Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A07
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: 92880876
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2857347 characters in sequence are not A, C, G, or T
File 196 of 290
Found at i:62793014 original size:5 final size:5
Alignment explanation
Indices: 62793004--62793036 Score: 66
Period size: 5 Copynumber: 6.6 Consensus size: 5
62792994 CTAATTTTTG
62793004 AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAA
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAA
62793037 TAACACACAG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 28 1.00
ACGTcount: A:0.82, C:0.00, G:0.00, T:0.18
Consensus pattern (5 bp):
AAAAT
Found at i:62796387 original size:14 final size:12
Alignment explanation
Indices: 62796358--62796404 Score: 53
Period size: 11 Copynumber: 3.9 Consensus size: 12
62796348 AATATACTAA
62796358 AAATATTAAAAT
1 AAATATTAAAAT
62796370 AAATATTTATAAAT
1 AAATA-TTA-AAAT
*
62796384 AAAT-TGAAAAT
1 AAATATTAAAAT
62796395 AAAT-TTAAAA
1 AAATATTAAAA
62796405 AATTATTTAT
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
11 13 0.42
12 7 0.23
13 3 0.10
14 8 0.26
ACGTcount: A:0.64, C:0.00, G:0.02, T:0.34
Consensus pattern (12 bp):
AAATATTAAAAT
Found at i:62800167 original size:7 final size:7
Alignment explanation
Indices: 62800155--62800179 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
62800145 AGATTATGAT
62800155 GGGCATA
1 GGGCATA
62800162 GGGCATA
1 GGGCATA
62800169 GGGCATA
1 GGGCATA
62800176 GGGC
1 GGGC
62800180 TGACAGACGC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.24, C:0.16, G:0.48, T:0.12
Consensus pattern (7 bp):
GGGCATA
Found at i:62800638 original size:17 final size:17
Alignment explanation
Indices: 62800618--62800675 Score: 64
Period size: 17 Copynumber: 3.4 Consensus size: 17
62800608 TGAAAATTGA
62800618 TATAAACTTA-AAAAAAT
1 TATAAA-TTACAAAAAAT
**
62800635 TATAAAAAACATAAAAAT
1 TATAAATTACA-AAAAAT
*
62800653 TATAAATTATAAAAAAT
1 TATAAATTACAAAAAAT
62800670 TATAAA
1 TATAAA
62800676 ATTAGTAAAA
Statistics
Matches: 34, Mismatches: 5, Indels: 4
0.79 0.12 0.09
Matches are distributed among these distances:
16 1 0.03
17 19 0.56
18 14 0.41
ACGTcount: A:0.67, C:0.03, G:0.00, T:0.29
Consensus pattern (17 bp):
TATAAATTACAAAAAAT
Found at i:62800643 original size:10 final size:10
Alignment explanation
Indices: 62800579--62800676 Score: 68
Period size: 10 Copynumber: 10.3 Consensus size: 10
62800569 TTTTTTCCAT
62800579 AAAAATTATAA
1 AAAAATTAT-A
*
62800590 AAAAATAATA
1 AAAAATTATA
62800600 AAAGAA-TAT-
1 AAA-AATTATA
*
62800609 GAAAATTGATA
1 AAAAATT-ATA
* *
62800620 TAAACTTA-A
1 AAAAATTATA
62800629 AAAAATTATA
1 AAAAATTATA
*
62800639 AAAAA-CAT-
1 AAAAATTATA
62800647 AAAAATTAT-
1 AAAAATTATA
62800656 --AAATTATA
1 AAAAATTATA
62800664 AAAAATTATA
1 AAAAATTATA
62800674 AAA
1 AAA
62800677 TTAGTAAAAT
Statistics
Matches: 69, Mismatches: 9, Indels: 19
0.71 0.09 0.20
Matches are distributed among these distances:
7 7 0.10
8 7 0.10
9 14 0.20
10 26 0.38
11 15 0.22
ACGTcount: A:0.68, C:0.02, G:0.03, T:0.27
Consensus pattern (10 bp):
AAAAATTATA
Found at i:62800676 original size:25 final size:26
Alignment explanation
Indices: 62800631--62800689 Score: 77
Period size: 25 Copynumber: 2.3 Consensus size: 26
62800621 AAACTTAAAA
62800631 AAATTATAAAAAACATAAAAATTA-T
1 AAATTATAAAAAACATAAAAATTAGT
*
62800656 AAATTATAAAAAA-TTATAAAATTAGT
1 AAATTATAAAAAACATA-AAAATTAGT
*
62800682 AAAATATA
1 AAATTATA
62800690 TTTAAATTTT
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
24 2 0.07
25 20 0.67
26 8 0.27
ACGTcount: A:0.66, C:0.02, G:0.02, T:0.31
Consensus pattern (26 bp):
AAATTATAAAAAACATAAAAATTAGT
Found at i:62800790 original size:19 final size:19
Alignment explanation
Indices: 62800768--62800810 Score: 50
Period size: 19 Copynumber: 2.3 Consensus size: 19
62800758 TTTAAAGTAT
* * *
62800768 TAAAACTAATATAAATTTA
1 TAAAAATAATAAAAAATTA
*
62800787 TAAAAATTATAAAAAATTA
1 TAAAAATAATAAAAAATTA
62800806 TAAAA
1 TAAAA
62800811 TCTTAAATTG
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.65, C:0.02, G:0.00, T:0.33
Consensus pattern (19 bp):
TAAAAATAATAAAAAATTA
Found at i:62800811 original size:8 final size:9
Alignment explanation
Indices: 62800577--62800810 Score: 75
Period size: 9 Copynumber: 24.7 Consensus size: 9
62800567 TATTTTTTCC
62800577 ATAAAAATT
1 ATAAAAATT
*
62800586 ATAAAAAAATA
1 AT--AAAAATT
*
62800597 ATAAAAGAAT
1 ATAAAA-ATT
*
62800607 ATGAAAATT
1 ATAAAAATT
*
62800616 GATATAAACTT
1 -ATA-AAAATT
*
62800627 AAAAAAATT
1 ATAAAAATT
**
62800636 ATAAAAAAC
1 ATAAAAATT
62800645 ATAAAAATT
1 ATAAAAATT
62800654 AT--AAATT
1 ATAAAAATT
62800661 ATAAAAAATT
1 AT-AAAAATT
62800671 AT-AAAATT
1 ATAAAAATT
62800679 AGTAAAATATAT
1 A-TAAAA-AT-T
* **
62800691 TTAAATTTTT
1 ATAAA-AATT
**
62800701 ATAAAAGCGT
1 ATAAAA-ATT
*
62800711 ATTAAAATTCT
1 A-TAAAAAT-T
* *
62800722 TTAAAAATC
1 ATAAAAATT
62800731 ATAAAAGATT
1 ATAAAA-ATT
*
62800741 ATAAAAAGT
1 ATAAAAATT
**
62800750 ATTTAAATT
1 ATAAAAATT
* *
62800759 TTAAAGTATT
1 ATAAA-AATT
62800769 A-AAACTAA-T
1 ATAAA--AATT
*
62800778 AT-AAATTT
1 ATAAAAATT
62800786 ATAAAAATT
1 ATAAAAATT
62800795 ATAAAAAATT
1 AT-AAAAATT
62800805 ATAAAA
1 ATAAAA
62800811 TCTTAAATTG
Statistics
Matches: 161, Mismatches: 41, Indels: 46
0.65 0.17 0.19
Matches are distributed among these distances:
7 8 0.05
8 10 0.06
9 62 0.39
10 54 0.34
11 26 0.16
12 1 0.01
ACGTcount: A:0.60, C:0.03, G:0.04, T:0.33
Consensus pattern (9 bp):
ATAAAAATT
Found at i:62806496 original size:165 final size:165
Alignment explanation
Indices: 62806213--62806541 Score: 597
Period size: 165 Copynumber: 2.0 Consensus size: 165
62806203 GAAACTCAGT
62806213 TTGATGCACCAATAGTCATCTCCACTACACCCGCTTTTGATAATGGAAGGGACAGGCTGGGAAGA
1 TTGATGCACCAATAGTCATCTCCACTACACCCGCTTTTGATAATGGAAGGGACAGGCTGGGAAGA
*
62806278 ATGCAATATATGTCAAAGTCTGGAAATGAGCAGAGCTACCGGGAAAGTGTTAAACATGGACAAGA
66 ATGCAATATATGTCAAAGTCTGGAAATGAGCAGAGCTACCAGGAAAGTGTTAAACATGGACAAGA
62806343 AATGCAAACC-GATTCTTTCAGGCATGGAGATGATA
131 AATGCAAACCAG-TTCTTTCAGGCATGGAGATGATA
* * *
62806378 TTGATGTACCAATAGTCGTCTCCACTACATCCGCTTTTGATAATGGAAGGGACAGGCTGGGAAGA
1 TTGATGCACCAATAGTCATCTCCACTACACCCGCTTTTGATAATGGAAGGGACAGGCTGGGAAGA
*
62806443 ATGCAATATATGTCAAAGTCTGGAAATGAGCAGAGCTACCAGGAAATTGTTAAACATGGACAAGA
66 ATGCAATATATGTCAAAGTCTGGAAATGAGCAGAGCTACCAGGAAAGTGTTAAACATGGACAAGA
62806508 AATGCAAACCAGTTCTTTCAGGCATGGAGATGAT
131 AATGCAAACCAGTTCTTTCAGGCATGGAGATGAT
62806542 GTTGGGCTTC
Statistics
Matches: 158, Mismatches: 5, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
165 157 0.99
166 1 0.01
ACGTcount: A:0.34, C:0.18, G:0.25, T:0.23
Consensus pattern (165 bp):
TTGATGCACCAATAGTCATCTCCACTACACCCGCTTTTGATAATGGAAGGGACAGGCTGGGAAGA
ATGCAATATATGTCAAAGTCTGGAAATGAGCAGAGCTACCAGGAAAGTGTTAAACATGGACAAGA
AATGCAAACCAGTTCTTTCAGGCATGGAGATGATA
Found at i:62809142 original size:10 final size:10
Alignment explanation
Indices: 62809129--62809244 Score: 73
Period size: 10 Copynumber: 11.8 Consensus size: 10
62809119 TAAATCTAAG
62809129 TTATAAAAAA
1 TTATAAAAAA
*
62809139 TTAT--TAAA
1 TTATAAAAAA
*
62809147 TTTTAATAAAA
1 TTATAA-AAAA
* *
62809158 ATATTAAAAA
1 TTATAAAAAA
*
62809168 TTAGAAAAGAA
1 TTATAAAA-AA
62809179 TTAT-AAAAA
1 TTATAAAAAA
**
62809188 TCGTAAAAAA
1 TTATAAAAAA
62809198 -TATAAAAAA
1 TTATAAAAAA
62809207 TTAT--AAAA
1 TTATAAAAAA
*
62809215 TTGTATAAAAA
1 TTATA-AAAAA
*
62809226 TCATAAAAAAA
1 TTAT-AAAAAA
62809237 TTATAAAA
1 TTATAAAA
62809245 TGCATCAAAA
Statistics
Matches: 78, Mismatches: 18, Indels: 20
0.67 0.16 0.17
Matches are distributed among these distances:
8 13 0.17
9 11 0.14
10 28 0.36
11 25 0.32
12 1 0.01
ACGTcount: A:0.64, C:0.02, G:0.03, T:0.31
Consensus pattern (10 bp):
TTATAAAAAA
Found at i:62809184 original size:29 final size:28
Alignment explanation
Indices: 62809134--62809244 Score: 96
Period size: 29 Copynumber: 3.8 Consensus size: 28
62809124 CTAAGTTATA
* **
62809134 AAAAATTATTAAATTTTAATAAAAATATT
1 AAAAATTATAAAAAATT-ATAAAAATATT
* **
62809163 AAAAATTAGAAAAGAATTATAAAAATCGT
1 AAAAATTATAAAA-AATTATAAAAATATT
* * *
62809192 AAAAAATATAAAAAATTATAAAATTGTAT
1 AAAAATTATAAAAAATTATAAAAATAT-T
*
62809221 AAAAATCATAAAAAAATTATAAAA
1 AAAAATTAT-AAAAAATTATAAAA
62809245 TGCATCAAAA
Statistics
Matches: 66, Mismatches: 13, Indels: 5
0.79 0.15 0.06
Matches are distributed among these distances:
28 11 0.17
29 39 0.59
30 16 0.24
ACGTcount: A:0.65, C:0.02, G:0.04, T:0.30
Consensus pattern (28 bp):
AAAAATTATAAAAAATTATAAAAATATT
Found at i:62809196 original size:38 final size:37
Alignment explanation
Indices: 62809152--62809245 Score: 100
Period size: 38 Copynumber: 2.5 Consensus size: 37
62809142 TTAAATTTTA
