* * *
36873878 AAATAAAATAAA-A-T-ATA--ATAATTGATCATCA-TAATA-TTTAAATTAAA-TA--AAATAT
1 AAATAAAATAAATATTAATATTAAAATT-ATCATTATTAATATTTTAAA-TAAATTATCAATTAT
36873933 TAATATTTTAA
64 TAATATTTTAA
36873944 AAA-ATAAATAAATATTAATATTAAAATTATCAATTATTAATATTTTAAATAAATTATCAATTAT
1 AAATA-AAATAAATATTAATATTAAAATTATC-ATTATTAATATTTTAAATAAATTATCAATTAT
36874008 TAATATTTTAA
64 TAATATTTTAA
36874019 AAATAAAATAAA
1 AAATAAAATAAA
36874031 ATAAAAATTA
Statistics
Matches: 127, Mismatches: 10, Indels: 32
0.75 0.06 0.19
Matches are distributed among these distances:
65 10 0.08
66 15 0.12
67 8 0.06
68 10 0.08
69 10 0.08
70 6 0.05
71 11 0.09
72 10 0.08
73 9 0.07
74 3 0.02
75 34 0.27
76 1 0.01
ACGTcount: A:0.55, C:0.03, G:0.00, T:0.41
Consensus pattern (74 bp):
AAATAAAATAAATATTAATATTAAAATTATCATTATTAATATTTTAAATAAATTATCAATTATTA
ATATTTTAA
Found at i:36874119 original size:27 final size:27
Alignment explanation
Indices: 36874088--36874141 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 27
36874078 ATGTTAATAT
**
36874088 TTAAATGATTTATTATTAATATTTTAA
1 TTAAATGATAGATTATTAATATTTTAA
**
36874115 TTAAATTCTAGATTATTAATATTTTAA
1 TTAAATGATAGATTATTAATATTTTAA
36874142 AAAATCTAAT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.41, C:0.02, G:0.04, T:0.54
Consensus pattern (27 bp):
TTAAATGATAGATTATTAATATTTTAA
Found at i:36884064 original size:20 final size:20
Alignment explanation
Indices: 36884039--36884081 Score: 86
Period size: 20 Copynumber: 2.1 Consensus size: 20
36884029 AAGCATAATA
36884039 TTCCTTCATTGAAATCTGTT
1 TTCCTTCATTGAAATCTGTT
36884059 TTCCTTCATTGAAATCTGTT
1 TTCCTTCATTGAAATCTGTT
36884079 TTC
1 TTC
36884082 TTTTTGGTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.19, C:0.21, G:0.09, T:0.51
Consensus pattern (20 bp):
TTCCTTCATTGAAATCTGTT
Found at i:36888062 original size:2 final size:2
Alignment explanation
Indices: 36888050--36888153 Score: 93
Period size: 2 Copynumber: 52.5 Consensus size: 2
36888040 TTATTAATAG
* *
36888050 TA TA GA TA TA TA TA TA TA TA TA AA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
* ** ** ** ** *
36888092 TA TN NN NN NN NN TA TA GA TA TA TA TA TA TA TA TA -A TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
36888133 TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA T
36888154 TATTGAAAGG
Statistics
Matches: 91, Mismatches: 10, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
1 1 0.01
2 90 0.99
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.43
Consensus pattern (2 bp):
TA
Found at i:36888560 original size:14 final size:14
Alignment explanation
Indices: 36888538--36888582 Score: 54
Period size: 14 Copynumber: 3.1 Consensus size: 14
36888528 AAATTTGATT
*
36888538 ATTTGTAAATGTTA
1 ATTTATAAATGTTA
*
36888552 ATTTATAAATGCTA
1 ATTTATAAATGTTA
*
36888566 ATTTACAAATGTATA
1 ATTTATAAATGT-TA
36888581 AT
1 AT
36888583 AATAACTATT
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
14 22 0.85
15 4 0.15
ACGTcount: A:0.42, C:0.04, G:0.09, T:0.44
Consensus pattern (14 bp):
ATTTATAAATGTTA
Found at i:36889646 original size:185 final size:185
Alignment explanation
Indices: 36889319--36889690 Score: 541
Period size: 185 Copynumber: 2.0 Consensus size: 185
36889309 AGTTTTTTTT
* * *
36889319 TTCAGTTATATTTCACAACACGTTATCAACACGATTTTATAATCTCTCAAGTTTTGGTATTGTTT
1 TTCAGTTATATTTCACAACACATTATCAACACGATTATATAATCTCTCAAGTTTTGGTATTATTT
* * * **
36889384 TGTTTTTATCATTTTCAAGCTTCAAAAGGATTTCAATGATTAGGTTTTGATTTCTAGTTTTAACA
66 TGTTTTCATCATCTTCAAGCTTCAAAAGGATTGCAAAAATTAGGTTTTGATTTCTAGTTTTAACA
* * *
36889449 GATCAGGTAAGTGTTGGTATTATTTTGTTTTCATCATCTCCAAGCTTTAAAAGGA
131 AATCAAGTAAGTGTTGGTATTATTTTGTTTTCATCATCTCCAAGCTTTAAAAAGA
* * * * * * *
36889504 TTCAGTTATATTTTATAACACATTATTAGCATGATTATCTAATCTTTCAAGTTTTGGTATTATTT
1 TTCAGTTATATTTCACAACACATTATCAACACGATTATATAATCTCTCAAGTTTTGGTATTATTT
*
36889569 TGTTTTCATCATCTTCAAGCTTCAAAAGGATTGCAAAAATT-GAGTTTTGATTTCT-GATTTTAG
66 TGTTTTCATCATCTTCAAGCTTCAAAAGGATTGCAAAAATTAG-GTTTTGATTTCTAG-TTTTAA
36889632 CAAATCAAGTAAGTGTTGGTATTATTTTGTTTTCATCATCTCCAAGCTTTAAAAAGA
129 CAAATCAAGTAAGTGTTGGTATTATTTTGTTTTCATCATCTCCAAGCTTTAAAAAGA
36889689 TT
1 TT
36889691 TCAATGGTTG
Statistics
Matches: 166, Mismatches: 19, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
184 2 0.01
185 164 0.99
ACGTcount: A:0.29, C:0.13, G:0.14, T:0.45
Consensus pattern (185 bp):
TTCAGTTATATTTCACAACACATTATCAACACGATTATATAATCTCTCAAGTTTTGGTATTATTT
TGTTTTCATCATCTTCAAGCTTCAAAAGGATTGCAAAAATTAGGTTTTGATTTCTAGTTTTAACA
AATCAAGTAAGTGTTGGTATTATTTTGTTTTCATCATCTCCAAGCTTTAAAAAGA
Found at i:36889712 original size:90 final size:89
Alignment explanation
Indices: 36889367--36889736 Score: 300
Period size: 90 Copynumber: 4.1 Consensus size: 89
36889357 ATAATCTCTC
* * * * * *
36889367 AAGTTTTGGTATTGTTTTGTTTTTATCATTTTCAAGCTTCAAAAGGATTTCAATGATTAGGTTTT
1 AAGTGTTGGTATTATTTTGTTTTCATCATCTCCAAGCTTCAAAAGGATTTCAATGATT-GGTTTC
* * *
36889432 GATTTCT-AGTTTTAACAGATCAGGT
65 AATTTCTGA-TTTTAGCAAATCAGGT
* * * *
36889457 AAGTGTTGGTATTATTTTGTTTTCATCATCTCCAAGCTTTAAAAGGA-TTCAGTTATAT-TTTAT
1 AAGTGTTGGTATTATTTTGTTTTCATCATCTCCAAGCTTCAAAAGGATTTCAATGAT-TGGTT-T
* * * **
36889520 AACACATTAT-TAGCATGATTATCTAATC-TTT
64 --CA-ATT-TCT-G-AT-TTTAGCAAATCAGGT
* * * **
36889551 CAAGTTTTGGTATTATTTTGTTTTCATCATCTTCAAGCTTCAAAAGGATTGCAAAAATTGAGTTT
1 -AAGTGTTGGTATTATTTTGTTTTCATCATCTCCAAGCTTCAAAAGGATTTCAATGATTG-GTTT
** *
36889616 TGATTTCTGATTTTAGCAAATCAAGT
64 CAATTTCTGATTTTAGCAAATCAGGT
* * *
36889642 AAGTGTTGGTATTATTTTGTTTTCATCATCTCCAAGCTTTAAAAAGATTTCAATGGTTGGTCTTC
1 AAGTGTTGGTATTATTTTGTTTTCATCATCTCCAAGCTTCAAAAGGATTTCAATGATTGGT-TTC
* *
36889707 AATTTCTGGTTGTAGCAAATCAGGT
65 AATTTCTGATTTTAGCAAATCAGGT
36889732 AAGTG
1 AAGTG
36889737 ACTTGATATC
Statistics
Matches: 218, Mismatches: 45, Indels: 34
0.73 0.15 0.11
Matches are distributed among these distances:
88 2 0.01
89 10 0.05
90 129 0.59
91 3 0.01
92 6 0.03
93 5 0.02
94 2 0.01
95 53 0.24
96 6 0.03
97 2 0.01
ACGTcount: A:0.28, C:0.12, G:0.16, T:0.44
Consensus pattern (89 bp):
AAGTGTTGGTATTATTTTGTTTTCATCATCTCCAAGCTTCAAAAGGATTTCAATGATTGGTTTCA
ATTTCTGATTTTAGCAAATCAGGT
Found at i:36889993 original size:59 final size:59
Alignment explanation
Indices: 36889913--36890026 Score: 158
Period size: 59 Copynumber: 1.9 Consensus size: 59
36889903 AAACAAAATC
* * *
36889913 ATGAATCCTTCCGTTCCCTAAAGTGAATGCAACATCATTTAATAATTATGATCATGGTT
1 ATGAATCCATCCGATCCCTAAAGTGAATACAACATCATTTAATAATTATGATCATGGTT
* * *
36889972 ATGAATCCAT-CGATCCTCTAAAGTGAGTACAATATTATTTAATAATTATGATCAT
1 ATGAATCCATCCGATCC-CTAAAGTGAATACAACATCATTTAATAATTATGATCAT
36890027 AGATATGGAA
Statistics
Matches: 48, Mismatches: 6, Indels: 2
0.86 0.11 0.04
Matches are distributed among these distances:
58 5 0.10
59 43 0.90
ACGTcount: A:0.35, C:0.17, G:0.12, T:0.36
Consensus pattern (59 bp):
ATGAATCCATCCGATCCCTAAAGTGAATACAACATCATTTAATAATTATGATCATGGTT
Found at i:36890112 original size:26 final size:26
Alignment explanation
Indices: 36890081--36890136 Score: 78
Period size: 26 Copynumber: 2.2 Consensus size: 26
36890071 TAATTCTAAA
*
36890081 GATAATTTTACC-GTCAGAAGTGGACG
1 GATAATTTTACCACT-AGAAGTGGACG
*
36890107 GATAATTTTACCACTAGAAGTGGATG
1 GATAATTTTACCACTAGAAGTGGACG
36890133 GATA
1 GATA
36890137 CTTTAGCCCA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
26 26 0.96
27 1 0.04
ACGTcount: A:0.34, C:0.12, G:0.25, T:0.29
Consensus pattern (26 bp):
GATAATTTTACCACTAGAAGTGGACG
Found at i:36891530 original size:27 final size:28
Alignment explanation
Indices: 36891500--36891562 Score: 78
Period size: 27 Copynumber: 2.3 Consensus size: 28
36891490 AAAAATATAT
36891500 AAAAATAAACATTTAG-TA-ATAGAAAAG
1 AAAAATAAACATTTAGTTACATA-AAAAG
* *
36891527 AAAAATATATATTTAGTTACATAAAAAG
1 AAAAATAAACATTTAGTTACATAAAAAG
36891555 -AAAATAAA
1 AAAAATAAA
36891563 ATTAGGAAGG
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
27 21 0.68
28 7 0.23
29 3 0.10
ACGTcount: A:0.63, C:0.03, G:0.08, T:0.25
Consensus pattern (28 bp):
AAAAATAAACATTTAGTTACATAAAAAG
Found at i:36898867 original size:84 final size:85
Alignment explanation
Indices: 36898720--36898889 Score: 238
Period size: 84 Copynumber: 2.0 Consensus size: 85
36898710 CAATCAATCA
36898720 AAAAAAAAAAAAGAAAAAGAGAAACAAGTGAAAAAAGATGAAGCTCTAGGATGAAAACCCGAAAG
1 AAAAAAAAAAAAGAAAAAGAGAAACAAGTGAAAAAAGATGAAGCTCTAGGATGAAAACCCGAAAG
*
36898785 AGCAATCTAGAGCGAAGATG
66 AGCAATCTAGAGCGAAAATG
** * *
36898805 AAAAAAAAAAAAGAGAAAA-A-AAAGTGAGTG-AAAAAGATGAAGCTCTAGGGTGAAAACTCGAA
1 AAAAAAAAAAAAGA-AAAAGAGAAA-CAAGTGAAAAAAGATGAAGCTCTAGGATGAAAACCCGAA
* *
36898867 AGGGCAGTCTAGAGCGAAAATG
64 AGAGCAATCTAGAGCGAAAATG
36898889 A
1 A
36898890 GAATTTATGA
Statistics
Matches: 76, Mismatches: 7, Indels: 5
0.86 0.08 0.06
Matches are distributed among these distances:
84 53 0.70
85 19 0.25
86 4 0.05
ACGTcount: A:0.56, C:0.09, G:0.24, T:0.11
Consensus pattern (85 bp):
AAAAAAAAAAAAGAAAAAGAGAAACAAGTGAAAAAAGATGAAGCTCTAGGATGAAAACCCGAAAG
AGCAATCTAGAGCGAAAATG
Found at i:36903261 original size:22 final size:22
Alignment explanation
Indices: 36903219--36903262 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
36903209 TTGAAGGGGT
*
36903219 AAAAATAAAAATTTAATATTTA
1 AAAAATAAAAATTTAAAATTTA
36903241 AAAAAT-AAAATTATAAAATTTA
1 AAAAATAAAAATT-TAAAATTTA
36903263 TTAATAAATA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
21 6 0.30
22 14 0.70
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (22 bp):
AAAAATAAAAATTTAAAATTTA
Found at i:36903283 original size:31 final size:31
Alignment explanation
Indices: 36903245--36903320 Score: 93
Period size: 31 Copynumber: 2.5 Consensus size: 31
36903235 TATTTAAAAA
* *
36903245 ATAAAATTATAAA-ATTTATTAATAAATAAAG
1 ATAAAATTATAAATATTT-TTAAAAAACAAAG
*
36903276 ATAAAATTATAAATATTTTTAAAAAACAATG
1 ATAAAATTATAAATATTTTTAAAAAACAAAG
36903307 A-AAATATTATAAAT
1 ATAAA-ATTATAAAT
36903321 GTTTGGAACT
Statistics
Matches: 40, Mismatches: 3, Indels: 4
0.85 0.06 0.09
Matches are distributed among these distances:
30 3 0.08
31 33 0.82
32 4 0.10
ACGTcount: A:0.61, C:0.01, G:0.03, T:0.36
Consensus pattern (31 bp):
ATAAAATTATAAATATTTTTAAAAAACAAAG
Found at i:36904566 original size:87 final size:87
Alignment explanation
Indices: 36904420--36904595 Score: 316
Period size: 87 Copynumber: 2.0 Consensus size: 87
36904410 ACATGGTTAA
*
36904420 TCAGCGTGTCACTATCATTTTGATTCTGTGCATTCAAGTCTTGATCTGGCAGACAACCAGAGCTT
1 TCAGCATGTCACTATCATTTTGATTCTGTGCATTCAAGTCTTGATCTGGCAGACAACCAGAGCTT
36904485 AAACTTGGAACAACCTTTGAGC
66 AAACTTGGAACAACCTTTGAGC
* *
36904507 TCAGCATGTCACTGTTATTTTGATTCTGTGCATTCAAGTCTTGATCTGGCAGACAACCAGAGCTT
1 TCAGCATGTCACTATCATTTTGATTCTGTGCATTCAAGTCTTGATCTGGCAGACAACCAGAGCTT
*
36904572 AAATTTGGAACAACCTTTGAGC
66 AAACTTGGAACAACCTTTGAGC
36904594 TC
1 TC
36904596 TTCCCATCAT
Statistics
Matches: 85, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
87 85 1.00
ACGTcount: A:0.26, C:0.22, G:0.19, T:0.32
Consensus pattern (87 bp):
TCAGCATGTCACTATCATTTTGATTCTGTGCATTCAAGTCTTGATCTGGCAGACAACCAGAGCTT
AAACTTGGAACAACCTTTGAGC
Found at i:36916115 original size:3 final size:3
Alignment explanation
Indices: 36916107--36916148 Score: 84
Period size: 3 Copynumber: 14.0 Consensus size: 3
36916097 AGAATCAAGT
36916107 ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG
1 ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG
36916149 GAGGATAAAG
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 39 1.00
ACGTcount: A:0.33, C:0.00, G:0.33, T:0.33
Consensus pattern (3 bp):
ATG
Found at i:36919219 original size:15 final size:16
Alignment explanation
Indices: 36919199--36919228 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
36919189 TACCCGTAAA
36919199 AATCAAAT-AGAAAAC
1 AATCAAATGAGAAAAC
36919214 AATCAAATGAGAAAA
1 AATCAAATGAGAAAA
36919229 GAAACATAAA
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:0.67, C:0.10, G:0.10, T:0.13
Consensus pattern (16 bp):
AATCAAATGAGAAAAC
Found at i:36926686 original size:43 final size:43
Alignment explanation
Indices: 36926621--36926708 Score: 149
Period size: 43 Copynumber: 2.0 Consensus size: 43
36926611 TAGTAAAACT
*
36926621 TAATTTCTAGACCCCATGGGGTCTGAACCTATCATTTTACCAC
1 TAATTTCTAGACCCCATGGGGTCTCAACCTATCATTTTACCAC
* *
36926664 TAATTTCTAGACCCCATTGGGTCTCAGCCTATCATTTTACCAC
1 TAATTTCTAGACCCCATGGGGTCTCAACCTATCATTTTACCAC
36926707 TA
1 TA
36926709 CAATTAATCA
Statistics
Matches: 42, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
43 42 1.00
ACGTcount: A:0.25, C:0.28, G:0.12, T:0.34
Consensus pattern (43 bp):
TAATTTCTAGACCCCATGGGGTCTCAACCTATCATTTTACCAC
Found at i:36932724 original size:89 final size:89
Alignment explanation
Indices: 36932568--36932733 Score: 260
Period size: 89 Copynumber: 1.9 Consensus size: 89
36932558 CTGAAGGTCT
* * * *
36932568 AGCATTGTTTAAATATTTACTAGGATAAATGTCTTGTTGGAAATAAAGTACGGTCTAATGTTGCT
1 AGCATGGTTTAAATATTTACTAGGATAAATGTCTTGCTAGAAATAAAGTACGGTCTAATGTTCCT
36932633 AAGCTTAAGCTTGGCTAAAAGTCG
66 AAGCTTAAGCTTGGCTAAAAGTCG
* * * *
36932657 AGCATGGTTTAAATATTTATTGGGATAAATGTCTTGCTAGAAATAAAGTATGGTCTTATGTTCCT
1 AGCATGGTTTAAATATTTACTAGGATAAATGTCTTGCTAGAAATAAAGTACGGTCTAATGTTCCT
36932722 AAGCTTAAGCTT
66 AAGCTTAAGCTT
36932734 AAGTTTAATG
Statistics
Matches: 69, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
89 69 1.00
ACGTcount: A:0.32, C:0.11, G:0.20, T:0.37
Consensus pattern (89 bp):
AGCATGGTTTAAATATTTACTAGGATAAATGTCTTGCTAGAAATAAAGTACGGTCTAATGTTCCT
AAGCTTAAGCTTGGCTAAAAGTCG
Found at i:36933208 original size:38 final size:40
Alignment explanation
Indices: 36933166--36933245 Score: 110
Period size: 40 Copynumber: 2.0 Consensus size: 40
36933156 ACTTTGTGAA
*
36933166 AACACCAATCGTGG-CAAGTTAG-AAACCCCATTAAGGTG
1 AACACCAATCATGGTCAAGTTAGAAAACCCCATTAAGGTG
* * *
36933204 AACACCAATTATGGTGAGGTTAGAAAACCCCATTAAGGTG
1 AACACCAATCATGGTCAAGTTAGAAAACCCCATTAAGGTG
36933244 AA
1 AA
36933246 AAATAGTCAA
Statistics
Matches: 36, Mismatches: 4, Indels: 2
0.86 0.10 0.05
Matches are distributed among these distances:
38 12 0.33
39 6 0.17
40 18 0.50
ACGTcount: A:0.39, C:0.20, G:0.21, T:0.20
Consensus pattern (40 bp):
AACACCAATCATGGTCAAGTTAGAAAACCCCATTAAGGTG
Found at i:36938604 original size:19 final size:19
Alignment explanation
Indices: 36938580--36938618 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
36938570 ATTGATGCCG
36938580 AGGTGTTGTGAAAACATTA
1 AGGTGTTGTGAAAACATTA
36938599 AGGTGTTGTGAAAACATTA
1 AGGTGTTGTGAAAACATTA
36938618 A
1 A
36938619 TAGTGGTGAG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.38, C:0.05, G:0.26, T:0.31
Consensus pattern (19 bp):
AGGTGTTGTGAAAACATTA
Found at i:36957427 original size:14 final size:15
Alignment explanation
Indices: 36957428--36957462 Score: 54
Period size: 14 Copynumber: 2.4 Consensus size: 15
36957418 TTAAAATATT
36957428 AATATTTAACTTTAA
1 AATATTTAACTTTAA
*
36957443 AATAATTAA-TTTAA
1 AATATTTAACTTTAA
36957457 AATATT
1 AATATT
36957463 ACTATTTAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
14 10 0.56
15 8 0.44
ACGTcount: A:0.51, C:0.03, G:0.00, T:0.46
Consensus pattern (15 bp):
AATATTTAACTTTAA
Found at i:36957427 original size:20 final size:21
Alignment explanation
Indices: 36957402--36957452 Score: 86
Period size: 20 Copynumber: 2.4 Consensus size: 21
36957392 AAGTTTGATG
36957402 AATATTAATATTTAA-TTTAA
1 AATATTAATATTTAACTTTAA
36957422 AATATTAATATTTAACTTTAA
1 AATATTAATATTTAACTTTAA
36957443 AATAATTAAT
1 AAT-ATTAAT
36957453 TTAAAATATT
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
20 15 0.52
21 8 0.28
22 6 0.21
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (21 bp):
AATATTAATATTTAACTTTAA
Found at i:36961546 original size:23 final size:23
Alignment explanation
Indices: 36961457--36961547 Score: 87
Period size: 23 Copynumber: 4.0 Consensus size: 23
36961447 TTGGGTTAAG
*
36961457 CATTACGTGACTAGTTGATAGGT
1 CATTGCGTGACTAGTTGATAGGT
* *
36961480 CATTGCATTG-CTGGTTGATAGGT
1 CATTGC-GTGACTAGTTGATAGGT
* *
36961503 CATTGTC-TTACTAGTTGATAGAT
1 CATTG-CGTGACTAGTTGATAGGT
* *
36961526 CATTGCGTGACTGGTTCATAGG
1 CATTGCGTGACTAGTTGATAGG
36961548 GTCAATAGAA
Statistics
Matches: 54, Mismatches: 10, Indels: 8
0.75 0.14 0.11
Matches are distributed among these distances:
22 2 0.04
23 49 0.91
24 3 0.06
ACGTcount: A:0.22, C:0.14, G:0.26, T:0.37
Consensus pattern (23 bp):
CATTGCGTGACTAGTTGATAGGT
Found at i:36962224 original size:25 final size:25
Alignment explanation
Indices: 36962146--36962231 Score: 91
Period size: 25 Copynumber: 3.4 Consensus size: 25
36962136 GCTTGATAGG
* *
36962146 GCATTGCGTGACTGTTATCTGTATA
1 GCATTGCATGAATGTTATCTGTATA
* * **
36962171 GAATTGCATGAGTGTTATAGGTATA
1 GCATTGCATGAATGTTATCTGTATA
* *
36962196 GCATTGCATGAATTTTATCTGTATG
1 GCATTGCATGAATGTTATCTGTATA
*
36962221 GCATTACATGA
1 GCATTGCATGA
36962232 CTGTCATTAC
Statistics
Matches: 49, Mismatches: 12, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
25 49 1.00
ACGTcount: A:0.27, C:0.12, G:0.23, T:0.38
Consensus pattern (25 bp):
GCATTGCATGAATGTTATCTGTATA
Found at i:36964174 original size:17 final size:16
Alignment explanation
Indices: 36964147--36964186 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 16
36964137 GAGTTATAAC
*
36964147 ATTTATGATGTATTTG
1 ATTTTTGATGTATTTG
*
36964163 ATGTTTTGATGTGTTTG
1 AT-TTTTGATGTATTTG
36964180 ATTTTTG
1 ATTTTTG
36964187 TCAATATGTA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
16 7 0.33
17 14 0.67
ACGTcount: A:0.17, C:0.00, G:0.23, T:0.60
Consensus pattern (16 bp):
ATTTTTGATGTATTTG
Found at i:36966621 original size:212 final size:210
Alignment explanation
Indices: 36966247--36966657 Score: 628
Period size: 212 Copynumber: 1.9 Consensus size: 210
36966237 AGTAGATGAT
* *
36966247 AAGCATGGAAGCAATTTGATAGTCCTATAAAGCATGGGAACTTTCATCTCGCATTGCGTCATTGG
1 AAGCATGGAAGCAATTTGATAGTCCCATAAAGCATGGGAACTTTCATCTCACATTGCGTCATTGG
*
36966312 ATAAAAATGCATTGCGTGCATAGATGATAGGGCATCATGTTACATTTTTGGCATGCATGATATGC
66 ATAAAAATGCATTGCGTGCATAGATGATAAGGCATCATGTTACATTTTTGGCATGCATGATATGC
*
36966377 TTGGTTTTCAAACGTTGTGTGACTGAGTAAAAAGGTCAATGCGTGACTAGTTGGTCAACATAGTG
131 TTGGTTTTCAAACGTTGCGTGACTGAGTAAAAAGGTCAATGCGTGACTAGTTGGTCAACATAGTG
36966442 TGACTGATAGGTGAG
196 TGACTGATAGGTGAG
* *
36966457 AAGCATGGAAAGCAATTTGATAGTCCCGTAAAGCATGGGAACTTTCATCTCACATTGCGTTATAC
1 AAGCATGG-AAGCAATTTGATAGTCCCATAAAGCATGGGAACTTTCATCTCACATTGCGTCAT--
* * **
36966522 T-GATAAAAATGCATTGTGTGCGA-AGTTGATAAGGCATCATGTTACATTTTTGGCATGTTTGAT
63 TGGATAAAAATGCATTGCGTGC-ATAGATGATAAGGCATCATGTTACATTTTTGGCATGCATGAT
* * * * * *
36966585 GTGCTTTGTTTTTAGATGTTGCGTGACTGAGTAAAAAGGTCAATGCGTGACTAGTTGGTCAGCAT
127 ATGCTTGGTTTTCAAACGTTGCGTGACTGAGTAAAAAGGTCAATGCGTGACTAGTTGGTCAACAT
36966650 AGTGTGAC
192 AGTGTGAC
36966658 CTAAGGTTTA
Statistics
Matches: 181, Mismatches: 16, Indels: 6
0.89 0.08 0.03
Matches are distributed among these distances:
210 8 0.04
211 50 0.28
212 121 0.67
213 2 0.01
ACGTcount: A:0.28, C:0.14, G:0.25, T:0.32
Consensus pattern (210 bp):
AAGCATGGAAGCAATTTGATAGTCCCATAAAGCATGGGAACTTTCATCTCACATTGCGTCATTGG
ATAAAAATGCATTGCGTGCATAGATGATAAGGCATCATGTTACATTTTTGGCATGCATGATATGC
TTGGTTTTCAAACGTTGCGTGACTGAGTAAAAAGGTCAATGCGTGACTAGTTGGTCAACATAGTG
TGACTGATAGGTGAG
Found at i:36970583 original size:38 final size:38