62809152 ATAAAAATATTAAAAATTAGAAAAGAAT-TATAAAAATC
1 ATAAAAATATTAAAAATTA-AAAA-AATGTATAAAAATC
* * * *
62809190 GTAAAAAATATAAAAAATTATAAAATTGTATAAAAATC
1 AT-AAAAATATTAAAAATTAAAAAAATGTATAAAAATC
*
62809228 ATAAAAAAATTATAAAAT
1 ATAAAAATATTA-AAAAT
62809246 GCATCAAAAT
Statistics
Matches: 46, Mismatches: 7, Indels: 6
0.78 0.12 0.10
Matches are distributed among these distances:
37 10 0.22
38 20 0.43
39 16 0.35
ACGTcount: A:0.66, C:0.02, G:0.04, T:0.28
Consensus pattern (37 bp):
ATAAAAATATTAAAAATTAAAAAAATGTATAAAAATC
Found at i:62809470 original size:18 final size:19
Alignment explanation
Indices: 62809426--62809470 Score: 65
Period size: 19 Copynumber: 2.4 Consensus size: 19
62809416 TTTGGTACTA
*
62809426 TAATTATTATATTTTTTTAC
1 TAATT-TTATATTTCTTTAC
62809446 TAATTTTATATTTCTTTAC
1 TAATTTTATATTTCTTTAC
62809465 -AATTTT
1 TAATTTT
62809471 TTTATAATTT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
18 6 0.25
19 13 0.54
20 5 0.21
ACGTcount: A:0.29, C:0.07, G:0.00, T:0.64
Consensus pattern (19 bp):
TAATTTTATATTTCTTTAC
Found at i:62809540 original size:21 final size:21
Alignment explanation
Indices: 62809516--62809561 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
62809506 ATTTTTTTAA
*
62809516 TTTTTAATAATATTTTAAT-AT
1 TTTTTAATAA-AATTTAATCAT
*
62809537 TTTTTATTAAAATTTAATCAT
1 TTTTTAATAAAATTTAATCAT
62809558 TTTT
1 TTTT
62809562 ATAACTTTTA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
20 7 0.32
21 15 0.68
ACGTcount: A:0.35, C:0.02, G:0.00, T:0.63
Consensus pattern (21 bp):
TTTTTAATAAAATTTAATCAT
Found at i:62809559 original size:29 final size:28
Alignment explanation
Indices: 62809523--62809581 Score: 73
Period size: 29 Copynumber: 2.1 Consensus size: 28
62809513 TAATTTTTAA
**
62809523 TAATATTTTAATATTTTTTATTAAAATT
1 TAATATTTTAATAACTTTTATTAAAATT
* *
62809551 TAATCATTTTTATAACTTTTATTAAATTT
1 TAAT-ATTTTAATAACTTTTATTAAAATT
62809580 TA
1 TA
62809582 TTTTTAGCAT
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
28 4 0.15
29 22 0.85
ACGTcount: A:0.37, C:0.03, G:0.00, T:0.59
Consensus pattern (28 bp):
TAATATTTTAATAACTTTTATTAAAATT
Found at i:62809563 original size:20 final size:20
Alignment explanation
Indices: 62809515--62809563 Score: 55
Period size: 20 Copynumber: 2.4 Consensus size: 20
62809505 AATTTTTTTA
* *
62809515 ATTTTTAATAATATTTTAAT
1 ATTTTTATTAATAATTTAAT
62809535 ATTTTTTATTAA-AATTTAAT
1 A-TTTTTATTAATAATTTAAT
62809555 CATTTTTAT
1 -ATTTTTAT
62809564 AACTTTTATT
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
20 15 0.60
21 10 0.40
ACGTcount: A:0.37, C:0.02, G:0.00, T:0.61
Consensus pattern (20 bp):
ATTTTTATTAATAATTTAAT
Found at i:62815148 original size:343 final size:342
Alignment explanation
Indices: 62814512--62815197 Score: 935
Period size: 343 Copynumber: 2.0 Consensus size: 342
62814502 AGTTTGTAGA
*
62814512 TATTGAGCTACTAAATTTGTTCCTTCAACGCTGACACCATGGTCTCGAGAGAATTATTCTTCTTA
1 TATTGAGCTACTAAATTTGTTCCTTCAACGCTGACACCATGGTCTCGAGAGAATCATTCTTCTTA
* * * * *
62814577 GTCAACTTCTTGATTTGATCATCTATAGAGACATTAAAGGTCTCTCTATTGCACCTTGATTGGAA
66 CTCAAATTCTAGATCTGATCATCCATAGAGACATTAAAGGTCTCTCTATTGCACCTTGATTGGAA
* * * * *
62814642 TTAAGAGCCTTCACAACATTGTCCCTAAGCTACTCTCTTATTGAGTCCAACTCATCGATGCGTCC
131 CTAAGAGCCTTCACAACATAGTCCCTAAGCTACTCTCTCATCGAGTCCAACTCATCGATGCATCC
* * * * ***
62814707 TTCAATTATCTCGAGTGTTTCCTTCACACCACCCATGGATTCCTCGAGATTGGTCACTTGGCCTT
196 CTCAATTACCTCGAGCGTTTCCTTCACACCACCCATGGATTCCTCAAGATTGGTCACCCAGCCTT
* **
62814772 CCAAAGCCAACAACATATCCTTCCATATGCTATTTTCCTGGTCTTCTTATGGGTCTCTATCGAGA
261 CCAAAGCCAACAACATATCCTTCAATATGCTATTTTCCTGGTCTTCCCATGGGTCTCTATCGAGA
*
62814837 CATTTTGTACGTTTACT
326 CATTTTGTACGTCTACT
* *
62814854 TATTGAGCTACTAAATTTGTTCCTTCAAGGCTGACACCATGGTCTTGAGAGAATCATTCTTCTTA
1 TATTGAGCTACTAAATTTGTTCCTTCAACGCTGACACCATGGTCTCGAGAGAATCATTCTTCTTA
* * * *
62814919 CTCAAATTCTCAG-TCTGATCATCCATGGCA-ACATTGAGGGTCTCTCTCATTGCATCTTGATTG
66 CTCAAATTCT-AGATCTGATCATCCATAG-AGACATTAAAGGTCTCTCT-ATTGCACCTTGATTG
* * * * *
62814982 GAACTGATAGCCTTCACCACATAGTCCCTAAGCTACTCTCTCATCGAGTCCAACTCATTGGTGCA
128 GAACTAAGAGCCTTCACAACATAGTCCCTAAGCTACTCTCTCATCGAGTCCAACTCATCGATGCA
* *
62815047 TCCCTCAATTACCTCGAGCGTTTCCTTCACACCACCCATGGATTTCTCAAGATTGGTCACCCATC
193 TCCCTCAATTACCTCGAGCGTTTCCTTCACACCACCCATGGATTCCTCAAGATTGGTCACCCAGC
** * * * * **
62815112 CTTCCAAATTCGACAGCATATCTTTCAATTTGCTATTTTGTTGGTCTTCCCATGGGTCTCTATCG
258 CTTCCAAAGCCAACAACATATCCTTCAATATGCTATTTTCCTGGTCTTCCCATGGGTCTCTATCG
*
62815177 AGACATTTTGTTCGTCTACT
323 AGACATTTTGTACGTCTACT
62815197 T
1 T
62815198 CTTTTATCAT
Statistics
Matches: 297, Mismatches: 44, Indels: 5
0.86 0.13 0.01
Matches are distributed among these distances:
342 97 0.33
343 200 0.67
ACGTcount: A:0.23, C:0.26, G:0.15, T:0.35
Consensus pattern (342 bp):
TATTGAGCTACTAAATTTGTTCCTTCAACGCTGACACCATGGTCTCGAGAGAATCATTCTTCTTA
CTCAAATTCTAGATCTGATCATCCATAGAGACATTAAAGGTCTCTCTATTGCACCTTGATTGGAA
CTAAGAGCCTTCACAACATAGTCCCTAAGCTACTCTCTCATCGAGTCCAACTCATCGATGCATCC
CTCAATTACCTCGAGCGTTTCCTTCACACCACCCATGGATTCCTCAAGATTGGTCACCCAGCCTT
CCAAAGCCAACAACATATCCTTCAATATGCTATTTTCCTGGTCTTCCCATGGGTCTCTATCGAGA
CATTTTGTACGTCTACT
Found at i:62818468 original size:13 final size:13
Alignment explanation
Indices: 62818450--62818479 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
62818440 TTCTTGTAAA
62818450 CATTTCACATAAC
1 CATTTCACATAAC
*
62818463 CATTTCATATAAC
1 CATTTCACATAAC
62818476 CATT
1 CATT
62818480 CGTCATCTGA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.37, C:0.27, G:0.00, T:0.37
Consensus pattern (13 bp):
CATTTCACATAAC
Found at i:62818674 original size:46 final size:46
Alignment explanation
Indices: 62818616--62818845 Score: 370
Period size: 46 Copynumber: 5.0 Consensus size: 46
62818606 TTTCTGTCAT
* * *
62818616 GTTGCCATGGTATCTTTCAACCATGGTCTTATTCTTTTCATGTCAC
1 GTTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATATCAG
62818662 GTTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATATCAG
1 GTTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATATCAG
* **
62818708 GTTGCCATGGTATCTTTCAATCATGGTCTTACACATTTCATATCAG
1 GTTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATATCAG
**
62818754 GTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
1 GTTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATATCAG
**
62818800 GTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
1 GTTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATATCAG
62818846 AGAGCACACT
Statistics
Matches: 177, Mismatches: 7, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
46 177 1.00
ACGTcount: A:0.22, C:0.23, G:0.15, T:0.40
Consensus pattern (46 bp):
GTTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATATCAG
Found at i:62820975 original size:3 final size:3
Alignment explanation
Indices: 62820967--62821010 Score: 88
Period size: 3 Copynumber: 14.7 Consensus size: 3
62820957 ATATATATAT
62820967 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
62821011 GACTTTATTA
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 41 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:62823081 original size:73 final size:74
Alignment explanation
Indices: 62822995--62823152 Score: 264
Period size: 74 Copynumber: 2.1 Consensus size: 74
62822985 TTCACAAATT
* *
62822995 TTATATGTACATA-TTTTTTTAAAAATTTATTCCGAAATAAATTTTATATATTCATGATTTTACA
1 TTATATGTACATATTTTTTTTAAAAATTTATTCCGAAACAAATTTTATATATTCATAATTTTACA
62823059 TGTGTATTA
66 TGTGTATTA
**
62823068 TTATATGTACATATTTTTTTTTTAAATTTATTCCGAAACAAATTTTATATATTCATAATTTTACA
1 TTATATGTACATATTTTTTTTAAAAATTTATTCCGAAACAAATTTTATATATTCATAATTTTACA
62823133 TGTGTATTA
66 TGTGTATTA
*
62823142 TTATATTTACA
1 TTATATGTACA
62823153 AAATATAAGT
Statistics
Matches: 79, Mismatches: 5, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
73 13 0.16
74 66 0.84
ACGTcount: A:0.35, C:0.08, G:0.06, T:0.52
Consensus pattern (74 bp):
TTATATGTACATATTTTTTTTAAAAATTTATTCCGAAACAAATTTTATATATTCATAATTTTACA
TGTGTATTA
Found at i:62823539 original size:16 final size:15
Alignment explanation
Indices: 62823519--62823559 Score: 73
Period size: 15 Copynumber: 2.7 Consensus size: 15
62823509 CAGAAAGATG
*
62823519 GAAAATTGAAAGGTA
1 GAAAAATGAAAGGTA
62823534 GAAAAATGAAAGGTA
1 GAAAAATGAAAGGTA
62823549 GAAAAATGAAA
1 GAAAAATGAAA
62823560 AGAATGAAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
15 25 1.00
ACGTcount: A:0.61, C:0.00, G:0.24, T:0.15
Consensus pattern (15 bp):
GAAAAATGAAAGGTA
Found at i:62823568 original size:16 final size:15
Alignment explanation
Indices: 62823519--62823571 Score: 52
Period size: 15 Copynumber: 3.5 Consensus size: 15
62823509 CAGAAAGATG
* * *
62823519 GAAAATTGAAAGGTA
1 GAAAAATGAAAAGAA
* *
62823534 GAAAAATGAAAGGTA
1 GAAAAATGAAAAGAA
62823549 GAAAAATGAAAAGAA