Alignment explanation
Indices: 36970512--36970585 Score: 94
Period size: 38 Copynumber: 1.9 Consensus size: 38
36970502 AAGTTTATAT
* * *
36970512 GGCATTGCGTGAATGGTGTATAATCATTCCATGACTTA
1 GGCATTGCATGAATAGTGTATAATAATTCCATGACTTA
* * *
36970550 GGCATTGCATGAATAGTGTGTAGTAATTGCATGACT
1 GGCATTGCATGAATAGTGTATAATAATTCCATGACT
36970586 GGTTGATATG
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
38 30 1.00
ACGTcount: A:0.27, C:0.14, G:0.26, T:0.34
Consensus pattern (38 bp):
GGCATTGCATGAATAGTGTATAATAATTCCATGACTTA
Found at i:36976837 original size:22 final size:23
Alignment explanation
Indices: 36976784--36976837 Score: 76
Period size: 22 Copynumber: 2.4 Consensus size: 23
36976774 GACCAATCAT
36976784 GTAATGCCTAATATTCATTCACA
1 GTAATGCCTAATATTCATTCACA
* *
36976807 CT-ATACCTAATATTCATTCAC-
1 GTAATGCCTAATATTCATTCACA
36976828 GTAATGCCTA
1 GTAATGCCTA
36976838 TAAATGAAAT
Statistics
Matches: 26, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
21 1 0.04
22 24 0.92
23 1 0.04
ACGTcount: A:0.33, C:0.24, G:0.07, T:0.35
Consensus pattern (23 bp):
GTAATGCCTAATATTCATTCACA
Found at i:36977680 original size:22 final size:22
Alignment explanation
Indices: 36977655--36977699 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
36977645 ACATAAAGCA
*
36977655 ACGTAATGACTAAAAACTAGTC
1 ACGTAATGACTAAAAACAAGTC
* *
36977677 ACGTAATGCCTATAAACAAGTC
1 ACGTAATGACTAAAAACAAGTC
36977699 A
1 A
36977700 AGCAATTCGA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.44, C:0.20, G:0.13, T:0.22
Consensus pattern (22 bp):
ACGTAATGACTAAAAACAAGTC
Found at i:36978609 original size:47 final size:47
Alignment explanation
Indices: 36978533--36978928 Score: 390
Period size: 47 Copynumber: 8.4 Consensus size: 47
36978523 GACACCACTC
* * *
36978533 AGAGTTGGTGAGACGCCATGGAGGGAATCTATGAGACGCCAGAGTTA
1 AGAGTTGGTGACACGCCATGGAGGGAATCTGTGACACGCCAGAGTTA
* * * * * *
36978580 AGAGCTGGAGACACGCCATGGTGGGAATCTGTGACATGACAGCA-TTC
1 AGAGTTGGTGACACGCCATGGAGGGAATCTGTGACACGCCAG-AGTTA
* * *
36978627 AGAGTTGGTGGACA--CCATGGAGGGAATTTGTGACATGCCAGAATTA
1 AGAGTTGGT-GACACGCCATGGAGGGAATCTGTGACACGCCAGAGTTA
* * * * * *
36978673 AAAGTTAGTTACACGACATGGAGGGAATCTGTGACACACCA-ACGTTC
1 AGAGTTGGTGACACGCCATGGAGGGAATCTGTGACACGCCAGA-GTTA
* * * *
36978720 AGAGTTGGTTAAACGCCATGGATGAAATCTGTGACACGCCAGAGTTA
1 AGAGTTGGTGACACGCCATGGAGGGAATCTGTGACACGCCAGAGTTA
* *
36978767 AGAGTTGGTGACACGCCATGGAGGGAATCTGTGACACGTCAGCA-TTT
1 AGAGTTGGTGACACGCCATGGAGGGAATCTGTGACACGCCAG-AGTTA
* * * * *
36978814 AGAGTTCGTGAGACTCCATGGAGGGAATCTATGACACGCTAGAGCTTA
1 AGAGTTGGTGACACGCCATGGAGGGAATCTGTGACACGCCAGAG-TTA
* * * *
36978862 A-AGTTGGTAACACGCCATGGAGGGAAGCTGTGACACACCAGAGTTC
1 AGAGTTGGTGACACGCCATGGAGGGAATCTGTGACACGCCAGAGTTA
* *
36978908 ATAGTTGGTAACACGCCATGG
1 AGAGTTGGTGACACGCCATGG
36978929 TCATAGTTTA
Statistics
Matches: 284, Mismatches: 54, Indels: 22
0.79 0.15 0.06
Matches are distributed among these distances:
45 4 0.01
46 38 0.13
47 232 0.82
48 10 0.04
ACGTcount: A:0.30, C:0.18, G:0.30, T:0.21
Consensus pattern (47 bp):
AGAGTTGGTGACACGCCATGGAGGGAATCTGTGACACGCCAGAGTTA
Found at i:36979550 original size:31 final size:31
Alignment explanation
Indices: 36979505--36979765 Score: 348
Period size: 31 Copynumber: 8.5 Consensus size: 31
36979495 AGTTATTGGA
*
36979505 GTGTCACAACATTTTATTTGATATGCATGGC
1 GTGTCACAACATTTTACTTGATATGCATGGC
* **
36979536 GTGTGACAGTATTTTACTTGATATGCATGGC
1 GTGTCACAACATTTTACTTGATATGCATGGC
* * *
36979567 GTGTGACATCA-TTTACTTAATATGCATGGC
1 GTGTCACAACATTTTACTTGATATGCATGGC
*
36979597 GTGTCACAGCATTTTACTTGATATGCATGGC
1 GTGTCACAACATTTTACTTGATATGCATGGC
*
36979628 GTGTCACAGCATTTTACTTGATATGCATGGC
1 GTGTCACAACATTTTACTTGATATGCATGGC
* * *
36979659 GTGTCATAACGTTTTACTTGTTATGCATGGC
1 GTGTCACAACATTTTACTTGATATGCATGGC
* * *
36979690 ATGTCACAACATTTTACTTGTTATGGATGGC
1 GTGTCACAACATTTTACTTGATATGCATGGC
36979721 GTGTCACAACATTTTGA-TTGCA-ATGCATGGC
1 GTGTCACAACATTTT-ACTTG-ATATGCATGGC
36979752 GTGTCACAACATTT
1 GTGTCACAACATTT
36979766 ATTCCTTATT
Statistics
Matches: 206, Mismatches: 21, Indels: 6
0.88 0.09 0.03
Matches are distributed among these distances:
30 27 0.13
31 178 0.86
32 1 0.00
ACGTcount: A:0.24, C:0.17, G:0.21, T:0.37
Consensus pattern (31 bp):
GTGTCACAACATTTTACTTGATATGCATGGC
Found at i:36981574 original size:22 final size:21
Alignment explanation
Indices: 36981545--36981585 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 21
36981535 GGACAAGTGT
*
36981545 ATGGTGAAAATTTGAAAACAA
1 ATGGTGAAAATTTAAAAACAA
*
36981566 ATGGATGAAATTTTAAAAAC
1 ATGG-TGAAAATTTAAAAAC
36981586 GGACCAATGG
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 4 0.24
22 13 0.76
ACGTcount: A:0.51, C:0.05, G:0.17, T:0.27
Consensus pattern (21 bp):
ATGGTGAAAATTTAAAAACAA
Found at i:36984441 original size:156 final size:156
Alignment explanation
Indices: 36984195--36984519 Score: 438
Period size: 156 Copynumber: 2.1 Consensus size: 156
36984185 CAGTAATTTC
* * *
36984195 TGTAATTACAGTTTATGAAAGCGACGACAGGTCCTCAAGCACTGATCGATTCAACTCAACCGCAG
1 TGTAATTGCAGTTTACGAAAGCGACGACAGGTCCTCAAGCACTGATCGATCCAACTCAACCGCAG
* * * * *
36984260 ACAACTAATGAGTCGGCGATAAGGATATTAAATTTGTAACGGTTAATGTTCAACAATTCCATACA
66 ACAACTAACGAGCCGCCGATAAGGATATTAAAGTTGTAACAGTTAATGTTCAACAATTCCATACA
36984325 TGATTATTGAATAACA-TAGTTATATA
131 TGATTATTGAATAACACT-GTTATATA
* * ** * *
36984351 TGTAATTGCAGTTTACGAAAGTGACGACAGGTCCTCAAGCA-TCGATCGGTCCGGCTCCACCGTA
1 TGTAATTGCAGTTTACGAAAGCGACGACAGGTCCTCAAGCACT-GATCGATCCAACTCAACCGCA
* * * *
36984415 GACTACTAACGAGCCGCCGGTTAGGATATTAAAGTTGTAACAGTTAATGTTCAACAATTCCATAT
65 GACAACTAACGAGCCGCCGATAAGGATATTAAAGTTGTAACAGTTAATGTTCAACAATTCCATAC
36984480 ATGATTATTGAATAACACTGTTATATA
130 ATGATTATTGAATAACACTGTTATATA
* *
36984507 TGTTATTGTAGTT
1 TGTAATTGCAGTT
36984520 GACCCAATCG
Statistics
Matches: 147, Mismatches: 20, Indels: 4
0.86 0.12 0.02
Matches are distributed among these distances:
155 1 0.01
156 145 0.99
157 1 0.01
ACGTcount: A:0.33, C:0.18, G:0.19, T:0.30
Consensus pattern (156 bp):
TGTAATTGCAGTTTACGAAAGCGACGACAGGTCCTCAAGCACTGATCGATCCAACTCAACCGCAG
ACAACTAACGAGCCGCCGATAAGGATATTAAAGTTGTAACAGTTAATGTTCAACAATTCCATACA
TGATTATTGAATAACACTGTTATATA
Found at i:36984926 original size:31 final size:31
Alignment explanation
Indices: 36984881--36985064 Score: 151
Period size: 31 Copynumber: 6.0 Consensus size: 31
36984871 TTAGCGTTTT
* * *
36984881 ACTTGTTATTCATGGCGTGTCACAACGTTTG
1 ACTTGATATGCATGGCGTGTCACAACATTTG
*
36984912 ATTTGATATGCATGGCGTGTCACAACATTTTG
1 ACTTGATATGCATGGCGTGTCACAACA-TTTG
* * * * *
36984944 -CTTGTTATCCTTAGCGTGTCACAA-AGTT-
1 ACTTGATATGCATGGCGTGTCACAACATTTG
* * *
36984972 ATCTTGTTATCCATGGCGTGTCACAACATTTT
1 A-CTTGATATGCATGGCGTGTCACAACATTTG
* * * *
36985004 ACTT-ATTTTGCATAGCGTGTGACAACATTTT
1 ACTTGA-TATGCATGGCGTGTCACAACATTTG
* *
36985035 ACTTGATATGCATGACGTGTCATAACATTT
1 ACTTGATATGCATGGCGTGTCACAACATTT
36985065 TACTGTTTAT
Statistics
Matches: 123, Mismatches: 23, Indels: 14
0.77 0.14 0.09
Matches are distributed among these distances:
29 2 0.02
30 23 0.19
31 92 0.75
32 6 0.05
ACGTcount: A:0.24, C:0.18, G:0.18, T:0.39
Consensus pattern (31 bp):
ACTTGATATGCATGGCGTGTCACAACATTTG
Found at i:36985054 original size:92 final size:92
Alignment explanation
Indices: 36984882--36985056 Score: 219
Period size: 92 Copynumber: 1.9 Consensus size: 92
36984872 TAGCGTTTTA
* * * * *
36984882 CTTGTTATTCATGGCGTGTCACAACGTTTGATTTGATATGCATGGCGTGTCACAACATTTTGCTT
1 CTTGTTATCCATGGCGTGTCACAACATTTGACTTGATATGCATAGCGTGTCACAACATTTTACTT
* * *
36984947 GTTATCCTTAGCGTGTCACAAAGTTAT
66 GATATCATGAGCGTGTCACAAAGTTAT
* * *
36984974 CTTGTTATCCATGGCGTGTCACAACATTTTACTT-ATTTTGCATAGCGTGTGACAACATTTTACT
1 CTTGTTATCCATGGCGTGTCACAACATTTGACTTGA-TATGCATAGCGTGTCACAACATTTTACT
36985038 TGATATGCATGA-CGTGTCA
65 TGATAT-CATGAGCGTGTCA
36985057 TAACATTTTA
Statistics
Matches: 70, Mismatches: 11, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
91 1 0.01
92 66 0.94
93 3 0.04
ACGTcount: A:0.23, C:0.19, G:0.19, T:0.39
Consensus pattern (92 bp):
CTTGTTATCCATGGCGTGTCACAACATTTGACTTGATATGCATAGCGTGTCACAACATTTTACTT
GATATCATGAGCGTGTCACAAAGTTAT
Found at i:36985066 original size:62 final size:61
Alignment explanation
Indices: 36984877--36985072 Score: 209
Period size: 62 Copynumber: 3.2 Consensus size: 61
36984867 AACCTTAGCG
* * * *
36984877 TTTTACTTGTTATTCATGGCGTGTCACAACGTTTGATTTGATATGCATGGCGTGTCACAACA
1 TTTTACTTGTT-TTCATAGCGTGTCACAACATTTTACTTGATATGCATGGCGTGTCACAACA
* * * * * *
36984939 TTTTGCTTGTTATCCTTAGCGTGTCACAA-A-GTTATCTTGTTATCCATGGCGTGTCACAACA
1 TTTTACTTGTT-TTCATAGCGTGTCACAACATTTTA-CTTGATATGCATGGCGTGTCACAACA
* * * *
36985000 TTTTACTTATTTTGCATAGCGTGTGACAACATTTTACTTGATATGCATGACGTGTCATAACA
1 TTTTACTTGTTTT-CATAGCGTGTCACAACATTTTACTTGATATGCATGGCGTGTCACAACA
36985062 TTTTAC-TGTTT
1 TTTTACTTGTTT
36985073 ATAGTTTGTG
Statistics
Matches: 109, Mismatches: 21, Indels: 9
0.78 0.15 0.06
Matches are distributed among these distances:
60 3 0.03
61 49 0.45
62 54 0.50
63 3 0.03
ACGTcount: A:0.23, C:0.18, G:0.18, T:0.41
Consensus pattern (61 bp):
TTTTACTTGTTTTCATAGCGTGTCACAACATTTTACTTGATATGCATGGCGTGTCACAACA
Found at i:36986598 original size:16 final size:16
Alignment explanation
Indices: 36986552--36986599 Score: 55
Period size: 16 Copynumber: 3.1 Consensus size: 16
36986542 TGTTTTTTAT
*
36986552 ACAATTAATTTTATAC
1 ACAATTTATTTTATAC
*
36986568 AC-ATTT-TTTGCATAC
1 ACAATTTATTT-TATAC
36986583 ACAATTTATTTTATAC
1 ACAATTTATTTTATAC
36986599 A
1 A
36986600 ATTCATTGTA
Statistics
Matches: 26, Mismatches: 3, Indels: 6
0.74 0.09 0.17
Matches are distributed among these distances:
14 3 0.12
15 9 0.35
16 11 0.42
17 3 0.12
ACGTcount: A:0.38, C:0.15, G:0.02, T:0.46
Consensus pattern (16 bp):
ACAATTTATTTTATAC
Found at i:36986602 original size:14 final size:14
Alignment explanation
Indices: 36986546--36986602 Score: 53
Period size: 14 Copynumber: 3.9 Consensus size: 14
36986536 ACAAAATGTT
*
36986546 TTTTATACAATTAA
1 TTTTATACAATTTA
36986560 TTTTATACACATTT-
1 TTTTATACA-ATTTA
*
36986574 TTTGCATACACAATTTA
1 TTT---TATACAATTTA
36986591 TTTTATACAATT
1 TTTTATACAATT
36986603 CATTGTAAAC
Statistics
Matches: 35, Mismatches: 3, Indels: 10
0.73 0.06 0.21
Matches are distributed among these distances:
14 20 0.57
15 3 0.09
16 4 0.11
17 8 0.23
ACGTcount: A:0.35, C:0.12, G:0.02, T:0.51
Consensus pattern (14 bp):
TTTTATACAATTTA
Found at i:36987020 original size:86 final size:86
Alignment explanation
Indices: 36986884--36987050 Score: 271
Period size: 86 Copynumber: 1.9 Consensus size: 86
36986874 AATCCACTAA
* * * * *
36986884 CACTCAGCGTGTCAGCCGATAAATCTGCTTCCACTCAACGTGACAGAACAATTGGGTCGTGTTGT
1 CACTCAGCGTGTCAGCCCATAAATCTGCTTCCACTCAACATGACAAAACAATTGGGCCATGTTGT
36986949 GTCATGCCATAAATCTGCTTC
66 GTCATGCCATAAATCTGCTTC
* *
36986970 CACTCAGCTTGTCAGCCCATAAATCTGCTTCCACTCAGCATGACAAAACAATTGGGCCATGTTGT
1 CACTCAGCGTGTCAGCCCATAAATCTGCTTCCACTCAACATGACAAAACAATTGGGCCATGTTGT
36987035 GTCATGCCATAAATCT
66 GTCATGCCATAAATCT
36987051 CCAGATACTC
Statistics
Matches: 74, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
86 74 1.00
ACGTcount: A:0.26, C:0.28, G:0.19, T:0.28
Consensus pattern (86 bp):
CACTCAGCGTGTCAGCCCATAAATCTGCTTCCACTCAACATGACAAAACAATTGGGCCATGTTGT
GTCATGCCATAAATCTGCTTC
Found at i:36987061 original size:86 final size:86
Alignment explanation
Indices: 36986883--36987100 Score: 267
Period size: 86 Copynumber: 2.5 Consensus size: 86
36986873 AAATCCACTA
* * * * * *
36986883 ACACTCAGCGTGTCAGCCGATAAATCTGCTTCCACTCAACGTGACAGAACAATTGGGTCGTGTTG
1 ACACTCAGCATGTCAGCCCATAAATCTGCTTCCACTCAGCGTGACAAAACAATTGGGCCATGTTG
* **
36986948 TGTCATGCCATAAATCTGCTT
66 TGTCATGCCATAAATCTCCAG
* * *
36986969 CCACTCAGCTTGTCAGCCCATAAATCTGCTTCCACTCAGCATGACAAAACAATTGGGCCATGTTG
1 ACACTCAGCATGTCAGCCCATAAATCTGCTTCCACTCAGCGTGACAAAACAATTGGGCCATGTTG
36987034 TGTCATGCCATAAATCTCCAG
66 TGTCATGCCATAAATCTCCAG
* * * * *
36987055 ATACTCAACATGTGATG-CCATTAATCTGCTTCCACTCGGCGTGACA
1 ACACTCAGCATGTCA-GCCCATAAATCTGCTTCCACTCAGCGTGACA
36987101 TAAGAATTAG
Statistics
Matches: 112, Mismatches: 19, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
86 111 0.99
87 1 0.01
ACGTcount: A:0.27, C:0.28, G:0.18, T:0.27
Consensus pattern (86 bp):
ACACTCAGCATGTCAGCCCATAAATCTGCTTCCACTCAGCGTGACAAAACAATTGGGCCATGTTG
TGTCATGCCATAAATCTCCAG
Found at i:36987819 original size:31 final size:31
Alignment explanation
Indices: 36987779--36987916 Score: 145
Period size: 31 Copynumber: 4.5 Consensus size: 31
36987769 AGACACCATA
* *
36987779 AATTGTTATGCATAGTGTGTCAGAACAATTT
1 AATTGTTATGCATAGCGTGTCACAACAATTT
* * * **
36987810 AATTATTATGCATGGCATGTCACAA-TGTTT
1 AATTGTTATGCATAGCGTGTCACAACAATTT
* * *
36987840 AACTTGTTATGCATGGCGTGTCAGAATAATTT
1 AA-TTGTTATGCATAGCGTGTCACAACAATTT
*
36987872 AATTGTTATGCATAACGTGTCACAAC-ATTT
1 AATTGTTATGCATAGCGTGTCACAACAATTT
36987902 AACTTGTTATGCATA
1 AA-TTGTTATGCATA
36987917 AAGGCAGTCA
Statistics
Matches: 88, Mismatches: 16, Indels: 6
0.80 0.15 0.05
Matches are distributed among these distances:
30 11 0.12
31 72 0.82
32 5 0.06
ACGTcount: A:0.31, C:0.13, G:0.17, T:0.38
Consensus pattern (31 bp):
AATTGTTATGCATAGCGTGTCACAACAATTT
Found at i:36987861 original size:62 final size:62
Alignment explanation
Indices: 36987781--36987916 Score: 191
Period size: 62 Copynumber: 2.2 Consensus size: 62
36987771 ACACCATAAA
* ** **
36987781 TTGTTATGCATAGTGTGTCAGAACAATTTAATTATTATGCATGGCATGTCACAATGTTTAAC
1 TTGTTATGCATAGCGTGTCAGAACAATTTAATTATTATGCATAACATGTCACAACATTTAAC
* * * *
36987843 TTGTTATGCATGGCGTGTCAGAATAATTTAATTGTTATGCATAACGTGTCACAACATTTAAC
1 TTGTTATGCATAGCGTGTCAGAACAATTTAATTATTATGCATAACATGTCACAACATTTAAC
36987905 TTGTTATGCATA
1 TTGTTATGCATA
36987917 AAGGCAGTCA
Statistics
Matches: 64, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
62 64 1.00
ACGTcount: A:0.30, C:0.13, G:0.18, T:0.39
Consensus pattern (62 bp):
TTGTTATGCATAGCGTGTCAGAACAATTTAATTATTATGCATAACATGTCACAACATTTAAC
Found at i:36988869 original size:26 final size:23
Alignment explanation
Indices: 36988822--36988903 Score: 101
Period size: 23 Copynumber: 3.4 Consensus size: 23
36988812 TCAAATGTCA
* *
36988822 TGACACACCATGCATCAGTATCG
1 TGACACGCCATGCATCACTATCG
*
36988845 TTACACGCCATGTTGCATCACTATCG
1 TGACACGCCA---TGCATCACTATCG
*
36988871 TGACACGCCATGCATCACTGTCG
1 TGACACGCCATGCATCACTATCG
36988894 TGACACGCCA
1 TGACACGCCA
36988904 ATCACTGTAA
Statistics
Matches: 51, Mismatches: 5, Indels: 6
0.82 0.08 0.10
Matches are distributed among these distances:
23 30 0.59
26 21 0.41
ACGTcount: A:0.26, C:0.33, G:0.18, T:0.23
Consensus pattern (23 bp):
TGACACGCCATGCATCACTATCG
Found at i:36988909 original size:20 final size:21
Alignment explanation
Indices: 36988860--36988911 Score: 70
Period size: 23 Copynumber: 2.4 Consensus size: 21
36988850 CGCCATGTTG
*
36988860 CATCACTATCGTGACACGCCA
1 CATCACTGTCGTGACACGCCA
36988881 TGCATCACTGTCGTGACACGCCA
1 --CATCACTGTCGTGACACGCCA
36988904 -ATCACTGT
1 CATCACTGT
36988912 AATTACTGAC
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
20 8 0.29
23 20 0.71
ACGTcount: A:0.25, C:0.35, G:0.17, T:0.23
Consensus pattern (21 bp):
CATCACTGTCGTGACACGCCA
Found at i:36988993 original size:55 final size:54
Alignment explanation
Indices: 36988932--36989117 Score: 165
Period size: 55 Copynumber: 3.4 Consensus size: 54
36988922 TCGTTACACC
* * *
36988932 AACAGCCGTGACACGCTAAAAATCCAAAAAATCAATTAACCCACGACACACTAGG
1 AACAACCGTGACACGCTAAAAA-CCAAAAAATCAGTTAACCCACGACACACCAGG
* * * * * * * * *
36988987 AACAGCCGTGACACACCAAAAACCTATAAATTTAGTTAACCCATGACACCCCAAG
1 AACAACCGTGACACGCTAAAAACC-AAAAAATCAGTTAACCCACGACACACCAGG
* * * * * * * *
36989042 AACAATCGTGACACGTTAACAACTAAAAAAACTAGTTAACTCACAACACGCCAGG
1 AACAACCGTGACACGCTAAAAACCAAAAAATC-AGTTAACCCACGACACACCAGG
36989097 AACAACCGTGACACGCTAAAA
1 AACAACCGTGACACGCTAAAA
36989118 TAACTCTAAC
Statistics
Matches: 100, Mismatches: 29, Indels: 4
0.75 0.22 0.03
Matches are distributed among these distances:
54 6 0.06
55 94 0.94
ACGTcount: A:0.45, C:0.28, G:0.12, T:0.15
Consensus pattern (54 bp):
AACAACCGTGACACGCTAAAAACCAAAAAATCAGTTAACCCACGACACACCAGG
Found at i:36994389 original size:14 final size:14
Alignment explanation
Indices: 36994370--36994407 Score: 51
Period size: 14 Copynumber: 2.8 Consensus size: 14
36994360 TCTTAGTTTA
*
36994370 AATTTTGGTTAAGT
1 AATTTTAGTTAAGT
*
36994384 AATTTTAGTTAATT
1 AATTTTAGTTAAGT
36994398 AA-TTTAGTTA
1 AATTTTAGTTA
36994408 TTTGATATTA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
13 8 0.36
14 14 0.64
ACGTcount: A:0.34, C:0.00, G:0.13, T:0.53
Consensus pattern (14 bp):
AATTTTAGTTAAGT
Found at i:36999005 original size:30 final size:29
Alignment explanation
Indices: 36998969--36999045 Score: 93
Period size: 29 Copynumber: 2.6 Consensus size: 29
36998959 AATTACTAAT
* *
36998969 TATAAAAACTTATTTGATTCAAAATAAAAA
1 TATAAAAATTTATTTGA-ACAAAATAAAAA
*
36998999 TATAAAAATTTGA-TTGAACACAATAAAAA
1 TATAAAAATTT-ATTTGAACAAAATAAAAA
*
36999028 TAAAAAAATTTATTTGAA
1 TATAAAAATTTATTTGAA
36999046 TTTTCGTGAA
Statistics
Matches: 41, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
28 1 0.02
29 25 0.61
30 14 0.34
31 1 0.02
ACGTcount: A:0.57, C:0.05, G:0.05, T:0.32
Consensus pattern (29 bp):
TATAAAAATTTATTTGAACAAAATAAAAA
Found at i:37000741 original size:17 final size:19
Alignment explanation
Indices: 37000714--37000750 Score: 60
Period size: 17 Copynumber: 2.1 Consensus size: 19
37000704 GGGAGTTTCC
37000714 TCTTCCTATGTATGA-TTT
1 TCTTCCTATGTATGACTTT
37000732 TCTT-CTATGTATGACTTT
1 TCTTCCTATGTATGACTTT
37000750 T
1 T
37000751 TGAATGTAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 10 0.56
18 8 0.44
ACGTcount: A:0.16, C:0.16, G:0.11, T:0.57
Consensus pattern (19 bp):
TCTTCCTATGTATGACTTT
Found at i:37024474 original size:2 final size:2
Alignment explanation
Indices: 37024467--37024494 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
37024457 GCCTTCAGTG
37024467 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
37024495 GTGATTTTGC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:37025445 original size:29 final size:29
Alignment explanation
Indices: 37025411--37025475 Score: 76
Period size: 29 Copynumber: 2.2 Consensus size: 29
37025401 GTATAACAAA
* *
37025411 ATTTTTTGAATATGACATGTAACAATAAT
1 ATTTTTTCAACATGACATGTAACAATAAT
* * * *
37025440 ATTTTTTCAGCATGACGTGTAACAGTATT
1 ATTTTTTCAACATGACATGTAACAATAAT
37025469 ATTTTTT
1 ATTTTTT
37025476 TTTCAACATG
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.32, C:0.09, G:0.12, T:0.46
Consensus pattern (29 bp):
ATTTTTTCAACATGACATGTAACAATAAT
Found at i:37025544 original size:29 final size:29
Alignment explanation
Indices: 37025428--37025544 Score: 66
Period size: 29 Copynumber: 4.1 Consensus size: 29
37025418 GAATATGACA
* *
37025428 TGTAACAATAATA--TTTTTTCAGCATGACG
1 TGTAACAACAATATTTTTTTTCAACATG--G
** *
37025457 TGTAACAGTATTATTTTTTTTTCAACATGG
1 TGTAACAACAATA-TTTTTTTTCAACATGG
** * * *
37025487 CAT-ATAAC-ATATTTTTATACATA-AT-G
1 TGTAACAACAATATTTTTTTTCA-ACATGG
37025513 TGTAACAACAATATTTTTTTTCAACATGG
1 TGTAACAACAATATTTTTTTTCAACATGG
37025542 TGT
1 TGT
37025545 CTAACAACCT
Statistics
Matches: 64, Mismatches: 16, Indels: 16
0.67 0.17 0.17
Matches are distributed among these distances:
26 2 0.03
27 15 0.23
28 16 0.25
29 17 0.27
30 2 0.03
32 12 0.19
ACGTcount: A:0.33, C:0.12, G:0.11, T:0.44
Consensus pattern (29 bp):
TGTAACAACAATATTTTTTTTCAACATGG
Found at i:37025618 original size:29 final size:29
Alignment explanation
Indices: 37025586--37025648 Score: 81
Period size: 29 Copynumber: 2.2 Consensus size: 29
37025576 ATATTTTTAT
*
37025586 ACATGGTGTATAACAATAATACTTTTTCA
1 ACATGGCGTATAACAATAATACTTTTTCA
* * * *
37025615 ACATAGCGTGTAACAATAATATTTTTTTA
1 ACATGGCGTATAACAATAATACTTTTTCA
37025644 ACATG
1 ACATG
37025649 ACGCGTAATA
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.38, C:0.13, G:0.11, T:0.38
Consensus pattern (29 bp):
ACATGGCGTATAACAATAATACTTTTTCA
Found at i:37025656 original size:29 final size:29
Alignment explanation
Indices: 37025596--37025656 Score: 79
Period size: 29 Copynumber: 2.1 Consensus size: 29
37025586 ACATGGTGTA
*
37025596 TAACAATAATACTTTTTCAACATAGCGTG
1 TAACAATAATACTTTTTCAACATAGCGCG
* *
37025625 TAACAATAATATTTTTTTAACAT-GACGCG
1 TAACAATAATACTTTTTCAACATAG-CGCG
37025654 TAA
1 TAA
37025657 TATTTTTTTG
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
28 1 0.04
29 27 0.96
ACGTcount: A:0.39, C:0.15, G:0.10, T:0.36
Consensus pattern (29 bp):
TAACAATAATACTTTTTCAACATAGCGCG
Found at i:37027502 original size:1 final size:1
Alignment explanation
Indices: 37027496--37027520 Score: 50
Period size: 1 Copynumber: 25.0 Consensus size: 1
37027486 ATGGCTTGGG
37027496 TTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTT
37027521 GTACAGCTTC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 24 1.00
ACGTcount: A:0.00, C:0.00, G:0.00, T:1.00
Consensus pattern (1 bp):
T
Found at i:37031078 original size:21 final size:21
Alignment explanation
Indices: 37031029--37031078 Score: 66
Period size: 21 Copynumber: 2.4 Consensus size: 21
37031019 TCTAATTTTG
*
37031029 TTTCTTTATTTTGTCTCTCTT
1 TTTCTTTTTTTTGTCTCTCTT
*
37031050 TTTCTTTTTTTTGTGCTTTC-T
1 TTTCTTTTTTTTGT-CTCTCTT
37031071 TTTCTTTT
1 TTTCTTTT
37031079 CTTTCCCCTT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
21 22 0.85
22 4 0.15
ACGTcount: A:0.02, C:0.16, G:0.06, T:0.76
Consensus pattern (21 bp):
TTTCTTTTTTTTGTCTCTCTT
Found at i:37035993 original size:27 final size:27
Alignment explanation
Indices: 37035936--37036116 Score: 82
Period size: 27 Copynumber: 6.7 Consensus size: 27
37035926 ACTTTTGGTG
* * * * *
37035936 GGTAAATGTATCCATCTAGTTTTTGTG
1 GGTAAATGTATCCATCCACTTATAGTA
*
37035963 GGTAAATGTATCTATCCACTTATAGTA
1 GGTAAATGTATCCATCCACTTATAGTA
* * * **
37035990 GGTAAA-GTTATTCATCCGCTTTTAACA
1 GGTAAATG-TATCCATCCACTTATAGTA
* *
37036017 AGTAAA-GATATCCATCCACTTCT-GATA
1 GGTAAATG-TATCCATCCACTTATAG-TA
* * * * *
37036044 GGTACACGTATCCATCCATTTTTTA-TG
1 GGTAAATGTATCCATCCA-CTTATAGTA
* ** * * *
37036071 GGTAAAGGTATTTATCCACTTTTGGTG
1 GGTAAATGTATCCATCCACTTATAGTA
37036098 GGTAAATGTATCCATCCAC
1 GGTAAATGTATCCATCCAC
37036117 CTCTAATGGG
Statistics
Matches: 115, Mismatches: 33, Indels: 12
0.72 0.21 0.08
Matches are distributed among these distances:
26 5 0.04
27 106 0.92
28 4 0.03
ACGTcount: A:0.28, C:0.18, G:0.17, T:0.37
Consensus pattern (27 bp):
GGTAAATGTATCCATCCACTTATAGTA
Found at i:37036114 original size:54 final size:54
Alignment explanation
Indices: 37035924--37036130 Score: 173
Period size: 54 Copynumber: 3.8 Consensus size: 54
37035914 AGATATTCGA
* * * * *
37035924 CCACTTTTGGTGGGTAAATGTATCCATCTAGTTTTTGTGGGTAAATGTATCTAT
1 CCACTTTTGGTAGGTAAATGTATCCATCCACTTTTTATGGGTAAAGGTATCTAT
* * * * * *** * *
37035978 CCACTTATAGTAGGTAAA-GTTATTCATCCGCTTTTAACAAGTAAAGATATCCAT
1 CCACTTTTGGTAGGTAAATG-TATCCATCCACTTTTTATGGGTAAAGGTATCTAT
* * * * * *
37036032 CCACTTCTGATAGGTACACGTATCCATCCATTTTTTATGGGTAAAGGTATTTAT
1 CCACTTTTGGTAGGTAAATGTATCCATCCACTTTTTATGGGTAAAGGTATCTAT
* * * *
37036086 CCACTTTTGGTGGGTAAATGTATCCATCCACCTCTAATGGGTAAA
1 CCACTTTTGGTAGGTAAATGTATCCATCCACTTTTTATGGGTAAA
37036131 AATATTCTAA
Statistics
Matches: 113, Mismatches: 38, Indels: 4
0.73 0.25 0.03
Matches are distributed among these distances:
53 1 0.01
54 111 0.98
55 1 0.01
ACGTcount: A:0.28, C:0.18, G:0.18, T:0.37
Consensus pattern (54 bp):
CCACTTTTGGTAGGTAAATGTATCCATCCACTTTTTATGGGTAAAGGTATCTAT
Found at i:37049008 original size:14 final size:15
Alignment explanation
Indices: 37048959--37049017 Score: 54
Period size: 14 Copynumber: 4.1 Consensus size: 15
37048949 ATAAAATTTT
*
37048959 AATTATTTATTATTCA
1 AATTATTTA-TATTAA
*
37048975 AACT-TTTATATTAA
1 AATTATTTATATTAA
*
37048989 AATTATTTATA-TAT
1 AATTATTTATATTAA
37049003 AATTA-TTAT-TTAA
1 AATTATTTATATTAA
37049016 AA
1 AA
37049018 ATGAAATAAA
Statistics
Matches: 36, Mismatches: 5, Indels: 7
0.75 0.10 0.15
Matches are distributed among these distances:
13 8 0.22
14 15 0.42
15 10 0.28
16 3 0.08
ACGTcount: A:0.44, C:0.03, G:0.00, T:0.53
Consensus pattern (15 bp):
AATTATTTATATTAA
Found at i:37055345 original size:2 final size:2
Alignment explanation
Indices: 37055332--37055376 Score: 81
Period size: 2 Copynumber: 22.5 Consensus size: 2
37055322 ACTTTCGTAT
*
37055332 TC TC TG TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
37055374 TC T
1 TC T
37055377 ACATGTTATT
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 41 1.00
ACGTcount: A:0.00, C:0.47, G:0.02, T:0.51
Consensus pattern (2 bp):
TC
Found at i:37071663 original size:25 final size:25
Alignment explanation
Indices: 37071616--37071663 Score: 80
Period size: 26 Copynumber: 1.9 Consensus size: 25
37071606 TTTAAGTTAT
37071616 CAATTTTAATATTTTAAATAAATTA
1 CAATTTTAATATTTTAAATAAATTA
37071641 CAATTATTAATATTTTAAA-AAAT
1 CAATT-TTAATATTTTAAATAAAT
37071664 AAAATAAAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
25 9 0.41
26 13 0.59
ACGTcount: A:0.50, C:0.04, G:0.00, T:0.46
Consensus pattern (25 bp):
CAATTTTAATATTTTAAATAAATTA
Found at i:37071718 original size:22 final size:26
Alignment explanation
Indices: 37071690--37071749 Score: 74
Period size: 27 Copynumber: 2.4 Consensus size: 26
37071680 TTAATCATAA
37071690 TAATATTTAAATT-A-T-TA-ATTAT
1 TAATATTTAAATTAATTCTAGATTAT
*
37071712 TAATATTTTAATTAAATTCTAGATTAT
1 TAATATTTAAATT-AATTCTAGATTAT
37071739 TAATATTTAAA
1 TAATATTTAAA
37071750 AAAATCTAAT
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
22 12 0.39
24 1 0.03
25 1 0.03
26 2 0.06
27 15 0.48
ACGTcount: A:0.45, C:0.02, G:0.02, T:0.52
Consensus pattern (26 bp):
TAATATTTAAATTAATTCTAGATTAT
Found at i:37071763 original size:91 final size:90
Alignment explanation
Indices: 37071601--37071768 Score: 241
Period size: 91 Copynumber: 1.9 Consensus size: 90
37071591 AATAAAATAT
* *
37071601 TAATATTTAAGTTATCAATTTTAATATTTTAAATAAATTACAATTATTAATATTTTAAAAAATAA
1 TAATATTTAAATTATCAATTTTAATATTTTAAATAAATTACAATTATTAATATTTAAAAAAATAA
37071666 AAT-AAAATAAAAAATTAATCATAA
66 AATAAAAATAAAAAATTAATCATAA
* *
37071690 TAATATTTAAATTATTAATTATTAATATTTTAATTAAATT-CTAGATTATTAATATTTAAAAAAA
1 TAATATTTAAATTATCAATT-TTAATATTTTAAATAAATTAC-A-ATTATTAATATTTAAAAAAA
**
37071754 TCTAATAAAAATAAA
63 TAAAATAAAAATAAA
37071769 TAGTCATATA
Statistics
Matches: 69, Mismatches: 6, Indels: 5
0.86 0.08 0.06
Matches are distributed among these distances:
89 19 0.28
90 19 0.28
91 23 0.33
92 8 0.12
ACGTcount: A:0.54, C:0.03, G:0.01, T:0.42
Consensus pattern (90 bp):
TAATATTTAAATTATCAATTTTAATATTTTAAATAAATTACAATTATTAATATTTAAAAAAATAA
AATAAAAATAAAAAATTAATCATAA
Found at i:37084971 original size:2 final size:2
Alignment explanation
Indices: 37084964--37085006 Score: 59
Period size: 2 Copynumber: 21.5 Consensus size: 2
37084954 CAATCATGCT
* * *
37084964 TA TA TA TA TA CA TA TA TA TA TA TA TA TA TA GA TA TA TC TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
37085006 T
1 T
37085007 TTTCAAAGTA
Statistics
Matches: 35, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.47, C:0.05, G:0.02, T:0.47
Consensus pattern (2 bp):
TA
Found at i:37086394 original size:19 final size:19
Alignment explanation
Indices: 37086370--37086409 Score: 80
Period size: 19 Copynumber: 2.1 Consensus size: 19
37086360 AGGGGTTGTC
37086370 CAGGGGCTATCAAAATTGA
1 CAGGGGCTATCAAAATTGA
37086389 CAGGGGCTATCAAAATTGA
1 CAGGGGCTATCAAAATTGA
37086408 CA
1 CA
37086410 AAGTGTTTCG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.38, C:0.17, G:0.25, T:0.20
Consensus pattern (19 bp):
CAGGGGCTATCAAAATTGA
Found at i:37087779 original size:2 final size:2
Alignment explanation
Indices: 37087768--37087798 Score: 55
Period size: 2 Copynumber: 16.0 Consensus size: 2
37087758 TACTTTTCAT
37087768 TA TA TA -A TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
37087799 GCTAGACAGA
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:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
TA
Found at i:37091859 original size:2 final size:2
Alignment explanation
Indices: 37091854--37091995 Score: 172
Period size: 2 Copynumber: 72.5 Consensus size: 2
37091844 ATATAAAGTG
37091854 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
* * *
37091896 TA TA TA TA TA T- TA AA T- TG CA -A GT- TGA T- TA -A TA -A TCA
1 TA TA TA TA TA TA TA TA TA TA TA TA -TA T-A TA TA TA TA TA T-A
37091932 NTA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 -TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
37091975 TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA T
37091996 TAAATTGCAA
Statistics
Matches: 125, Mismatches: 4, Indels: 22
0.83 0.03 0.15
Matches are distributed among these distances:
1 7 0.06
2 114 0.91
3 3 0.02
4 1 0.01
ACGTcount: A:0.48, C:0.01, G:0.02, T:0.48
Consensus pattern (2 bp):
TA