1 GAAAAATGAAAAGAA
62823564 TGAAAAAT
1 -GAAAAAT
62823572 ATAATTTTTC
Statistics
Matches: 34, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
15 27 0.79
16 7 0.21
ACGTcount: A:0.62, C:0.00, G:0.23, T:0.15
Consensus pattern (15 bp):
GAAAAATGAAAAGAA
Found at i:62827582 original size:26 final size:24
Alignment explanation
Indices: 62827551--62827599 Score: 71
Period size: 26 Copynumber: 2.0 Consensus size: 24
62827541 AAATAAAAAT
*
62827551 TTTAAAAATATAATAAATCAAATATA
1 TTTAAAAACATAA-AAA-CAAATATA
62827577 TTTAAAAACATAAAAACAAATAT
1 TTTAAAAACATAAAAACAAATAT
62827600 TAAAACAAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 7 0.32
25 3 0.14
26 12 0.55
ACGTcount: A:0.63, C:0.06, G:0.00, T:0.31
Consensus pattern (24 bp):
TTTAAAAACATAAAAACAAATATA
Found at i:62829410 original size:7 final size:7
Alignment explanation
Indices: 62829398--62829449 Score: 68
Period size: 7 Copynumber: 7.4 Consensus size: 7
62829388 TTTTCAAAGT
62829398 TTTCTCC
1 TTTCTCC
62829405 TTTCTCC
1 TTTCTCC
62829412 TTTCTCC
1 TTTCTCC
62829419 TTTCTCC
1 TTTCTCC
**
62829426 TTTCAAC
1 TTTCTCC
*
62829433 TTTCACC
1 TTTCTCC
*
62829440 TTTTTCC
1 TTTCTCC
62829447 TTT
1 TTT
62829450 TTCTTTTTTT
Statistics
Matches: 40, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
7 40 1.00
ACGTcount: A:0.06, C:0.37, G:0.00, T:0.58
Consensus pattern (7 bp):
TTTCTCC
Found at i:62831940 original size:8 final size:8
Alignment explanation
Indices: 62831927--62831955 Score: 58
Period size: 8 Copynumber: 3.6 Consensus size: 8
62831917 TGAATATTAG
62831927 TGTGCCAT
1 TGTGCCAT
62831935 TGTGCCAT
1 TGTGCCAT
62831943 TGTGCCAT
1 TGTGCCAT
62831951 TGTGC
1 TGTGC
62831956 TTTGACTTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 21 1.00
ACGTcount: A:0.10, C:0.24, G:0.28, T:0.38
Consensus pattern (8 bp):
TGTGCCAT
Found at i:62832796 original size:29 final size:31
Alignment explanation
Indices: 62832754--62832811 Score: 75
Period size: 29 Copynumber: 1.9 Consensus size: 31
62832744 GACTCATCCA
62832754 TGGAAAATAAAATAA-AAAA-AAGATAAAAT
1 TGGAAAATAAAATAATAAAAGAAGATAAAAT
* * *
62832783 TGGAAAGTGAAATAATAAAAGATGATAAA
1 TGGAAAATAAAATAATAAAAGAAGATAAA
62832812 TGATAAAAAA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
29 13 0.54
30 4 0.17
31 7 0.29
ACGTcount: A:0.66, C:0.00, G:0.16, T:0.19
Consensus pattern (31 bp):
TGGAAAATAAAATAATAAAAGAAGATAAAAT
Found at i:62833204 original size:45 final size:45
Alignment explanation
Indices: 62833154--62833263 Score: 179
Period size: 44 Copynumber: 2.5 Consensus size: 45
62833144 ATTGAAAAGA
* *
62833154 TGTAAAATT-CATGGAAAAATTCTAAATTTTATGAAATACATGGGC
1 TGTAAATTTACATGCAAAAA-TCTAAATTTTATGAAATACATGGGC
62833199 TGTAAATTTACATGCAAAAA-CTAAATTTTATGAAATACATGGGC
1 TGTAAATTTACATGCAAAAATCTAAATTTTATGAAATACATGGGC
62833243 TGTAAATTTACATGCAAAAAT
1 TGTAAATTTACATGCAAAAAT
62833264 AGGCTAGGCT
Statistics
Matches: 61, Mismatches: 2, Indels: 4
0.91 0.03 0.06
Matches are distributed among these distances:
44 44 0.72
45 8 0.13
46 9 0.15
ACGTcount: A:0.44, C:0.10, G:0.14, T:0.33
Consensus pattern (45 bp):
TGTAAATTTACATGCAAAAATCTAAATTTTATGAAATACATGGGC
Found at i:62839234 original size:11 final size:11
Alignment explanation
Indices: 62839220--62839248 Score: 58
Period size: 11 Copynumber: 2.6 Consensus size: 11
62839210 ACTCCCTATT
62839220 CAAAGCCTAAC
1 CAAAGCCTAAC
62839231 CAAAGCCTAAC
1 CAAAGCCTAAC
62839242 CAAAGCC
1 CAAAGCC
62839249 CCATTACAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.45, C:0.38, G:0.10, T:0.07
Consensus pattern (11 bp):
CAAAGCCTAAC
Found at i:62839304 original size:20 final size:20
Alignment explanation
Indices: 62839275--62839319 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
62839265 AGCACATGTA
* *
62839275 TTCATAAAATTTTAGAATTT
1 TTCATAAAATTTTACAACTT
*
62839295 TTCATCAAATTTTACAACTT
1 TTCATAAAATTTTACAACTT
62839315 TTCAT
1 TTCAT
62839320 TTTAGTCACT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.36, C:0.13, G:0.02, T:0.49
Consensus pattern (20 bp):
TTCATAAAATTTTACAACTT
Found at i:62841186 original size:18 final size:19
Alignment explanation
Indices: 62841160--62841204 Score: 65
Period size: 18 Copynumber: 2.4 Consensus size: 19
62841150 TACTTATACT
*
62841160 TTAAGTATAATATATT-TA
1 TTAATTATAATATATTATA
*
62841178 TTAATTATAATGTATTATA
1 TTAATTATAATATATTATA
62841197 TTAATTAT
1 TTAATTAT
62841205 TAATTAATTA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
18 14 0.58
19 10 0.42
ACGTcount: A:0.42, C:0.00, G:0.04, T:0.53
Consensus pattern (19 bp):
TTAATTATAATATATTATA
Found at i:62841249 original size:23 final size:25
Alignment explanation
Indices: 62841213--62841260 Score: 73
Period size: 23 Copynumber: 2.0 Consensus size: 25
62841203 ATTAATTAAT
*
62841213 TAAAACATAAAAGAAATAAAAGAAA
1 TAAAACATAAAAGAAACAAAAGAAA
62841238 TAAAA-AT-AAAGAAACAAAAGAAA
1 TAAAACATAAAAGAAACAAAAGAAA
62841261 AAGAACAGAG
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 15 0.68
24 2 0.09
25 5 0.23
ACGTcount: A:0.77, C:0.04, G:0.08, T:0.10
Consensus pattern (25 bp):
TAAAACATAAAAGAAACAAAAGAAA
Found at i:62843181 original size:47 final size:47
Alignment explanation
Indices: 62843103--62843587 Score: 671
Period size: 47 Copynumber: 10.4 Consensus size: 47
62843093 CCCTTCGGGA
* * * * * * *
62843103 CTTATCACATTTATGCACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* **
62843150 CCTGCCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
62843197 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * * *
62843244 CTTATGACATATATACAGTTTCACATTCGTCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
62843291 CTTATCACACATATACACTTTCACATTCAT--CA-----CA-TAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
62843330 CTTATCACACATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
62843377 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
62843424 CTTATCACATATATATACACTTTCACATTCATCACATTGGCTATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
62843473 CTTATCACACATATACACTTTCACCTTCATCGCATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
62843520 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
62843569 CTTATCACATATATACACT
1 CTTATCACATATATACACT
62843588 GTCTTGGCTG
Statistics
Matches: 391, Mismatches: 35, Indels: 24
0.87 0.08 0.05
Matches are distributed among these distances:
39 35 0.09
40 1 0.00
41 2 0.01
45 2 0.01
46 1 0.00
47 262 0.67
49 88 0.23
ACGTcount: A:0.29, C:0.30, G:0.09, T:0.32
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:62843266 original size:94 final size:94
Alignment explanation
Indices: 62843103--62843587 Score: 680
Period size: 96 Copynumber: 5.2 Consensus size: 94
62843093 CCCTTCGGGA
** * * * * * * * **
62843103 CTTATCACATTTATGCACTTTCACATCCATCACGTTGGCCACTCGGCCCTGCCACATATATACAC
1 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
*
62843168 TTTCACATTCATCACATCGGCCATTAGGC
66 TTTCACATTCATCACATCGGCTATTAGGC
* * *
62843197 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATGACATATATACAG
1 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
*
62843262 TTTCACATTCGTCACATCGGCTATTAGGC
66 TTTCACATTCATCACATCGGCTATTAGGC
*
62843291 CTTATCACACATATACACTTTCACATTCAT--CA-----CA-TAGGCCTTATCACACATATACAC
1 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
62843348 TTTCACATTCATCACATCGGCTATTAGGC
66 TTTCACATTCATCACATCGGCTATTAGGC
62843377 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
1 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC--ATATATAC
*
62843442 ACTTTCACATTCATCACATTGGCTATTAGGC
64 ACTTTCACATTCATCACATCGGCTATTAGGC
* *
62843473 CTTATCACACATATACACTTTCACCTTCATCGCATCGGCCATTAGGCCTTATCACATATATATAC
1 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC--ATATATAC
*
62843538 ACTTTCACATTCATCACATCGGCCATTAGGC
64 ACTTTCACATTCATCACATCGGCTATTAGGC
*
62843569 CTTATCACATATATACACT
1 CTTATCACACATATACACT
62843588 GTCTTGGCTG
Statistics
Matches: 355, Mismatches: 26, Indels: 18
0.89 0.07 0.05
Matches are distributed among these distances:
86 78 0.22
87 2 0.01
88 2 0.01
92 2 0.01
93 2 0.01
94 122 0.34
96 147 0.41
ACGTcount: A:0.29, C:0.30, G:0.09, T:0.32
Consensus pattern (94 bp):
CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
TTTCACATTCATCACATCGGCTATTAGGC
Found at i:62843326 original size:23 final size:23
Alignment explanation
Indices: 62843298--62843364 Score: 67
Period size: 23 Copynumber: 3.2 Consensus size: 23
62843288 GGCCTTATCA
62843298 CACATATACACTTTCACATTCAT
1 CACATATACACTTTCACATTCAT
**
62843321 CACATAGGC-C-TT---A-TCA-
1 CACATATACACTTTCACATTCAT
62843337 CACATATACACTTTCACATTCAT
1 CACATATACACTTTCACATTCAT
62843360 CACAT
1 CACAT
62843365 CGGCTATTAG
Statistics
Matches: 33, Mismatches: 4, Indels: 14
0.65 0.08 0.27
Matches are distributed among these distances:
16 7 0.21
17 4 0.12
18 3 0.09
21 3 0.09
22 4 0.12
23 12 0.36
ACGTcount: A:0.34, C:0.31, G:0.03, T:0.31
Consensus pattern (23 bp):
CACATATACACTTTCACATTCAT
Found at i:62850032 original size:48 final size:48
Alignment explanation
Indices: 62849968--62850218 Score: 475
Period size: 48 Copynumber: 5.2 Consensus size: 48
62849958 AATATATATG
*
62849968 TATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTA
1 TATGTGGTAAAGCCGAATGGCTAATGCGAAATATGTATGAGATATGTA
*
62850016 TATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTA
1 TATGTGGTAAAGCCGAATGGCTAATGCGAAATATGTATGAGATATGTA
62850064 TATGTGGTAAAGCCGAATGGCTAATGCGAAATATGTATGAGATATGTA
1 TATGTGGTAAAGCCGAATGGCTAATGCGAAATATGTATGAGATATGTA
*
62850112 TATGTGGTAAAGTCGAATGGCTAATGCGAAATATGTATGAGATATGTA
1 TATGTGGTAAAGCCGAATGGCTAATGCGAAATATGTATGAGATATGTA
62850160 TATGTGGTAAAGCCGAATGGCTAATGCGAAATATGTATGAGATATGTA
1 TATGTGGTAAAGCCGAATGGCTAATGCGAAATATGTATGAGATATGTA
62850208 TATGTGGTAAA
1 TATGTGGTAAA
62850219 TGTATATGTG
Statistics
Matches: 200, Mismatches: 3, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
48 200 1.00
ACGTcount: A:0.35, C:0.07, G:0.27, T:0.31
Consensus pattern (48 bp):
TATGTGGTAAAGCCGAATGGCTAATGCGAAATATGTATGAGATATGTA
Found at i:62850223 original size:15 final size:15
Alignment explanation
Indices: 62850203--62850233 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
62850193 TGTATGAGAT
62850203 ATGTATATGTGGTAA
1 ATGTATATGTGGTAA
62850218 ATGTATATGTGGTAA
1 ATGTATATGTGGTAA
62850233 A
1 A
62850234 GCCGAATGGC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.35, C:0.00, G:0.26, T:0.39
Consensus pattern (15 bp):
ATGTATATGTGGTAA
Found at i:62850237 original size:63 final size:63
Alignment explanation
Indices: 62850155--62850281 Score: 227
Period size: 63 Copynumber: 2.0 Consensus size: 63
62850145 TGTATGAGAT
62850155 ATGTATATGTGGTAAAGCCGAATGGCTAATGCGAAATATGTATGAGATATGTATATGTGGTAA
1 ATGTATATGTGGTAAAGCCGAATGGCTAATGCGAAATATGTATGAGATATGTATATGTGGTAA
* * *
62850218 ATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTGTGAGATATGTATATGTGGTAA
1 ATGTATATGTGGTAAAGCCGAATGGCTAATGCGAAATATGTATGAGATATGTATATGTGGTAA
62850281 A
1 A
62850282 GCCGAATGGC
Statistics
Matches: 61, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
63 61 1.00
ACGTcount: A:0.34, C:0.06, G:0.28, T:0.32
Consensus pattern (63 bp):
ATGTATATGTGGTAAAGCCGAATGGCTAATGCGAAATATGTATGAGATATGTATATGTGGTAA
Found at i:62850240 original size:111 final size:111
Alignment explanation
Indices: 62850107--62850313 Score: 351
Period size: 111 Copynumber: 1.9 Consensus size: 111
62850097 TGTATGAGAT
*
62850107 ATGTATATGTGGTAAAGTCGAATGGCTAATGCGAAATATGTATGAGATATGTATATGTGGTAAAG
1 ATGTATATGTGGTAAAGCCGAATGGCTAATGCGAAATATGTATGAGATATGTATATGTGGTAAAG
*
62850172 CCGAATGGCTAATGCGAAATATGTATGAGATATGTATATGTGGTAA
66 CCGAATGGCTAATGCGAAATATGTAGGAGATATGTATATGTGGTAA
* * *
62850218 ATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTGTGAGATATGTATATGTGGTAAAG
1 ATGTATATGTGGTAAAGCCGAATGGCTAATGCGAAATATGTATGAGATATGTATATGTGGTAAAG
* *
62850283 CCGAATGGCTAGTGTGAAATATGTAGGAGAT
66 CCGAATGGCTAATGCGAAATATGTAGGAGAT
62850314 GTGTGTATAT
Statistics
Matches: 89, Mismatches: 7, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
111 89 1.00
ACGTcount: A:0.34, C:0.06, G:0.29, T:0.31
Consensus pattern (111 bp):
ATGTATATGTGGTAAAGCCGAATGGCTAATGCGAAATATGTATGAGATATGTATATGTGGTAAAG
CCGAATGGCTAATGCGAAATATGTAGGAGATATGTATATGTGGTAA
Found at i:62850504 original size:37 final size:37
Alignment explanation
Indices: 62850454--62850556 Score: 179
Period size: 37 Copynumber: 2.8 Consensus size: 37
62850444 GGAAATATAT
62850454 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
* *
62850491 TCCGGGTAAGACCCGATGACTATGTGTGGAGATTTTG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
*
62850528 TCCGGGTAAGACCCGATAACTACGTGTGG
1 TCCGGGTAAGACCCGATGACTACGTGTGG
62850557 GGACTATTCG
Statistics
Matches: 62, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
37 62 1.00
ACGTcount: A:0.23, C:0.19, G:0.32, T:0.25
Consensus pattern (37 bp):
TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
Found at i:62855305 original size:18 final size:18
Alignment explanation
Indices: 62855263--62855296 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
62855253 TAAAGAAGAG
62855263 AAAAAT-AAAATAGAAAC
1 AAAAATAAAAATAGAAAC
62855280 AAAAATAAAAATAGAAA
1 AAAAATAAAAATAGAAA
62855297 TAGAGATAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.79, C:0.03, G:0.06, T:0.12
Consensus pattern (18 bp):
AAAAATAAAAATAGAAAC
Found at i:62861286 original size:43 final size:42
Alignment explanation
Indices: 62861236--62861359 Score: 151
Period size: 41 Copynumber: 2.9 Consensus size: 42
62861226 TCCCAGATGT
* *
62861236 GGTCTTACATGCAATCACATATAGATGCCACTGTCCCAGACAA
1 GGTCTTACACG-AATCACATATAGATGCCAATGTCCCAGACAA
* * * *
62861279 GGTCTTACACGAATCAAATACA-ATGCCAAAGTCCCAGACAT
1 GGTCTTACACGAATCACATATAGATGCCAATGTCCCAGACAA
* *
62861320 GGTCTTACACATAATCACATATCGATGCCAATGTCCCAGA
1 GGTCTTACAC-GAATCACATATAGATGCCAATGTCCCAGA
62861360 TGTGGTCTTA
Statistics
Matches: 68, Mismatches: 11, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
41 26 0.38
42 17 0.25
43 25 0.37
ACGTcount: A:0.35, C:0.27, G:0.15, T:0.23
Consensus pattern (42 bp):
GGTCTTACACGAATCACATATAGATGCCAATGTCCCAGACAA
Found at i:62861317 original size:41 final size:41
Alignment explanation
Indices: 62861212--62861370 Score: 158
Period size: 43 Copynumber: 3.8 Consensus size: 41
62861202 TCACATATAT
* ** *
62861212 CATACAAT-CCAACGTCCCAGATGTGGTCTTACATGCAATCA
1 CATACAATGCCAATGTCCCAGACATGGTCTTACACG-AATCA
* * *
62861253 CATATAGATGCCACTGTCCCAGACAAGGTCTTACACGAATCA
1 CATACA-ATGCCAATGTCCCAGACATGGTCTTACACGAATCA
* * *
62861295 AATACAATGCCAAAGTCCCAGACATGGTCTTACACATAATCA
1 CATACAATGCCAATGTCCCAGACATGGTCTTACAC-GAATCA
* **
62861337 CATATCGATGCCAATGTCCCAGATGTGGTCTTAC
1 CATA-CAATGCCAATGTCCCAGACATGGTCTTAC
62861371 TCGAGAACAC
Statistics
Matches: 96, Mismatches: 18, Indels: 6
0.80 0.15 0.05
Matches are distributed among these distances:
41 31 0.32
42 19 0.20
43 46 0.48
ACGTcount: A:0.33, C:0.28, G:0.16, T:0.24
Consensus pattern (41 bp):
CATACAATGCCAATGTCCCAGACATGGTCTTACACGAATCA
Found at i:62869353 original size:43 final size:42
Alignment explanation
Indices: 62869298--62869468 Score: 195
Period size: 43 Copynumber: 4.0 Consensus size: 42
62869288 ATATCGTACA
*
62869298 ATGCCAACGTCCCAGACATGGTCTTACATGCAATTACATATCG
1 ATGCCAACGTCCCAGACATGGTCTTACATG-AATCACATATCG
* * * * *
62869341 ATGCC-ACTGTCCCATATAGGGTCTTACACGAATCAAATA-CG
1 ATGCCAAC-GTCCCAGACATGGTCTTACATGAATCACATATCG
* *
62869382 ATGCCAAAGTCCCAGACATGGTCTTACATGTAATGACATATCG
1 ATGCCAACGTCCCAGACATGGTCTTACATG-AATCACATATCG
*
62869425 ATGCCAACGTCCCAGACATGGTCTTAC-TCGAGAACACATATCG
1 ATGCCAACGTCCCAGACATGGTCTTACAT-GA-ATCACATATCG
62869468 A
1 A
62869469 AAATCCTATG
Statistics
Matches: 106, Mismatches: 16, Indels: 12
0.79 0.12 0.09
Matches are distributed among these distances:
41 25 0.24
42 19 0.18
43 62 0.58
ACGTcount: A:0.32, C:0.27, G:0.18, T:0.24
Consensus pattern (42 bp):
ATGCCAACGTCCCAGACATGGTCTTACATGAATCACATATCG
Found at i:62869448 original size:84 final size:84
Alignment explanation
Indices: 62869298--62869451 Score: 238
Period size: 84 Copynumber: 1.8 Consensus size: 84
62869288 ATATCGTACA
* * * *
62869298 ATGCCAACGTCCCAGACATGGTCTTACATGCAATTACATATCGATGCCACTGTCCCATATAGGGT
1 ATGCCAAAGTCCCAGACATGGTCTTACATGCAATGACATATCGATGCCACTGTCCCAGACAGGGT
62869363 CTTACACGAATCAAATACG
66 CTTACACGAATCAAATACG
* *
62869382 ATGCCAAAGTCCCAGACATGGTCTTACATGTAATGACATATCGATGCCAAC-GTCCCAGACATGG
1 ATGCCAAAGTCCCAGACATGGTCTTACATGCAATGACATATCGATGCC-ACTGTCCCAGACAGGG
62869446 TCTTAC
65 TCTTAC
62869452 TCGAGAACAC
Statistics
Matches: 63, Mismatches: 6, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
84 61 0.97
85 2 0.03
ACGTcount: A:0.31, C:0.27, G:0.18, T:0.25
Consensus pattern (84 bp):
ATGCCAAAGTCCCAGACATGGTCTTACATGCAATGACATATCGATGCCACTGTCCCAGACAGGGT
CTTACACGAATCAAATACG
Found at i:62874895 original size:16 final size:16
Alignment explanation
Indices: 62874851--62874886 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
62874841 GCAGATCGAC
*
62874851 AAATCCCAAAAAGCTG
1 AAATACCAAAAAGCTG
*
62874867 AAATACCGAAAAGCTG
1 AAATACCAAAAAGCTG
62874883 AAAT
1 AAAT
62874887 GCTAAAAAGT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.53, C:0.19, G:0.14, T:0.14
Consensus pattern (16 bp):
AAATACCAAAAAGCTG
Found at i:62875162 original size:29 final size:28
Alignment explanation
Indices: 62875121--62875199 Score: 108
Period size: 29 Copynumber: 2.8 Consensus size: 28
62875111 GACTGTAAAA
62875121 GTGATTGGGCCTAGTGGGCCATAT-AGAT
1 GTGATTGGGCCTAGTGGGCCATATGA-AT
*
62875149 GTGATTTGGGCCTAATGGGCCATATGAAT
1 GTGA-TTGGGCCTAGTGGGCCATATGAAT
*
62875178 GAGATTGGG-CTAGTGGGCCATA
1 GTGATTGGGCCTAGTGGGCCATA
62875200 AGCATGTATG
Statistics
Matches: 46, Mismatches: 3, Indels: 5
0.85 0.06 0.09
Matches are distributed among these distances:
27 12 0.26
28 9 0.20
29 24 0.52
30 1 0.02
ACGTcount: A:0.23, C:0.14, G:0.35, T:0.28
Consensus pattern (28 bp):
GTGATTGGGCCTAGTGGGCCATATGAAT
Found at i:62886730 original size:26 final size:26
Alignment explanation
Indices: 62886692--62886749 Score: 98
Period size: 26 Copynumber: 2.2 Consensus size: 26
62886682 CCGCAACTCT
* *
62886692 TTGTGAGCGTCCTGTTATATGATCTG
1 TTGTGAGCATCCTGTTATATGATCGG
62886718 TTGTGAGCATCCTGTTATATGATCGG
1 TTGTGAGCATCCTGTTATATGATCGG
62886744 TTGTGA
1 TTGTGA
62886750 TCCTGCATAT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 30 1.00
ACGTcount: A:0.17, C:0.14, G:0.28, T:0.41
Consensus pattern (26 bp):
TTGTGAGCATCCTGTTATATGATCGG
Found at i:62886874 original size:26 final size:26
Alignment explanation
Indices: 62886844--62886989 Score: 94
Period size: 26 Copynumber: 5.8 Consensus size: 26
62886834 GGAGCTCCCA
62886844 ATTAAAGGCTCTTTGTGAGCTTCCTG
1 ATTAAAGGCTCTTTGTGAGCTTCCTG
* * *
62886870 ATTAAAAGTTCTTTGTGAACTTCCTG
1 ATTAAAGGCTCTTTGTGAGCTTCCTG
* *
62886896 ATT-ATGGCTC-TTATGAGCTTCCT-
1 ATTAAAGGCTCTTTGTGAGCTTCCTG
* ** *
62886919 ATCATATA-GC-C-CCGATAAGCTTCCTG
1 AT--TAAAGGCTCTTTG-TGAGCTTCCTG
*
62886945 A-T--AGGCTCTTTGTGAGCTTCCCG
1 ATTAAAGGCTCTTTGTGAGCTTCCTG
* *
62886968 ACTAATGGCTCTTTGTGAGCTT
1 ATTAAAGGCTCTTTGTGAGCTT
62886990 TCTGTTATAT
Statistics
Matches: 90, Mismatches: 19, Indels: 22
0.69 0.15 0.17
Matches are distributed among these distances:
21 1 0.01
22 2 0.02
23 14 0.16
24 14 0.16
25 16 0.18
26 43 0.48
ACGTcount: A:0.21, C:0.22, G:0.20, T:0.38
Consensus pattern (26 bp):
ATTAAAGGCTCTTTGTGAGCTTCCTG
Found at i:62888509 original size:21 final size:22
Alignment explanation
Indices: 62888464--62888518 Score: 67
Period size: 21 Copynumber: 2.5 Consensus size: 22
62888454 TGTAGGGTTC
*
62888464 ACACGCCCGTGTGGTCCAAGGG
1 ACACGCCCGTGTGGACCAAGGG
**
62888486 ACACGCCCGTGT-GACCCTGGG
1 ACACGCCCGTGTGGACCAAGGG
*
62888507 ACATGCCCGTGT
1 ACACGCCCGTGT
62888519 TGGAGGCTGT
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
21 17 0.59
22 12 0.41
ACGTcount: A:0.16, C:0.35, G:0.33, T:0.16
Consensus pattern (22 bp):
ACACGCCCGTGTGGACCAAGGG
Found at i:62890457 original size:13 final size:13
Alignment explanation
Indices: 62890439--62890465 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
62890429 AAAAGTTGTT
62890439 TATCTATCAATAA
1 TATCTATCAATAA
62890452 TATCTATCAATAA
1 TATCTATCAATAA
62890465 T
1 T
62890466 CTTTCATTTT
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:0.15, G:0.00, T:0.41
Consensus pattern (13 bp):
TATCTATCAATAA
Found at i:62890525 original size:36 final size:36
Alignment explanation
Indices: 62890478--62890552 Score: 150
Period size: 36 Copynumber: 2.1 Consensus size: 36
62890468 TTCATTTTCT
62890478 ACCATAAATTTATAATTTCCAGCATATACATCCATG
1 ACCATAAATTTATAATTTCCAGCATATACATCCATG
62890514 ACCATAAATTTATAATTTCCAGCATATACATCCATG
1 ACCATAAATTTATAATTTCCAGCATATACATCCATG
62890550 ACC
1 ACC
62890553 CATTTTTCAT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 39 1.00
ACGTcount: A:0.39, C:0.24, G:0.05, T:0.32
Consensus pattern (36 bp):
ACCATAAATTTATAATTTCCAGCATATACATCCATG
Found at i:62892114 original size:10 final size:11
Alignment explanation
Indices: 62892099--62892127 Score: 51
Period size: 10 Copynumber: 2.7 Consensus size: 11
62892089 CAAGATCTAG
62892099 TTTATTTTA-T
1 TTTATTTTATT
62892109 TTTATTTTATT
1 TTTATTTTATT
62892120 TTTATTTT
1 TTTATTTT
62892128 GGAATTATTG
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 9 0.50
11 9 0.50
ACGTcount: A:0.17, C:0.00, G:0.00, T:0.83
Consensus pattern (11 bp):
TTTATTTTATT
Found at i:62896377 original size:39 final size:39
Alignment explanation
Indices: 62896323--62896402 Score: 142
Period size: 39 Copynumber: 2.1 Consensus size: 39
62896313 ATCATTCCTA
62896323 TCATAATGCAGACCATACAATAATATTAAAATAAAATTT
1 TCATAATGCAGACCATACAATAATATTAAAATAAAATTT
* *
62896362 TCATAATGCAGACCATGCAATAATATTCAAATAAAATTT
1 TCATAATGCAGACCATACAATAATATTAAAATAAAATTT
62896401 TC
1 TC
62896403 TTTTTGGCTC
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
39 39 1.00
ACGTcount: A:0.47, C:0.15, G:0.06, T:0.31
Consensus pattern (39 bp):
TCATAATGCAGACCATACAATAATATTAAAATAAAATTT
Found at i:62901894 original size:12 final size:12
Alignment explanation
Indices: 62901877--62901906 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
62901867 CAGTATTAGC
*
62901877 TTTTTATATTAT
1 TTTTTATATAAT
62901889 TTTTTATATAAT
1 TTTTTATATAAT
62901901 TTTTTA
1 TTTTTA
62901907 AAAATATAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (12 bp):
TTTTTATATAAT
Found at i:62902668 original size:33 final size:32
Alignment explanation
Indices: 62902631--62902714 Score: 104
Period size: 28 Copynumber: 2.7 Consensus size: 32
62902621 TGCGCCTTAT
62902631 CCTTAGCCCTATACAGTATCAGTACAGTCTGGG
1 CCTTAGCCCTATACAGTA-CAGTACAGTCTGGG
*
62902664 CCTTAGCCCTATACAG-A-A--ACAGTGTGGG
1 CCTTAGCCCTATACAGTACAGTACAGTCTGGG
*
62902692 CCTAAGCCCTATACAGTAACAGT
1 CCTTAGCCCTATACAGT-ACAGT
62902715 GTGGGCCTAA
Statistics
Matches: 44, Mismatches: 2, Indels: 10
0.79 0.04 0.18
Matches are distributed among these distances:
28 24 0.55
30 2 0.05
31 1 0.02
32 1 0.02
33 16 0.36
ACGTcount: A:0.29, C:0.27, G:0.20, T:0.24
Consensus pattern (32 bp):
CCTTAGCCCTATACAGTACAGTACAGTCTGGG
Found at i:62902694 original size:28 final size:28
Alignment explanation
Indices: 62902654--62902728 Score: 123
Period size: 28 Copynumber: 2.7 Consensus size: 28
62902644 CAGTATCAGT
* *
62902654 ACAGTCTGGGCCTTAGCCCTATACAGAA
1 ACAGTGTGGGCCTAAGCCCTATACAGAA
*
62902682 ACAGTGTGGGCCTAAGCCCTATACAGTA
1 ACAGTGTGGGCCTAAGCCCTATACAGAA
62902710 ACAGTGTGGGCCTAAGCCC
1 ACAGTGTGGGCCTAAGCCC
62902729 AATTCGATAT
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
28 44 1.00
ACGTcount: A:0.27, C:0.28, G:0.25, T:0.20
Consensus pattern (28 bp):
ACAGTGTGGGCCTAAGCCCTATACAGAA
Found at i:62910473 original size:27 final size:27
Alignment explanation
Indices: 62910443--62910538 Score: 147
Period size: 27 Copynumber: 3.6 Consensus size: 27
62910433 TAAATTGTAC
*
62910443 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGATTATGT
*
62910470 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGATTATGT
* *
62910497 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGATTATGT
*
62910524 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
62910539 GGCTCAATAT
Statistics
Matches: 63, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
27 63 1.00
ACGTcount: A:0.26, C:0.15, G:0.28, T:0.31
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGATTATGT
Found at i:62910549 original size:27 final size:27
Alignment explanation
Indices: 62910443--62910549 Score: 70
Period size: 27 Copynumber: 4.0 Consensus size: 27
62910433 TAAATTGTAC
** * * *
62910443 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGAGCTCAATATAT
** * * **
62910470 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGAGCTCAATATAT
* * *
62910497 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGAGCTCAATATAT
* *
62910524 AGCACTGAGTGTGCGGGCTCAATATA
1 AGCACTAAGTGTGCGAGCTCAATATA
62910550 CATTCGTGAA
Statistics
Matches: 70, Mismatches: 10, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 70 1.00
ACGTcount: A:0.27, C:0.15, G:0.27, T:0.31
Consensus pattern (27 bp):
AGCACTAAGTGTGCGAGCTCAATATAT
Found at i:62913422 original size:28 final size:28
Alignment explanation
Indices: 62913390--62913489 Score: 94
Period size: 28 Copynumber: 3.4 Consensus size: 28
62913380 AAACAGCATG
*
62913390 CAGTAACAGTATGCGCCTTAGCCCTATA
1 CAGTAACAGTATGGGCCTTAGCCCTATA
62913418 CAGTATTAGTACAG-ACTGGGCCTTAGCCCTATA
1 CAG---TA--ACAGTA-TGGGCCTTAGCCCTATA
* * *
62913451 CAGTAACAGTATGGGCCTAAGCCCAATT
1 CAGTAACAGTATGGGCCTTAGCCCTATA
*
62913479 CAGTATCAGTA
1 CAGTAACAGTA
62913490 CAGTGCAGTA
Statistics
Matches: 60, Mismatches: 5, Indels: 14
0.76 0.06 0.18
Matches are distributed among these distances:
28 31 0.52
29 1 0.02
30 2 0.03
31 2 0.03
32 1 0.02
33 23 0.38
ACGTcount: A:0.30, C:0.25, G:0.20, T:0.25
Consensus pattern (28 bp):
CAGTAACAGTATGGGCCTTAGCCCTATA
Found at i:62917328 original size:6 final size:6
Alignment explanation
Indices: 62917317--62917420 Score: 208
Period size: 6 Copynumber: 17.3 Consensus size: 6
62917307 TTACCGAAAC
62917317 ATACAT ATACAT ATACAT ATACAT ATACAT ATACAT ATACAT ATACAT
1 ATACAT ATACAT ATACAT ATACAT ATACAT ATACAT ATACAT ATACAT
62917365 ATACAT ATACAT ATACAT ATACAT ATACAT ATACAT ATACAT ATACAT
1 ATACAT ATACAT ATACAT ATACAT ATACAT ATACAT ATACAT ATACAT