Found at i:37093053 original size:21 final size:21
Alignment explanation
Indices: 37093027--37093067 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
37093017 AGGAGAAGAT
*
37093027 TCACTAACATTGATCGCATAC
1 TCACTAACATTGATCCCATAC
*
37093048 TCACTAACGTTGATCCCATA
1 TCACTAACATTGATCCCATA
37093068 TAAGCTGCAC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.32, C:0.29, G:0.10, T:0.29
Consensus pattern (21 bp):
TCACTAACATTGATCCCATAC
Found at i:37094496 original size:2 final size:2
Alignment explanation
Indices: 37094489--37094525 Score: 58
Period size: 2 Copynumber: 18.5 Consensus size: 2
37094479 AATACACCAC
37094489 AG AG AG AG AG AG AG AG AG A- AG AG AG AG AG ATG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A-G AG AG A
37094526 AGGTAAGGCC
Statistics
Matches: 33, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
1 1 0.03
2 30 0.91
3 2 0.06
ACGTcount: A:0.51, C:0.00, G:0.46, T:0.03
Consensus pattern (2 bp):
AG
Found at i:37094513 original size:11 final size:11
Alignment explanation
Indices: 37094489--37094525 Score: 58
Period size: 11 Copynumber: 3.5 Consensus size: 11
37094479 AATACACCAC
37094489 AGAGAGAG-AG
1 AGAGAGAGAAG
37094499 AGAGAGAGAAG
1 AGAGAGAGAAG
*
37094510 AGAGAGAGATG
1 AGAGAGAGAAG
37094521 AGAGA
1 AGAGA
37094526 AGGTAAGGCC
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
10 8 0.32
11 17 0.68
ACGTcount: A:0.51, C:0.00, G:0.46, T:0.03
Consensus pattern (11 bp):
AGAGAGAGAAG
Found at i:37094654 original size:2 final size:2
Alignment explanation
Indices: 37094649--37094679 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
37094639 TTCGTATCTN
37094649 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
37094680 TGGGTATACA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.48, T:0.00
Consensus pattern (2 bp):
AG
Found at i:37100945 original size:2 final size:2
Alignment explanation
Indices: 37100938--37100969 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
37100928 TTACACAAAC
37100938 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
37100970 ACTGTGATTC
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):
TA
Found at i:37101305 original size:2 final size:2
Alignment explanation
Indices: 37101298--37101328 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
37101288 TACTAAACTA
37101298 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
37101329 ACTGTGATTC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:37101598 original size:359 final size:357
Alignment explanation
Indices: 37100934--37101643 Score: 1402
Period size: 359 Copynumber: 2.0 Consensus size: 357
37100924 CTGATTACAC
37100934 AAACTATATATATATATATATATATATATATATATAACTGTGATTCAGCTTACTAGCTTACATCC
1 AAACTATATATATATATATATATATATATATATATAACTGTGATTCAGCTTACTAGCTTACATCC
37100999 AGGGGTGAAGACAGGAAAGGGATCCTCACTAGCTATAAACTAAAGAAGAATAGAGATTACAATTA
66 AGGGGTGAAGACAGGAAAGGGATCCTCACTAGCTATAAACTAAAGAAGAATAGAGATTACAATTA
37101064 TATGTGTAGTCAAATCTCTCCAACCTTAGCTAGAATCAGAGTCCAAACTAATAAAACCATCAGAA
131 TATGTGTAGTCAAATCTCTCCAACCTTAGCTAGAATCAGAGTCCAAACTAATAAAACCATCAGAA
37101129 GAGTAGCTACTTTTAATTCTTGTTTGCTGATCGAGTGGGATTAAACCCCTAATAATGAGTAGTTA
196 GAGTAGCTACTTTTAATTCTTGTTTGCTGATCGAGTGGGATTAAACCCCTAATAATGAGTAGTTA
37101194 CCCTCATAGTTTAATAAACTAGCAACCTAAAAAAATTTGATTGTAGACCTAGATGTCATGATACC
261 CCCTCATAGTTTAATAAACTAGCAACCTAAAAAAATTTGATTGTAGACCTAGATGTCATGATACC
37101259 TTGAACTCGACAAAATTGATCTAAACNTATACT
326 TTGAACTCGACAAAATTGATCTAAAC-TATACT
37101292 AAACTAATATATATATATATATATATATATATATATAACTGTGATTCAGCTTACTAGCTTACATC
1 AAACT-ATATATATATATATATATATATATATATATAACTGTGATTCAGCTTACTAGCTTACATC
37101357 CAGGGGTGAAGACAGGAAAGGGATCCTCACTAGCTATAAACTAAAGAAGAATAGAGATTACAATT
65 CAGGGGTGAAGACAGGAAAGGGATCCTCACTAGCTATAAACTAAAGAAGAATAGAGATTACAATT
37101422 ATATGTGTAGTCAAATCTCTCCAACCTTAGCTAGAATCAGAGTCCAAACTAATAAAACCATCAGA
130 ATATGTGTAGTCAAATCTCTCCAACCTTAGCTAGAATCAGAGTCCAAACTAATAAAACCATCAGA
37101487 AGAGTAGCTACTTTTAATTCTTGTTTGCTGATCGAGTGGGATTAAACCCCTAATAATGAGTAGTT
195 AGAGTAGCTACTTTTAATTCTTGTTTGCTGATCGAGTGGGATTAAACCCCTAATAATGAGTAGTT
37101552 ACCCTCATAGTTTAATAAACTAGCAACCTAAAAAAATTTGATTGTAGACCTAGATGTCATGATAC
260 ACCCTCATAGTTTAATAAACTAGCAACCTAAAAAAATTTGATTGTAGACCTAGATGTCATGATAC
37101617 CTTGAACTCGACAAAATTGATCTAAAC
325 CTTGAACTCGACAAAATTGATCTAAAC
37101644 AAATCGAACG
Statistics
Matches: 351, Mismatches: 0, Indels: 1
1.00 0.00 0.00
Matches are distributed among these distances:
358 5 0.01
359 346 0.99
ACGTcount: A:0.38, C:0.17, G:0.15, T:0.30
Consensus pattern (357 bp):
AAACTATATATATATATATATATATATATATATATAACTGTGATTCAGCTTACTAGCTTACATCC
AGGGGTGAAGACAGGAAAGGGATCCTCACTAGCTATAAACTAAAGAAGAATAGAGATTACAATTA
TATGTGTAGTCAAATCTCTCCAACCTTAGCTAGAATCAGAGTCCAAACTAATAAAACCATCAGAA
GAGTAGCTACTTTTAATTCTTGTTTGCTGATCGAGTGGGATTAAACCCCTAATAATGAGTAGTTA
CCCTCATAGTTTAATAAACTAGCAACCTAAAAAAATTTGATTGTAGACCTAGATGTCATGATACC
TTGAACTCGACAAAATTGATCTAAACTATACT
Found at i:37103371 original size:2 final size:2
Alignment explanation
Indices: 37103322--37103357 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
37103312 CATCAAAATG
37103322 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
37103358 CAAATAAGTA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:37104731 original size:7 final size:7
Alignment explanation
Indices: 37104715--37104748 Score: 59
Period size: 7 Copynumber: 4.9 Consensus size: 7
37104705 TATGTATATA
37104715 TGAAAGC
1 TGAAAGC
*
37104722 TGAAAAC
1 TGAAAGC
37104729 TGAAAGC
1 TGAAAGC
37104736 TGAAAGC
1 TGAAAGC
37104743 TGAAAG
1 TGAAAG
37104749 AAAAAATCAA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
7 25 1.00
ACGTcount: A:0.47, C:0.12, G:0.26, T:0.15
Consensus pattern (7 bp):
TGAAAGC
Found at i:37110089 original size:2 final size:2
Alignment explanation
Indices: 37110082--37110117 Score: 56
Period size: 2 Copynumber: 18.0 Consensus size: 2
37110072 AATGAGAGTT
37110082 GA GA GA GA GA GA GA GA GA -A GA GA GA GA GA TGA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA -GA GA GA
37110118 AGGTAAGGCC
Statistics
Matches: 32, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
1 1 0.03
2 29 0.91
3 2 0.06
ACGTcount: A:0.50, C:0.00, G:0.47, T:0.03
Consensus pattern (2 bp):
GA
Found at i:37110103 original size:11 final size:11
Alignment explanation
Indices: 37110082--37110117 Score: 56
Period size: 11 Copynumber: 3.4 Consensus size: 11
37110072 AATGAGAGTT
37110082 GAGAGAG-AGA
1 GAGAGAGAAGA
37110092 GAGAGAGAAGA
1 GAGAGAGAAGA
*
37110103 GAGAGAGATGA
1 GAGAGAGAAGA
37110114 GAGA
1 GAGA
37110118 AGGTAAGGCC
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
10 7 0.29
11 17 0.71
ACGTcount: A:0.50, C:0.00, G:0.47, T:0.03
Consensus pattern (11 bp):
GAGAGAGAAGA
Found at i:37111692 original size:2 final size:2
Alignment explanation
Indices: 37111685--37111715 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
37111675 TTTCTACATT
*
37111685 TA TA TA TA TA TA TA TA TA TA TA TA TT TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
37111716 TTCTCTTATA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (2 bp):
TA
Found at i:37112164 original size:20 final size:18
Alignment explanation
Indices: 37112116--37112164 Score: 53
Period size: 18 Copynumber: 2.6 Consensus size: 18
37112106 TAATTTAATT
* *
37112116 AAATTAAAAATATATAAA
1 AAATTAAAATTGTATAAA
*
37112134 AATTTAAAATTGTATAAA
1 AAATTAAAATTGTATAAA
37112152 ATAATTAATAATT
1 A-AATTAA-AATT
37112165 AATAAAATTA
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
18 16 0.64
19 5 0.20
20 4 0.16
ACGTcount: A:0.61, C:0.00, G:0.02, T:0.37
Consensus pattern (18 bp):
AAATTAAAATTGTATAAA
Found at i:37115119 original size:15 final size:15
Alignment explanation
Indices: 37115087--37115134 Score: 51
Period size: 15 Copynumber: 3.2 Consensus size: 15
37115077 CAGTAACACC
*
37115087 TTATTACCTATGGCA
1 TTATTACCTAAGGCA
* *
37115102 TTATTGCCTAAGGTA
1 TTATTACCTAAGGCA
* *
37115117 TTACTACTTAAGGCA
1 TTATTACCTAAGGCA
37115132 TTA
1 TTA
37115135 CTACTTAAGA
Statistics
Matches: 26, Mismatches: 7, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
15 26 1.00
ACGTcount: A:0.29, C:0.17, G:0.15, T:0.40
Consensus pattern (15 bp):
TTATTACCTAAGGCA
Found at i:37115135 original size:15 final size:15
Alignment explanation
Indices: 37115110--37115143 Score: 59
Period size: 15 Copynumber: 2.3 Consensus size: 15
37115100 CATTATTGCC
*
37115110 TAAGGTATTACTACT
1 TAAGGCATTACTACT
37115125 TAAGGCATTACTACT
1 TAAGGCATTACTACT
37115140 TAAG
1 TAAG
37115144 ATGTGATCGT
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:0.15, G:0.15, T:0.35
Consensus pattern (15 bp):
TAAGGCATTACTACT
Found at i:37115443 original size:35 final size:35
Alignment explanation
Indices: 37115337--37115452 Score: 124
Period size: 35 Copynumber: 3.3 Consensus size: 35
37115327 TAATGAGAAA
* * * **
37115337 AACTAGAAGAAGTGAAGCACTGCTTCACATAAAAC
1 AACTAAAATAAGTGAAGCACTACTTCACGCAAAAC
** *
37115372 AACTAAACCAAGTGAAACACTACTTCACGCAAAAC
1 AACTAAAATAAGTGAAGCACTACTTCACGCAAAAC
* *
37115407 AACTAAAATAAGTGAAGCACTACTTCATGCAGAAC
1 AACTAAAATAAGTGAAGCACTACTTCACGCAAAAC
* *
37115442 AATTAGAATAA
1 AACTAAAATAA
37115453 ATGGTGCACT
Statistics
Matches: 67, Mismatches: 14, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
35 67 1.00
ACGTcount: A:0.48, C:0.21, G:0.13, T:0.18
Consensus pattern (35 bp):
AACTAAAATAAGTGAAGCACTACTTCACGCAAAAC
Found at i:37115462 original size:35 final size:35
Alignment explanation
Indices: 37115384--37115482 Score: 99
Period size: 35 Copynumber: 2.8 Consensus size: 35
37115374 CTAAACCAAG
* * * * *
37115384 TGAAACACTACTTCACGCAAAACAACTAAAATAAG