62917413 ATACAT AT
1 ATACAT AT
62917421 GGGCATTAAC
Statistics
Matches: 98, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 98 1.00
ACGTcount: A:0.50, C:0.16, G:0.00, T:0.34
Consensus pattern (6 bp):
ATACAT
Found at i:62917969 original size:20 final size:22
Alignment explanation
Indices: 62917929--62917971 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
62917919 AAGACTATAG
*
62917929 TGCTCACACAAGCTGACATATT
1 TGCTCACACAAGATGACATATT
62917951 TGCTCACACAAGAT-A-ATATT
1 TGCTCACACAAGATGACATATT
62917971 T
1 T
62917972 ATGAATCAAG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
20 6 0.30
21 1 0.05
22 13 0.65
ACGTcount: A:0.35, C:0.23, G:0.12, T:0.30
Consensus pattern (22 bp):
TGCTCACACAAGATGACATATT
Found at i:62919418 original size:20 final size:20
Alignment explanation
Indices: 62919390--62919438 Score: 53
Period size: 20 Copynumber: 2.5 Consensus size: 20
62919380 TATCGATCTA
* * *
62919390 GTATTGATACCTTTCTTAAG
1 GTATCGATACATTTCCTAAG
*
62919410 GTATCGATATATTTCCTAAG
1 GTATCGATACATTTCCTAAG
*
62919430 ATATCGATA
1 GTATCGATA
62919439 TTCTTGCTTC
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.31, C:0.14, G:0.14, T:0.41
Consensus pattern (20 bp):
GTATCGATACATTTCCTAAG
Found at i:62919439 original size:20 final size:20
Alignment explanation
Indices: 62919401--62919439 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
62919391 TATTGATACC
* *
62919401 TTTCTTAAGGTATCGATATA
1 TTTCCTAAGATATCGATATA
62919421 TTTCCTAAGATATCGATAT
1 TTTCCTAAGATATCGATAT
62919440 TCTTGCTTCA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.31, C:0.13, G:0.13, T:0.44
Consensus pattern (20 bp):
TTTCCTAAGATATCGATATA
Found at i:62932285 original size:40 final size:40
Alignment explanation
Indices: 62932230--62932433 Score: 304
Period size: 40 Copynumber: 5.1 Consensus size: 40
62932220 TGGATGATAA
* * *
62932230 CCGGGCTAAGTCCCGAAGGCATTTGCGCTAGTGACTAGT-T
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-TAT
62932270 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
62932310 CCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
62932350 CCGGGCTAAGTCCCGAAGGCATTGGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* * *
62932390 CCGGGCTATGTCCCGAAGGCATTCGAGCGAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATAT
62932430 CCGG
1 CCGG
62932434 TTAAATCCTG
Statistics
Matches: 153, Mismatches: 9, Indels: 4
0.92 0.05 0.02
Matches are distributed among these distances:
39 3 0.02
40 150 0.98
ACGTcount: A:0.22, C:0.24, G:0.29, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:62936842 original size:17 final size:17
Alignment explanation
Indices: 62936822--62936858 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 17
62936812 ATGAAAAATA
*
62936822 AAAATAAAAAGAAAAAC
1 AAAAGAAAAAGAAAAAC
*
62936839 AAAAGGAAAAGAAAAAC
1 AAAAGAAAAAGAAAAAC
62936856 AAA
1 AAA
62936859 GTGAAAATAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.81, C:0.05, G:0.11, T:0.03
Consensus pattern (17 bp):
AAAAGAAAAAGAAAAAC
Found at i:62943058 original size:239 final size:239
Alignment explanation
Indices: 62942639--62943115 Score: 954
Period size: 239 Copynumber: 2.0 Consensus size: 239
62942629 CTAATTATCT
62942639 ATAAAGAAGAAAATGAAACGAGATTAGCTTACTTAAGGCTTAGTAAGTTCGTATAATTGAACATA
1 ATAAAGAAGAAAATGAAACGAGATTAGCTTACTTAAGGCTTAGTAAGTTCGTATAATTGAACATA
62942704 TTATACCTATCATTTAAAAGTGTAATAATTGAAACTAGCAACTTAGTATTCCTTTCCATGTTTCA
66 TTATACCTATCATTTAAAAGTGTAATAATTGAAACTAGCAACTTAGTATTCCTTTCCATGTTTCA
62942769 TATTCCTCACCATACCAAATGGTTAGTCATGAACATATAGCATCATCAAAACATGTAGATATCAA
131 TATTCCTCACCATACCAAATGGTTAGTCATGAACATATAGCATCATCAAAACATGTAGATATCAA
62942834 AATACATATACCATACAAATTCAATCCATGAATAACATATCATA
196 AATACATATACCATACAAATTCAATCCATGAATAACATATCATA
62942878 ATAAAGAAGAAAATGAAACGAGATTAGCTTACTTAAGGCTTAGTAAGTTCGTATAATTGAACATA
1 ATAAAGAAGAAAATGAAACGAGATTAGCTTACTTAAGGCTTAGTAAGTTCGTATAATTGAACATA
62942943 TTATACCTATCATTTAAAAGTGTAATAATTGAAACTAGCAACTTAGTATTCCTTTCCATGTTTCA
66 TTATACCTATCATTTAAAAGTGTAATAATTGAAACTAGCAACTTAGTATTCCTTTCCATGTTTCA
62943008 TATTCCTCACCATACCAAATGGTTAGTCATGAACATATAGCATCATCAAAACATGTAGATATCAA
131 TATTCCTCACCATACCAAATGGTTAGTCATGAACATATAGCATCATCAAAACATGTAGATATCAA
62943073 AATACATATACCATACAAATTCAATCCATGAATAACATATCAT
196 AATACATATACCATACAAATTCAATCCATGAATAACATATCAT
62943116 TCCATAAGAT
Statistics
Matches: 238, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
239 238 1.00
ACGTcount: A:0.41, C:0.17, G:0.11, T:0.31
Consensus pattern (239 bp):
ATAAAGAAGAAAATGAAACGAGATTAGCTTACTTAAGGCTTAGTAAGTTCGTATAATTGAACATA
TTATACCTATCATTTAAAAGTGTAATAATTGAAACTAGCAACTTAGTATTCCTTTCCATGTTTCA
TATTCCTCACCATACCAAATGGTTAGTCATGAACATATAGCATCATCAAAACATGTAGATATCAA
AATACATATACCATACAAATTCAATCCATGAATAACATATCATA
Found at i:62946652 original size:17 final size:18
Alignment explanation
Indices: 62946627--62946660 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
62946617 TATAATCTTG
62946627 CTTAAGTTTT-TGCTTAA
1 CTTAAGTTTTGTGCTTAA
*
62946644 CTTATGTTTTGTGCTTA
1 CTTAAGTTTTGTGCTTA
62946661 GTGCGTAGGT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 9 0.60
18 6 0.40
ACGTcount: A:0.18, C:0.12, G:0.15, T:0.56
Consensus pattern (18 bp):
CTTAAGTTTTGTGCTTAA
Found at i:62950989 original size:39 final size:38
Alignment explanation
Indices: 62950881--62950994 Score: 149
Period size: 38 Copynumber: 2.9 Consensus size: 38
62950871 TAATTTAGTT
*
62950881 TAAGTCTTTAATTATATCATAATTTGAACATCATTAATA
1 TAAGT-TTTAATTATGTCATAATTTGAACATCATTAATA
*
62950920 TAAGTTTTAATTATGTCATAATCTGAACATCATTAATA
1 TAAGTTTTAATTATGTCATAATTTGAACATCATTAATA
* * *
62950958 -AGAGTTTTCAATTATGTCATAGTTTGGACATCTTTAA
1 TA-AGTTTT-AATTATGTCATAATTTGAACATCATTAA
62950995 AACATGTTTT
Statistics
Matches: 67, Mismatches: 6, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
37 1 0.01
38 37 0.55
39 29 0.43
ACGTcount: A:0.37, C:0.11, G:0.10, T:0.43
Consensus pattern (38 bp):
TAAGTTTTAATTATGTCATAATTTGAACATCATTAATA
Found at i:62951004 original size:39 final size:37
Alignment explanation
Indices: 62950887--62951013 Score: 130
Period size: 38 Copynumber: 3.3 Consensus size: 37
62950877 AGTTTAAGTC
*
62950887 TTTAATTATATCATAATTTGAACATCATTAATATA-AGT
1 TTTAATTATGTCATAATTTGAACATCATTAA-A-ACAGT
* *
62950925 TTTAATTATGTCATAATCTGAACATCATTAATAAGAGT
1 TTTAATTATGTCATAATTTGAACATCATTAA-AACAGT
* * *
62950963 TTTCAATTATGTCATAGTTTGGACATCTTTAAAACATGTT
1 TTT-AATTATGTCATAATTTGAACATCATTAAAACA-G-T
*
62951003 TTTAAGTATGT
1 TTTAATTATGT
62951014 TTAAATTTTG
Statistics
Matches: 77, Mismatches: 8, Indels: 7
0.84 0.09 0.08
Matches are distributed among these distances:
37 1 0.01
38 40 0.52
39 32 0.42
40 4 0.05
ACGTcount: A:0.36, C:0.09, G:0.10, T:0.44
Consensus pattern (37 bp):
TTTAATTATGTCATAATTTGAACATCATTAAAACAGT
Found at i:62953518 original size:40 final size:40
Alignment explanation
Indices: 62953470--62953675 Score: 308
Period size: 40 Copynumber: 5.2 Consensus size: 40
62953460 GGACTAAGAT
*
62953470 CCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTC
1 CCGAAGGCATTTGTGCTAGTTACTATATCCGGGCTAAGTC
*
62953510 CCGAAGGCATTTGTGCTAGTTACTATATCTGGGCTAAGTC
1 CCGAAGGCATTTGTGCTAGTTACTATATCCGGGCTAAGTC
62953550 CC-AGAGGCATTTGTGCTAGTTACTATATCCGGGCTAAGTC
1 CCGA-AGGCATTTGTGCTAGTTACTATATCCGGGCTAAGTC
* *
62953590 CCGAAGGCATCTGTGCTAGTTACTATATCTGGGCTAAGTC
1 CCGAAGGCATTTGTGCTAGTTACTATATCCGGGCTAAGTC
* * * * *
62953630 CTGAAGGCATTTGTGCGAGTTGCTATATCC-AGCTAAATC
1 CCGAAGGCATTTGTGCTAGTTACTATATCCGGGCTAAGTC
62953669 CCGAAGG
1 CCGAAGG
62953676 TACTTGGGTT
Statistics
Matches: 151, Mismatches: 13, Indels: 5
0.89 0.08 0.03
Matches are distributed among these distances:
39 14 0.09
40 136 0.90
41 1 0.01
ACGTcount: A:0.23, C:0.22, G:0.26, T:0.29
Consensus pattern (40 bp):
CCGAAGGCATTTGTGCTAGTTACTATATCCGGGCTAAGTC
Found at i:62961666 original size:39 final size:40
Alignment explanation
Indices: 62961562--62961726 Score: 280
Period size: 40 Copynumber: 4.2 Consensus size: 40
62961552 GGACTAAGAT
*
62961562 CCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTC
1 CCGAAGGCATTTGTGCTAGTTACTATATCCGGGCTAAGTC
62961602 CCGAAGGCATTTGTGCTAGTTACTATATCCGGGCTAAGTC
1 CCGAAGGCATTTGTGCTAGTTACTATATCCGGGCTAAGTC
62961642 CCGAAGGCA-TTGTGCTAGTTACTATATCCGGGCTAAGTC
1 CCGAAGGCATTTGTGCTAGTTACTATATCCGGGCTAAGTC
* * *
62961681 CCGAAGGCATTTGTGCGAGTTGCTATATCC-GGCTAAATC
1 CCGAAGGCATTTGTGCTAGTTACTATATCCGGGCTAAGTC
62961720 CCGAAGG
1 CCGAAGG
62961727 TACTTGGGTT
Statistics
Matches: 120, Mismatches: 4, Indels: 3
0.94 0.03 0.02
Matches are distributed among these distances:
39 54 0.45
40 66 0.55
ACGTcount: A:0.23, C:0.23, G:0.27, T:0.27
Consensus pattern (40 bp):
CCGAAGGCATTTGTGCTAGTTACTATATCCGGGCTAAGTC
Found at i:62961687 original size:79 final size:79
Alignment explanation
Indices: 62961562--62961726 Score: 278
Period size: 79 Copynumber: 2.1 Consensus size: 79
62961552 GGACTAAGAT
*
62961562 CCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTTACTA
1 CCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA
*
62961627 TATCCGGGCTAAGTC
66 TATCC-GGCTAAATC
* *
62961642 CCGAAGGCA-TTGTGCTAGTTACTATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTGCTA
1 CCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA
62961706 TATCCGGCTAAATC
66 TATCCGGCTAAATC
62961720 CCGAAGG
1 CCGAAGG
62961727 TACTTGGGTT
Statistics
Matches: 81, Mismatches: 4, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
78 15 0.19
79 57 0.70
80 9 0.11
ACGTcount: A:0.23, C:0.23, G:0.27, T:0.27
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA
TATCCGGCTAAATC
Found at i:62969229 original size:39 final size:40
Alignment explanation
Indices: 62969128--62969369 Score: 300
Period size: 39 Copynumber: 6.1 Consensus size: 40
62969118 TTGAATGATG
* * *
62969128 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATA
*
62969168 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTA-A
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTATA
* *
62969207 TTCCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTAAA
1 -TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA
62969247 TCCGGG-TAAGTCCCGAAGGCATTTGTGCGAGTTACTATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA
*
62969286 ACCGGGCTAAGT-CCGAAGGCATTTGTGCGAGTTACTATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA
* * **
62969325 ACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGCTATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATA
62969365 TCCGG
1 TCCGG
62969370 TTAAATTCCG
Statistics
Matches: 180, Mismatches: 13, Indels: 18
0.85 0.06 0.09
Matches are distributed among these distances:
38 4 0.02
39 102 0.57
40 66 0.37
41 8 0.04
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA
Found at i:62977329 original size:40 final size:39
Alignment explanation
Indices: 62977285--62977387 Score: 118
Period size: 39 Copynumber: 2.6 Consensus size: 39
62977275 AGTGACCATA
* *
62977285 TCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTACTAAT
1 TCCGGACTAAG-CCCGAAGGCATTGGTGCGAGTTACTAAT
*
62977325 TCCGGGCTAAGCCCGAAGGCATTGGTGCGAGTTACT-AT
1 TCCGGACTAAGCCCGAAGGCATTGGTGCGAGTTACTAAT
* * *
62977363 AACCGGGCTATGTCCCGAAGGCATT
1 -TCCGGACTAAG-CCCGAAGGCATT
62977388 TGAACGAGTA
Statistics
Matches: 56, Mismatches: 5, Indels: 4
0.86 0.08 0.06
Matches are distributed among these distances:
38 2 0.04
39 32 0.57
40 22 0.39
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.24
Consensus pattern (39 bp):
TCCGGACTAAGCCCGAAGGCATTGGTGCGAGTTACTAAT
Found at i:62977346 original size:39 final size:40
Alignment explanation
Indices: 62977245--62977408 Score: 176
Period size: 40 Copynumber: 4.1 Consensus size: 40
62977235 TTGAATGATG
* * *
62977245 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATA
*
62977285 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTA-A
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTATA
*
62977324 TTCCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTATA
1 -TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA
* * **
62977364 ACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGCTATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATA
62977404 TCCGG
1 TCCGG
62977409 TTAAATTCCG
Statistics
Matches: 105, Mismatches: 12, Indels: 14
0.80 0.09 0.11
Matches are distributed among these distances:
39 36 0.34
40 61 0.58
41 8 0.08
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.24
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA
Found at i:62977408 original size:79 final size:80
Alignment explanation
Indices: 62977245--62977396 Score: 184
Period size: 79 Copynumber: 1.9 Consensus size: 80
62977235 TTGAATGATG
* *
62977245 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATTT
1 TCCGGGCTAAGTCCCGAAGGCTTGGTGCTAAGTGACCATAACCGGACTAAGATCCGAAGGCATTT
**
62977310 GTGCGAGTTACTAAT
66 GAACGAGTTACTAAT
* * * * *
62977325 TCCGGGCTAAG-CCCGAAGGCATTGGTGC-GAGTTACTATAACCGGGCTATG-TCCCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGC-TTGGTGCTAAGTGACCATAACCGGACTAAGAT-CCGAAGGCAT
62977387 TTGAACGAGT
64 TTGAACGAGT
62977397 AGCTATATCC
Statistics
Matches: 61, Mismatches: 9, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
78 1 0.02
79 43 0.70
80 17 0.28
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.24
Consensus pattern (80 bp):
TCCGGGCTAAGTCCCGAAGGCTTGGTGCTAAGTGACCATAACCGGACTAAGATCCGAAGGCATTT
GAACGAGTTACTAAT
Found at i:62980179 original size:38 final size:40
Alignment explanation
Indices: 62980136--62980227 Score: 136
Period size: 38 Copynumber: 2.4 Consensus size: 40
62980126 AGTTTAAGTC
* *
62980136 TTTAATTATATCATAAAT-TGAACATCATTAATATGAG-T
1 TTTAATTATGTCATAAATCTGAACATCATTAATAAGAGTT
*
62980174 TTTAATTATGTCAT-AATCTGAACATCATTAGTAAGAGTT
1 TTTAATTATGTCATAAATCTGAACATCATTAATAAGAGTT
62980213 TTTAATTATGTCATA
1 TTTAATTATGTCATA
62980228 GTTTGGACAT
Statistics
Matches: 48, Mismatches: 3, Indels: 4
0.87 0.05 0.07
Matches are distributed among these distances:
37 3 0.06
38 30 0.62
39 15 0.31
ACGTcount: A:0.38, C:0.09, G:0.10, T:0.43
Consensus pattern (40 bp):
TTTAATTATGTCATAAATCTGAACATCATTAATAAGAGTT
Found at i:62984647 original size:18 final size:20
Alignment explanation
Indices: 62984621--62984660 Score: 57
Period size: 19 Copynumber: 2.1 Consensus size: 20
62984611 TATAGATGAG
*
62984621 ATATAATTGA-TGTACGAGA
1 ATATAATTGATTGTACCAGA
62984640 ATAT-ATTGATTGTACCAGA
1 ATATAATTGATTGTACCAGA
62984659 AT
1 AT
62984661 CCAACATTTG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 5 0.26
19 14 0.74
ACGTcount: A:0.40, C:0.07, G:0.17, T:0.35
Consensus pattern (20 bp):
ATATAATTGATTGTACCAGA
Found at i:62985435 original size:22 final size:22
Alignment explanation
Indices: 62985407--62985452 Score: 76
Period size: 22 Copynumber: 2.1 Consensus size: 22
62985397 GGTTCATGAG
62985407 TTGAACCAAAAATGT-TGTTGGT
1 TTGAACCAAAAAT-TATGTTGGT
62985429 TTGAACCAAAAATTATGTTGGT
1 TTGAACCAAAAATTATGTTGGT
62985451 TT
1 TT
62985453 TGGATGTCTT
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
21 1 0.04
22 22 0.96
ACGTcount: A:0.33, C:0.09, G:0.20, T:0.39
Consensus pattern (22 bp):
TTGAACCAAAAATTATGTTGGT
Found at i:62988499 original size:6 final size:6
Alignment explanation
Indices: 62988488--62988521 Score: 68
Period size: 6 Copynumber: 5.7 Consensus size: 6
62988478 TATAAAACCC
62988488 AAAAAG AAAAAG AAAAAG AAAAAG AAAAAG AAAA
1 AAAAAG AAAAAG AAAAAG AAAAAG AAAAAG AAAA
62988522 GGCAAACAAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 28 1.00
ACGTcount: A:0.85, C:0.00, G:0.15, T:0.00
Consensus pattern (6 bp):
AAAAAG
Found at i:62994004 original size:43 final size:41
Alignment explanation
Indices: 62993956--62994089 Score: 135
Period size: 43 Copynumber: 3.2 Consensus size: 41
62993946 AGGATTTCCT
*
62993956 ATATGTGTTCTCGTGTAAGACGATGTTTGGGACATTAGCATCG
1 ATATGTGTT-TCGTGTAAGACGATGTCTGGGACA-TAGCATCG
* *
62993999 ATATGTGATTACGTGTAAGACGATGTCTGGGACATCGACATC-
1 ATATGTG-TTTCGTGTAAGACGATGTCTGGGACATAG-CATCG
* * * ** *
62994041 ATATTTGATTCGTGTAAAACCCTGTCTGGGACAATGGCATCG
1 ATATGTGTTTCGTGTAAGACGATGTCTGGGAC-ATAGCATCG
62994083 ATATGTG
1 ATATGTG
62994090 ATAGCATGTA
Statistics
Matches: 76, Mismatches: 11, Indels: 9
0.79 0.11 0.09
Matches are distributed among these distances:
41 24 0.32
42 17 0.22
43 33 0.43
44 2 0.03
ACGTcount: A:0.26, C:0.16, G:0.26, T:0.32
Consensus pattern (41 bp):
ATATGTGTTTCGTGTAAGACGATGTCTGGGACATAGCATCG
Found at i:62997326 original size:17 final size:18
Alignment explanation
Indices: 62997294--62997328 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
62997284 CGTTGGGCTA
*
62997294 AATGGGCTGTGTGGGCCC
1 AATGGGCTGAGTGGGCCC
62997312 AATGGGCT-AGTGGGCCC
1 AATGGGCTGAGTGGGCCC
62997329 CACACAGATA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 8 0.50
18 8 0.50
ACGTcount: A:0.14, C:0.23, G:0.43, T:0.20
Consensus pattern (18 bp):
AATGGGCTGAGTGGGCCC
Found at i:62997569 original size:28 final size:27
Alignment explanation
Indices: 62997516--62997578 Score: 65
Period size: 28 Copynumber: 2.3 Consensus size: 27
62997506 GACCCTGATT
** *
62997516 TGTAAAATTACCGAAATACCCTTGTAG
1 TGTAAAATTACAAAAATACCCTTGTAA
62997543 TGTAAAATTATCAAAAATATCCC-TGTAA
1 TGTAAAATTA-CAAAAATA-CCCTTGTAA
*
62997571 AGTAAAAT
1 TGTAAAAT
62997579 GGTTATTTTG
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
27 10 0.33
28 17 0.57
29 3 0.10
ACGTcount: A:0.44, C:0.14, G:0.11, T:0.30
Consensus pattern (27 bp):
TGTAAAATTACAAAAATACCCTTGTAA
Found at i:63001985 original size:28 final size:27
Alignment explanation