1 TGAAGCACTACTTCATGCAGAACAATTAAAATAAA
*
37115419 TGAAGCACTACTTCATGCAGAACAATTAGAATAAA
1 TGAAGCACTACTTCATGCAGAACAATTAAAATAAA
** * **
37115454 TGGTGCACTACTCCATGTGGAACAATTAA
1 TGAAGCACTACTTCATGCAGAACAATTAA
37115483 TACAAGTGGA
Statistics
Matches: 52, Mismatches: 12, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
35 52 1.00
ACGTcount: A:0.43, C:0.20, G:0.14, T:0.22
Consensus pattern (35 bp):
TGAAGCACTACTTCATGCAGAACAATTAAAATAAA
Found at i:37115723 original size:29 final size:28
Alignment explanation
Indices: 37115691--37115754 Score: 94
Period size: 29 Copynumber: 2.3 Consensus size: 28
37115681 TCACCTTTAC
*
37115691 CTTATTCTCTTCTACCTGTTCACATACA
1 CTTATTCTCTTCTACCTATTCACATACA
*
37115719 GCTTATTCTCTTGTACCTATTCACATACA
1 -CTTATTCTCTTCTACCTATTCACATACA
37115748 CTT-TTCT
1 CTTATTCT
37115755 TTTTAAGTTG
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
27 4 0.12
28 3 0.09
29 26 0.79
ACGTcount: A:0.20, C:0.30, G:0.05, T:0.45
Consensus pattern (28 bp):
CTTATTCTCTTCTACCTATTCACATACA
Found at i:37118291 original size:2 final size:2
Alignment explanation
Indices: 37118284--37118311 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
37118274 CAAAAGAAAG
37118284 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
37118312 TTATTCTTTT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:37124075 original size:495 final size:495
Alignment explanation
Indices: 37123144--37124050 Score: 1250
Period size: 495 Copynumber: 1.8 Consensus size: 495
37123134 AAAAAAAAAA
* *
37123144 TAGATATCATGACATAGCAAAGATATCATCTATTATGCTTGGTACTATAGGACCCCAAATCAAGG
1 TAGATATCATGACATAGCAAAGACATCATCTATTATGCTTGGTACCATAGGACCCCAAATCAAGG
* ** *
37123209 ATATTGGGCATTATGCCTGGAATCATAACACTACAAATCCAAGATAATTAAGTAATGGATATTAA
66 ATATTGGGCATTATGCCTGGAATCATAACACTACAAATCAAAGATAATTAAACAATGGATATCAA
* *
37123274 GCAGATATCACAACAAATCAAGGATATCAAGCATTATAATTGGAATTGGAACACCTCATATAAAG
131 GCAGATATCACAACAAATCAAGGATATCAAGCACTATAATTGGAAATGGAACACCTCATATAAAG
*
37123339 GATATCAAGCATTATGCTTAGAAACGTTGCACTACAATTAAAGGATATAATTAAGCAATATCAAG
196 GATATCAAGCATTATGCTTAGAAACGTTGCACTACAAATAAAGGATATAATTAAGCAATATCAAG
* * * *
37123404 GATATTATCTATTATTCTTGGAACCGTAGTACCCTAGATCAAAGATATCGAACATTAGGCTTGGA
261 GATATCATCTATTATGCTTGGAACCGTAGTACCCTAGATCAAAGATATCGAACATAAGGATTGGA
* * * * * **
37123469 AGCGTAGCACTTTAGATCAAGGATATCAAGCATAATGATTTGACCTATATCATTATAGATCATGG
326 AGCGTAGCACTATAAATCAAGAATATCAAGCATAATGATTGGACCTATATCACTATAGATCAACG
* * * *
37123534 ATATCAAGTATTATGCTTGGTACCATAACACCCAAGATCGAGGATATCATCTATTATGCTTGGAA
391 ATATCAACTATTATGCTTGGAACCATAACACACAAGATCAAGGATATCATCTATTATGCTTGGAA
37123599 TTGCAGTCCTATAGATTAAGGATATTTAGTGGATATCAAG
456 TTGCAGTCCTATAGATTAAGGATATTTAGTGGATATCAAG
* *
37123639 TAGATATCATGACATAGCAAGGACATCATTTATTATGCTTGGTACCATAGGACCCCAAATCAAGG
1 TAGATATCATGACATAGCAAAGACATCATCTATTATGCTTGGTACCATAGGACCCCAAATCAAGG
* ** * * *
37123704 ATATTGGGCATTATGCTTGGAATCATCGCACTACAAATGAAAGATAATTAAACATTGGATATCAG
66 ATATTGGGCATTATGCCTGGAATCATAACACTACAAATCAAAGATAATTAAACAATGGATATCAA
* * * * *
37123769 GTAGATATCACGAA-AAATCAAGGATATCAAGCACTATAATTGGAAATGTAGCATCTCATATCAA
131 GCAGATATCAC-AACAAATCAAGGATATCAAGCACTATAATTGGAAATGGAACACCTCATATAAA
* * * *
37123833 GTATATTAAGCATTATGCTTGGAAACGTTGCTCTACAAATAAAGGATATAATTAAGCAATATCAA
195 GGATATCAAGCATTATGCTTAGAAACGTTGCACTACAAATAAAGGATATAATTAAGCAATATCAA
* * * * *
37123898 GGATATCATCTATTATGCTTGGCACTGTAGTACCCTAGATCAAGGATATC-AAGCATAATGATTT
260 GGATATCATCTATTATGCTTGGAACCGTAGTACCCTAGATCAAAGATATCGAA-CATAAGGATTG
* * * * *
37123962 GAA-CTGTATCGCTATAAATCAAGAATATCAAGCATTAT-ACTTGGTACCGTA-AT-ACTCTATA
324 GAAGC-GTAGCACTATAAATCAAGAATATCAAGCATAATGA-TTGG-ACC-TATATCACTATAGA
*
37124023 TCAACGATATCATCTATTATGCTTGGAA
385 TCAACGATATCAACTATTATGCTTGGAA
37124051 TTATGGGACT
Statistics
Matches: 356, Mismatches: 50, Indels: 12
0.85 0.12 0.03
Matches are distributed among these distances:
494 4 0.01
495 343 0.96
496 7 0.02
497 2 0.01
ACGTcount: A:0.38, C:0.16, G:0.17, T:0.29
Consensus pattern (495 bp):
TAGATATCATGACATAGCAAAGACATCATCTATTATGCTTGGTACCATAGGACCCCAAATCAAGG
ATATTGGGCATTATGCCTGGAATCATAACACTACAAATCAAAGATAATTAAACAATGGATATCAA
GCAGATATCACAACAAATCAAGGATATCAAGCACTATAATTGGAAATGGAACACCTCATATAAAG
GATATCAAGCATTATGCTTAGAAACGTTGCACTACAAATAAAGGATATAATTAAGCAATATCAAG
GATATCATCTATTATGCTTGGAACCGTAGTACCCTAGATCAAAGATATCGAACATAAGGATTGGA
AGCGTAGCACTATAAATCAAGAATATCAAGCATAATGATTGGACCTATATCACTATAGATCAACG
ATATCAACTATTATGCTTGGAACCATAACACACAAGATCAAGGATATCATCTATTATGCTTGGAA
TTGCAGTCCTATAGATTAAGGATATTTAGTGGATATCAAG
Found at i:37125139 original size:16 final size:16
Alignment explanation
Indices: 37125120--37125160 Score: 55
Period size: 16 Copynumber: 2.6 Consensus size: 16
37125110 GTATAGATAT
*
37125120 ATACATACATATGTAC
1 ATACATACATATATAC
*
37125136 ATACAAACATATATAC
1 ATACATACATATATAC
*
37125152 ATATATACA
1 ATACATACA
37125161 CAAAAGATGT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.51, C:0.17, G:0.02, T:0.29
Consensus pattern (16 bp):
ATACATACATATATAC
Found at i:37132856 original size:19 final size:19
Alignment explanation
Indices: 37132832--37132929 Score: 56
Period size: 19 Copynumber: 5.1 Consensus size: 19
37132822 TGCCCGTGTG
37132832 CACGATGTGGGGGGATGTA
1 CACGATGTGGGGGGATGTA
**** *
37132851 CACGATG-GCACTGATTGTG
1 CACGATGTGGGGGGA-TGTA
*
37132870 CACGATGT-GGGGGATGCA
1 CACGATGTGGGGGGATGTA
* * ** *
37132888 CATGATGGTGCCGGCTATGTG
1 CACGAT-GTG-GGGGGATGTA
37132909 CACGATGTGGGGGGATGTA
1 CACGATGTGGGGGGATGTA
37132928 CA
1 CA
37132930 TGAGCCGGGA
Statistics
Matches: 52, Mismatches: 22, Indels: 10
0.62 0.26 0.12
Matches are distributed among these distances:
18 10 0.19
19 29 0.56
20 3 0.06
21 10 0.19
ACGTcount: A:0.20, C:0.16, G:0.41, T:0.22
Consensus pattern (19 bp):
CACGATGTGGGGGGATGTA
Found at i:37133305 original size:21 final size:21
Alignment explanation
Indices: 37133263--37133305 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
37133253 GGTAATAATT
* **
37133263 TCGCTGCAGCAAAATTCATTC
1 TCGCTACAGCAAAAAACATTC
*
37133284 TCGCTACAGCAAAAAACTTTC
1 TCGCTACAGCAAAAAACATTC
37133305 T
1 T
37133306 GTTTTGTCTC
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.33, C:0.28, G:0.12, T:0.28
Consensus pattern (21 bp):
TCGCTACAGCAAAAAACATTC
Found at i:37134691 original size:30 final size:29
Alignment explanation
Indices: 37134590--37134692 Score: 75
Period size: 30 Copynumber: 3.5 Consensus size: 29
37134580 AAAAAAATCA
* **
37134590 AATAAACCCTTATACTTTTATTAT-GTTT
1 AATAAACCCTTATACTTTTATTTTAGTCC
* * *
37134618 AATCAAGCCCTTGTGCTTTTATTTTTAG-CC
1 AAT-AAACCCTTATACTTTTA-TTTTAGTCC
** *
37134648 AAATAAAATCTTATACTTTTATTTTGAGTGC
1 -AATAAACCCTTATACTTTTATTTT-AGTCC
37134679 AATAAACCCTTATA
1 AATAAACCCTTATA
37134693 TCTAATAATT
Statistics
Matches: 55, Mismatches: 14, Indels: 10
0.70 0.18 0.13
Matches are distributed among these distances:
28 3 0.05
29 18 0.33
30 29 0.53
31 5 0.09
ACGTcount: A:0.32, C:0.17, G:0.08, T:0.44
Consensus pattern (29 bp):
AATAAACCCTTATACTTTTATTTTAGTCC
Found at i:37140744 original size:38 final size:38
Alignment explanation
Indices: 37140672--37140744 Score: 119
Period size: 38 Copynumber: 1.9 Consensus size: 38
37140662 TTTATACTTA
* * *
37140672 ACTTGGTTTTTTTCCCACTTTGGGCCCTTGAACTTGTT
1 ACTTGGTTTTTCTCCCACTTTGGGCCCCTCAACTTGTT
37140710 ACTTGGTTTTTCTCCCACTTTGGGCCCCTCAACTT
1 ACTTGGTTTTTCTCCCACTTTGGGCCCCTCAACTT
37140745 TCAGAGTTTT
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
38 32 1.00
ACGTcount: A:0.11, C:0.29, G:0.16, T:0.44
Consensus pattern (38 bp):
ACTTGGTTTTTCTCCCACTTTGGGCCCCTCAACTTGTT
Found at i:37163153 original size:62 final size:62
Alignment explanation
Indices: 37163029--37163162 Score: 155
Period size: 62 Copynumber: 2.2 Consensus size: 62
37163019 AAACAATTTT
* ** *
37163029 TACTAACCCACACCATAATCATGAAGAATTTCTACACACCCATCAACAATTAAGCAACATTC
1 TACTAACCCACAACATAATCATGAAGAATTTCTACACACCCATCAACAAGCAAGCAAAATTC
* * **
37163091 TACTAACCCACAACATAATCATTAAGAA-TTCTGACACACTCATCATTAAGCACA-CAAAATTC
1 TACTAACCCACAACATAATCATGAAGAATTTCT-ACACACCCATCAACAAGCA-AGCAAAATTC
*
37163153 TACTTACCCA
1 TACTAACCCA
37163163 ACTTAAATTG
Statistics
Matches: 61, Mismatches: 9, Indels: 4
0.82 0.12 0.05
Matches are distributed among these distances:
61 4 0.07
62 56 0.92
63 1 0.02
ACGTcount: A:0.42, C:0.30, G:0.04, T:0.24
Consensus pattern (62 bp):
TACTAACCCACAACATAATCATGAAGAATTTCTACACACCCATCAACAAGCAAGCAAAATTC
Found at i:37173772 original size:23 final size:23
Alignment explanation
Indices: 37173721--37173765 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
37173711 GATAAAAACT
*
37173721 CTTTTATAAATCAAACATAAAAG
1 CTTTTAGAAATCAAACATAAAAG
*
37173744 CTTTTAGAAATCAAGCA-AAAAG
1 CTTTTAGAAATCAAACATAAAAG
37173766 AGTTTTAAGT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
22 5 0.25
23 15 0.75
ACGTcount: A:0.51, C:0.13, G:0.09, T:0.27
Consensus pattern (23 bp):
CTTTTAGAAATCAAACATAAAAG
Found at i:37173802 original size:184 final size:186
Alignment explanation
Indices: 37173454--37173820 Score: 576
Period size: 184 Copynumber: 2.0 Consensus size: 186
37173444 CATTTAGCTT
37173454 AAAGGAATAAACTCAAGAGGGGGGCAAACTGAGTATTTGAAATATCTTTGAAAAATCCCCCTTTT
1 AAAGGAATAAACTCAAGAGGGGGGCAAACTGAGTATTTGAAATATCTTTGAAAAATCCCCCTTTT
*
37173519 TAAGCAAGATAAAAACCTCTTTTGTAAATCAAACACAAAAGCCATTAGAAATCAAGCAAAAAGAG
66 TAAGCAAGATAAAAACCTCTTTTATAAATCAAACACAAAAGCCATTAGAAATCAAGCAAAAAGAG
* *
37173584 TTTTGAGCGTCCTTCGTTGGAAAGCTTTGAAATGATGAGCAAGTAAGAAAATCCTC
131 TTTTAAGCGTCCTTCGCTGGAAAGCTTTGAAATGATGAGCAAGTAAGAAAATCCTC
* * *
37173640 AAAGGAATAAACTCAATA-GGGGGTAAACTGAGTATTTGAAATTTCTTTGAAAAATCCCCCTTTT
1 AAAGGAATAAACTCAAGAGGGGGGCAAACTGAGTATTTGAAATATCTTTGAAAAATCCCCCTTTT
* * **
37173704 TGAGCAAGATAAAAA-CTCTTTTATAAATCAAACATAAAAGCTTTTAGAAATCAAGCAAAAAGAG
66 TAAGCAAGATAAAAACCTCTTTTATAAATCAAACACAAAAGCCATTAGAAATCAAGCAAAAAGAG
* ** * * *
37173768 TTTTAAGTGTTTTTTGCTGGAAATCTTTGAAATGATGTGCAAGTAAGAAAATC
131 TTTTAAGCGTCCTTCGCTGGAAAGCTTTGAAATGATGAGCAAGTAAGAAAATC
37173821 AAGCAAGTAC
Statistics
Matches: 165, Mismatches: 16, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
184 90 0.55
185 58 0.35
186 17 0.10
ACGTcount: A:0.41, C:0.14, G:0.17, T:0.28
Consensus pattern (186 bp):
AAAGGAATAAACTCAAGAGGGGGGCAAACTGAGTATTTGAAATATCTTTGAAAAATCCCCCTTTT
TAAGCAAGATAAAAACCTCTTTTATAAATCAAACACAAAAGCCATTAGAAATCAAGCAAAAAGAG
TTTTAAGCGTCCTTCGCTGGAAAGCTTTGAAATGATGAGCAAGTAAGAAAATCCTC
Found at i:37174296 original size:2 final size:2
Alignment explanation
Indices: 37174289--37174328 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
37174279 TGTGCATCAA
37174289 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
37174329 TAATGAAAGA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:37183121 original size:15 final size:16
Alignment explanation
Indices: 37183101--37183131 Score: 55
Period size: 15 Copynumber: 2.0 Consensus size: 16
37183091 AACAAAAATT
37183101 AAAAATAAA-ACTAAA
1 AAAAATAAATACTAAA
37183116 AAAAATAAATACTAAA
1 AAAAATAAATACTAAA
37183132 GTAAGCTAAG
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 9 0.60
16 6 0.40
ACGTcount: A:0.77, C:0.06, G:0.00, T:0.16
Consensus pattern (16 bp):
AAAAATAAATACTAAA
Found at i:37188232 original size:25 final size:25
Alignment explanation
Indices: 37188169--37188233 Score: 103
Period size: 26 Copynumber: 2.6 Consensus size: 25
37188159 TTCAAGTTTG
37188169 GGGGCATCAAATACATATATTTAAT
1 GGGGCATCAAATACATATATTTAAT
*
37188194 GTGTGCATCAAATACATATATTTAAT
1 G-GGGCATCAAATACATATATTTAAT
*
37188220 GGGGCATTAAATAC
1 GGGGCATCAAATAC
37188234 CTAATTAGGC
Statistics
Matches: 36, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
25 12 0.33
26 24 0.67
ACGTcount: A:0.38, C:0.12, G:0.17, T:0.32
Consensus pattern (25 bp):
GGGGCATCAAATACATATATTTAAT
Found at i:37188329 original size:19 final size:20
Alignment explanation
Indices: 37188301--37188356 Score: 60
Period size: 20 Copynumber: 2.9 Consensus size: 20
37188291 TATTAGTTTA
*
37188301 GTTTAATTTATGTTTA-AAT
1 GTTTATTTTATGTTTATAAT
* *
37188320 GTTTATTTTAAGTTAATAAT
1 GTTTATTTTATGTTTATAAT
* *
37188340 GTTAATTTTATTTTTAT
1 GTTTATTTTATGTTTAT
37188357 TTTTAAGATT
Statistics
Matches: 29, Mismatches: 7, Indels: 1
0.78 0.19 0.03
Matches are distributed among these distances:
19 13 0.45
20 16 0.55
ACGTcount: A:0.30, C:0.00, G:0.09, T:0.61
Consensus pattern (20 bp):
GTTTATTTTATGTTTATAAT
Found at i:37190661 original size:33 final size:33
Alignment explanation
Indices: 37190617--37190715 Score: 126
Period size: 33 Copynumber: 3.0 Consensus size: 33
37190607 ACAACCCTTA
* *
37190617 CACTTACTTTTTCAAGGATTAAGCAAAACCTAT
1 CACTTCCTTTTTCAAGGATCAAGCAAAACCTAT
** * *
37190650 CACTTTTTTTTTCAAGTATCAAGCAATACCTAT
1 CACTTCCTTTTTCAAGGATCAAGCAAAACCTAT
* *
37190683 CACTTCCTTTTTCAAGGATCAATCAGAACCTAT
1 CACTTCCTTTTTCAAGGATCAAGCAAAACCTAT
37190716 ACAACTATCT
Statistics
Matches: 55, Mismatches: 11, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
33 55 1.00
ACGTcount: A:0.32, C:0.23, G:0.08, T:0.36
Consensus pattern (33 bp):
CACTTCCTTTTTCAAGGATCAAGCAAAACCTAT
Found at i:37192029 original size:16 final size:15
Alignment explanation
Indices: 37192008--37192041 Score: 59
Period size: 16 Copynumber: 2.2 Consensus size: 15
37191998 AAGATAGCTT
37192008 AAAAGCATGGTGGTAA
1 AAAAGCATGGTGG-AA
37192024 AAAAGCATGGTGGAA
1 AAAAGCATGGTGGAA
37192039 AAA
1 AAA
37192042 TGTGAATTGT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
15 5 0.28
16 13 0.72
ACGTcount: A:0.50, C:0.06, G:0.29, T:0.15
Consensus pattern (15 bp):
AAAAGCATGGTGGAA
Found at i:37196564 original size:20 final size:20
Alignment explanation
Indices: 37196541--37196608 Score: 100
Period size: 20 Copynumber: 3.4 Consensus size: 20
37196531 ATCGACAAAG
37196541 GATGAATTCCATTGGTAATT
1 GATGAATTCCATTGGTAATT
*
37196561 GATGAATCCCATTGGTAATT
1 GATGAATTCCATTGGTAATT
* * *
37196581 AATGAATTCCATCGGTAATG
1 GATGAATTCCATTGGTAATT
37196601 GATGAATT
1 GATGAATT
37196609 TTGTCTGCAA
Statistics
Matches: 42, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 42 1.00
ACGTcount: A:0.32, C:0.12, G:0.21, T:0.35
Consensus pattern (20 bp):
GATGAATTCCATTGGTAATT
Found at i:37200041 original size:8 final size:8
Alignment explanation
Indices: 37200028--37200057 Score: 51
Period size: 8 Copynumber: 3.8 Consensus size: 8
37200018 CTAATTTATG
37200028 TAATTACT
1 TAATTACT
*
37200036 TAATTACC
1 TAATTACT
37200044 TAATTACT
1 TAATTACT
37200052 TAATTA
1 TAATTA
37200058 ATTGCTTATA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
8 20 1.00
ACGTcount: A:0.40, C:0.13, G:0.00, T:0.47
Consensus pattern (8 bp):
TAATTACT
Found at i:37207209 original size:7 final size:7
Alignment explanation
Indices: 37207197--37207226 Score: 60
Period size: 7 Copynumber: 4.3 Consensus size: 7
37207187 ATTATAATTG
37207197 TTTATTT
1 TTTATTT
37207204 TTTATTT
1 TTTATTT
37207211 TTTATTT
1 TTTATTT
37207218 TTTATTT
1 TTTATTT
37207225 TT
1 TT
37207227 GCTTTTGAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 23 1.00
ACGTcount: A:0.13, C:0.00, G:0.00, T:0.87
Consensus pattern (7 bp):
TTTATTT
Found at i:37208214 original size:26 final size:26
Alignment explanation
Indices: 37208178--37208232 Score: 83
Period size: 26 Copynumber: 2.1 Consensus size: 26
37208168 TTTGTATTAA
* *
37208178 TCACATTAAGTAAATACAAGAAGAGT
1 TCACATCAAGTAAATACAAAAAGAGT
*
37208204 TCACATCAAGTAAATATAAAAAGAGT
1 TCACATCAAGTAAATACAAAAAGAGT
37208230 TCA
1 TCA
37208233 GCCAGAAGCA
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.51, C:0.13, G:0.13, T:0.24
Consensus pattern (26 bp):
TCACATCAAGTAAATACAAAAAGAGT
Found at i:37222358 original size:35 final size:34
Alignment explanation
Indices: 37222315--37222381 Score: 98
Period size: 35 Copynumber: 1.9 Consensus size: 34
37222305 TAGTTGTCCC
*
37222315 GCATAAGTAGTGCTTCACTTGCTCTAGTTGTTTT
1 GCATAAGTAGTGCTTCACTTGCTCTAATTGTTTT
* *
37222349 GCATGAAGTAGTGTTTCACTTGTTCTAATTGTT
1 GCAT-AAGTAGTGCTTCACTTGCTCTAATTGTT
37222382 CTCATTATTT
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
34 4 0.14
35 25 0.86
ACGTcount: A:0.19, C:0.15, G:0.21, T:0.45
Consensus pattern (34 bp):
GCATAAGTAGTGCTTCACTTGCTCTAATTGTTTT
Found at i:37224079 original size:14 final size:13
Alignment explanation
Indices: 37224060--37224089 Score: 51
Period size: 14 Copynumber: 2.2 Consensus size: 13
37224050 GACCCAATTC
37224060 TTTCTTTTTCTTTT
1 TTTCTTTTT-TTTT
37224074 TTTCTTTTTTTTT
1 TTTCTTTTTTTTT
37224087 TTT
1 TTT
37224090 GGCGTTTTAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 7 0.44
14 9 0.56
ACGTcount: A:0.00, C:0.10, G:0.00, T:0.90
Consensus pattern (13 bp):
TTTCTTTTTTTTT
Found at i:37238529 original size:22 final size:23
Alignment explanation
Indices: 37238490--37238536 Score: 62
Period size: 22 Copynumber: 2.1 Consensus size: 23
37238480 ATTTTTATGC
37238490 ATTACTACAAAAACTAAG-CCAA
1 ATTACTACAAAAACTAAGCCCAA
*
37238512 ATTACTATC-AAAATTAAGCCCAA
1 ATTACTA-CAAAAACTAAGCCCAA
37238535 AT
1 AT
37238537 AACTCTATAT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
22 15 0.68
23 7 0.32
ACGTcount: A:0.51, C:0.21, G:0.04, T:0.23
Consensus pattern (23 bp):
ATTACTACAAAAACTAAGCCCAA
Found at i:37239591 original size:22 final size:22
Alignment explanation
Indices: 37239564--37239607 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
37239554 TTGTTCCTAA
37239564 TAATAAAGGTGAACAAAGATGC
1 TAATAAAGGTGAACAAAGATGC
*
37239586 TAATAAAGGTGAACAAGGATGC
1 TAATAAAGGTGAACAAAGATGC
37239608 ATTTGAAGTC
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.48, C:0.09, G:0.25, T:0.18
Consensus pattern (22 bp):
TAATAAAGGTGAACAAAGATGC
Found at i:37256214 original size:46 final size:44
Alignment explanation
Indices: 37256137--37256241 Score: 124
Period size: 46 Copynumber: 2.3 Consensus size: 44
37256127 ATTTGTTCCA
37256137 ATTA-TATTATTTTTAATTTTTTATTATTTATTTATTTT-TCACTT
1 ATTATTATTATTTTT-ATTTTTTATTATTTATTT-TTTTATCACTT
* **
37256181 ATTATTATTATTATTTATTATTTTATTTTTTATTTTTTTATCTTTT
1 ATTATTATTATT-TTTATT-TTTTATTATTTATTTTTTTATCACTT
*
37256227 ATTATTTTTATTTTT
1 ATTATTATTATTTTT
37256242 TAAAAAAAAA
Statistics
Matches: 53, Mismatches: 4, Indels: 7
0.83 0.06 0.11
Matches are distributed among these distances:
44 4 0.08
45 17 0.32
46 32 0.60
ACGTcount: A:0.23, C:0.03, G:0.00, T:0.74
Consensus pattern (44 bp):
ATTATTATTATTTTTATTTTTTATTATTTATTTTTTTATCACTT
Found at i:37256241 original size:7 final size:7
Alignment explanation
Indices: 37256143--37256243 Score: 69
Period size: 7 Copynumber: 13.4 Consensus size: 7
37256133 TCCAATTATA
37256143 TTATTTT
1 TTATTTT
*
37256150 TAATTTT
1 TTATTTT
*
37256157 TTATTAT
1 TTATTTT
37256164 TTATTTAT
1 TTATTT-T
**
37256172 TT-TTCAC
1 TTATT-TT
37256179 TTATTATT
1 TTATT-TT
*
37256187 ATTATTAT
1 -TTATTTT
37256195 TTATTATT
1 TTATT-TT
37256203 TTATTTT
1 TTATTTT
37256210 TTATTTTT
1 TTA-TTTT
*
37256218 TTATCTT
1 TTATTTT
37256225 TTATTATTT
1 TTA-T-TTT
37256234 TTATTTT
1 TTATTTT
37256241 TTA
1 TTA
37256244 AAAAAAAATA
Statistics
Matches: 73, Mismatches: 13, Indels: 16
0.72 0.13 0.16
Matches are distributed among these distances:
7 42 0.58
8 21 0.29
9 10 0.14
ACGTcount: A:0.22, C:0.03, G:0.00, T:0.75
Consensus pattern (7 bp):
TTATTTT
Done.