Indices: 63001927--63001987 Score: 77
Period size: 28 Copynumber: 2.2 Consensus size: 27
63001917 CCCCGGTTTT
* *
63001927 TAAAATTACCGAAATACCCTTGCAGTG
1 TAAAATTACCGAAATACCCCTGCAGGG
* *
63001954 TAAAATTACCGAAAATGCCCCTGTAGGG
1 TAAAATTACCG-AAATACCCCTGCAGGG
63001982 TAAAAT
1 TAAAAT
63001988 GATTGTTTTG
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
27 11 0.38
28 18 0.62
ACGTcount: A:0.39, C:0.20, G:0.16, T:0.25
Consensus pattern (27 bp):
TAAAATTACCGAAATACCCCTGCAGGG
Found at i:63007286 original size:46 final size:47
Alignment explanation
Indices: 63007188--63007358 Score: 174
Period size: 46 Copynumber: 3.7 Consensus size: 47
63007178 ATTGTGAGCT
* * * *
63007188 AGTGTAAGATCATGTCTGGGACATGGCATCAGCATCGAGAC-AAGTCC
1 AGTGTAAGACCATGTCTAGGACATGGCATCGGCCTCGAGACGAAG-CC
*
63007235 TAGTGTAAGA-CATGTCTAGGACAT-GCATCGGCCTCGAGGCGTAAGCC
1 -AGTGTAAGACCATGTCTAGGACATGGCATCGGCCTCGAGACG-AAGCC
* * *
63007282 AGTGTAAGA-CATGTCTGGGACAT-GCATCGG-CTACGAGATGATAGTC
1 AGTGTAAGACCATGTCTAGGACATGGCATCGGCCT-CGAGACGA-AGCC
*
63007328 AATGTAAGACCATGTCTAGGACATGGCATCG
1 AGTGTAAGACCATGTCTAGGACATGGCATCG
63007359 ACTTGAGGTA
Statistics
Matches: 107, Mismatches: 10, Indels: 12
0.83 0.08 0.09
Matches are distributed among these distances:
45 3 0.03
46 58 0.54
47 28 0.26
48 18 0.17
ACGTcount: A:0.29, C:0.20, G:0.29, T:0.22
Consensus pattern (47 bp):
AGTGTAAGACCATGTCTAGGACATGGCATCGGCCTCGAGACGAAGCC
Found at i:63007348 original size:93 final size:95
Alignment explanation
Indices: 63007188--63007403 Score: 239
Period size: 93 Copynumber: 2.3 Consensus size: 95
63007178 ATTGTGAGCT
*
63007188 AGTGTAAGATCATGTCTGGGACATGGCATCAGCATCGAGACAAGTCCTAGTGTAAGACATGTCTA
1 AGTGTAAGATCATGTCTGGGACATGGCATCAGCATCGAGACAAGTCCTAATGTAAGACATGTCTA
63007253 GGACAT-GCATCGGCCTCGAGGCGTAAGCC
66 GGACATGGCATCGGCCTCGAGGCGTAAGCC
* *
63007282 AGTGTAAGA-CATGTCTGGGACAT-GCATCGGC-TACGAGATGATAGT-C-AATGTAAGACCATG
1 AGTGTAAGATCATGTCTGGGACATGGCATCAGCAT-CGAGA-CA-AGTCCTAATGTAAGA-CATG
* * ** * *
63007342 TCTAGGACATGGCATC-GACTTGAGGTATGAGCT
62 TCTAGGACATGGCATCGGCCTCGAGGCGTAAGCC
* * *
63007375 ACTGTAAGACCATGTCTGTGACATGGCAT
1 AGTGTAAGATCATGTCTGGGACATGGCAT
63007404 TGGCACCTTA
Statistics
Matches: 104, Mismatches: 11, Indels: 13
0.81 0.09 0.10
Matches are distributed among these distances:
91 1 0.01
92 20 0.19
93 49 0.47
94 30 0.29
95 4 0.04
ACGTcount: A:0.28, C:0.20, G:0.28, T:0.24
Consensus pattern (95 bp):
AGTGTAAGATCATGTCTGGGACATGGCATCAGCATCGAGACAAGTCCTAATGTAAGACATGTCTA
GGACATGGCATCGGCCTCGAGGCGTAAGCC
Found at i:63010725 original size:9 final size:9
Alignment explanation
Indices: 63010711--63010739 Score: 58
Period size: 9 Copynumber: 3.2 Consensus size: 9
63010701 TGGCCCCAAC
63010711 AGAGTTGAA
1 AGAGTTGAA
63010720 AGAGTTGAA
1 AGAGTTGAA
63010729 AGAGTTGAA
1 AGAGTTGAA
63010738 AG
1 AG
63010740 TACAACTGCA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.45, C:0.00, G:0.34, T:0.21
Consensus pattern (9 bp):
AGAGTTGAA
Found at i:63014228 original size:28 final size:28
Alignment explanation
Indices: 63014188--63014278 Score: 130
Period size: 28 Copynumber: 3.3 Consensus size: 28
63014178 TGGGAAGTAG
63014188 TTGGGCCTGATGGGCCATATGAATGTGA
1 TTGGGCCTGATGGGCCATATGAATGTGA
63014216 TTGGGCCTGATGGGCCATATGAATGTGA
1 TTGGGCCTGATGGGCCATATGAATGTGA
* * * * *
63014244 TCGGGCCTAAT-GGCCATGTGAACGAGA
1 TTGGGCCTGATGGGCCATATGAATGTGA
63014271 TTGGGCCT
1 TTGGGCCT
63014279 AAAGGGGCCA
Statistics
Matches: 57, Mismatches: 6, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
27 20 0.35
28 37 0.65
ACGTcount: A:0.21, C:0.18, G:0.35, T:0.26
Consensus pattern (28 bp):
TTGGGCCTGATGGGCCATATGAATGTGA
Found at i:63014276 original size:27 final size:28
Alignment explanation
Indices: 63014188--63014295 Score: 128
Period size: 28 Copynumber: 3.9 Consensus size: 28
63014178 TGGGAAGTAG
*
63014188 TTGGGCCTGATGGGCCATATGAATGTGA
1 TTGGGCCTAATGGGCCATATGAATGTGA
*
63014216 TTGGGCCTGATGGGCCATATGAATGTGA
1 TTGGGCCTAATGGGCCATATGAATGTGA
* * * *
63014244 TCGGGCCTAAT-GGCCATGTGAACGAGA
1 TTGGGCCTAATGGGCCATATGAATGTGA
* *
63014271 TTGGGCCTAAAGGGGCCAAATGAAT
1 TTGGGCCT-AATGGGCCATATGAAT
63014296 AAGTGTGGAT
Statistics
Matches: 68, Mismatches: 10, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
27 20 0.29
28 39 0.57
29 9 0.13
ACGTcount: A:0.25, C:0.17, G:0.34, T:0.24
Consensus pattern (28 bp):
TTGGGCCTAATGGGCCATATGAATGTGA
Found at i:63014294 original size:56 final size:56
Alignment explanation
Indices: 63014190--63014295 Score: 133
Period size: 55 Copynumber: 1.9 Consensus size: 56
63014180 GGAAGTAGTT
* * * * * *
63014190 GGGCCTGATGGGCCATATGAATGTGATTGGGCCTGATGGGCCATATGAATGTGATC
1 GGGCCTAATGGGCCATATGAACGAGATTGGGCCTAAGGGGCCAAATGAATGTGATC
*
63014246 GGGCCTAAT-GGCCATGTGAACGAGATTGGGCCTAAAGGGGCCAAATGAAT
1 GGGCCTAATGGGCCATATGAACGAGATTGGGCCT-AAGGGGCCAAATGAAT
63014296 AAGTGTGGAT
Statistics
Matches: 42, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
55 21 0.50
56 21 0.50
ACGTcount: A:0.25, C:0.17, G:0.35, T:0.23
Consensus pattern (56 bp):
GGGCCTAATGGGCCATATGAACGAGATTGGGCCTAAGGGGCCAAATGAATGTGATC
Found at i:63014611 original size:27 final size:27
Alignment explanation
Indices: 63014553--63014892 Score: 312
Period size: 27 Copynumber: 12.7 Consensus size: 27
63014543 TAATAAAGAG
63014553 AAATTACCGAAATACCC-C-AGTTTGTA
1 AAATTACCGAAATACCCTCGA-TTTGTA
* * *
63014579 AAATTACCGAAACACCTTCAATTTGTA
1 AAATTACCGAAATACCCTCGATTTGTA
* *
63014606 AAATTATCAAAATACCC-CTGATTTGTA
1 AAATTACCGAAATACCCTC-GATTTGTA
** * * *
63014633 AAATTACTAAAATACCTTTGA-TTGTG
1 AAATTACCGAAATACCCTCGATTTGTA
** *
63014659 AAATTATTGAAATACCCTCGATTAGTA
1 AAATTACCGAAATACCCTCGATTTGTA
* * *
63014686 AAATTACCAAAATACCCTTGATTTGTG
1 AAATTACCGAAATACCCTCGATTTGTA
* *
63014713 AAATTACCAAAACACCCTCGATTTGTA
1 AAATTACCGAAATACCCTCGATTTGTA
*
63014740 AAATTACTGAAATACCCTCGATTTGTA
1 AAATTACCGAAATACCCTCGATTTGTA
** * ** *
63014767 AAATTATTGAGATACCCTTAATTTTTA
1 AAATTACCGAAATACCCTCGATTTGTA
63014794 AAATTACCGAAATACCCTCGATTTGTA
1 AAATTACCGAAATACCCTCGATTTGTA
* * * *
63014821 AAATTACCAAAACACCCCCGATTTATA
1 AAATTACCGAAATACCCTCGATTTGTA
* * *
63014848 AAATTATCGAAATACCCTTG-TAGTGTA
1 AAATTACCGAAATACCCTCGAT-TTGTA
**
63014875 AAATTACTAAAATACCCT
1 AAATTACCGAAATACCCT
63014893 TGTAGTGTAA
Statistics
Matches: 253, Mismatches: 55, Indels: 11
0.79 0.17 0.03
Matches are distributed among these distances:
26 38 0.15
27 214 0.85
28 1 0.00
ACGTcount: A:0.40, C:0.19, G:0.09, T:0.32
Consensus pattern (27 bp):
AAATTACCGAAATACCCTCGATTTGTA
Found at i:63014771 original size:81 final size:81
Alignment explanation
Indices: 63014553--63014919 Score: 375
Period size: 81 Copynumber: 4.6 Consensus size: 81
63014543 TAATAAAGAG
* * * * *
63014553 AAATTACCGAAATACCC-C-AGTTTGTAAAATTACCGAAACACCTTCAATTTGTAAAATTATCAA
1 AAATTACCAAAATACCCTCGA-TTTGTAAAATTACTGAAATACCCTCGATTTGTAAAATTATCAA
*
63014616 AATACCCCTGATTTGTA
65 AATACCCTTGATTTGTA
* * * * * * *
63014633 AAATTACTAAAATACCTTTGA-TTGTGAAATTATTGAAATACCCTCGATTAGTAAAATTACCAAA
1 AAATTACCAAAATACCCTCGATTTGTAAAATTACTGAAATACCCTCGATTTGTAAAATTATCAAA
*
63014697 ATACCCTTGATTTGTG
66 ATACCCTTGATTTGTA
* ** *
63014713 AAATTACCAAAACACCCTCGATTTGTAAAATTACTGAAATACCCTCGATTTGTAAAATTATTGAG
1 AAATTACCAAAATACCCTCGATTTGTAAAATTACTGAAATACCCTCGATTTGTAAAATTATCAAA
* *
63014778 ATACCCTTAATTTTTA
66 ATACCCTTGATTTGTA
* ** * * * *
63014794 AAATTACCGAAATACCCTCGATTTGTAAAATTACCAAAACACCCCCGATTTATAAAATTATCGAA
1 AAATTACCAAAATACCCTCGATTTGTAAAATTACTGAAATACCCTCGATTTGTAAAATTATCAAA
*
63014859 ATACCCTTG-TAGTGTA
66 ATACCCTTGAT-TTGTA
* * * * *
63014875 AAATTACTAAAATACCCTTG-TAGTGTAAAATGACTGACATACCCT
1 AAATTACCAAAATACCCTCGAT-TTGTAAAATTACTGAAATACCCT
63014920 TGTAGGGTAA
Statistics
Matches: 232, Mismatches: 50, Indels: 9
0.80 0.17 0.03
Matches are distributed among these distances:
80 82 0.35
81 149 0.64
82 1 0.00
ACGTcount: A:0.39, C:0.19, G:0.10, T:0.32
Consensus pattern (81 bp):
AAATTACCAAAATACCCTCGATTTGTAAAATTACTGAAATACCCTCGATTTGTAAAATTATCAAA
ATACCCTTGATTTGTA
Found at i:63014922 original size:27 final size:27
Alignment explanation
Indices: 63014856--63014937 Score: 128
Period size: 27 Copynumber: 3.0 Consensus size: 27
63014846 TAAAATTATC
*
63014856 GAAATACCCTTGTAGTGTAAAATTACT
1 GAAATACCCTTGTAGTGTAAAATGACT
*
63014883 AAAATACCCTTGTAGTGTAAAATGACT
1 GAAATACCCTTGTAGTGTAAAATGACT
* *
63014910 GACATACCCTTGTAGGGTAAAATGACT
1 GAAATACCCTTGTAGTGTAAAATGACT
63014937 G
1 G
63014938 TTTTTCCCTT
Statistics
Matches: 50, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
27 50 1.00
ACGTcount: A:0.37, C:0.16, G:0.18, T:0.29
Consensus pattern (27 bp):
GAAATACCCTTGTAGTGTAAAATGACT
Found at i:63017754 original size:20 final size:18
Alignment explanation
Indices: 63017720--63017756 Score: 56
Period size: 20 Copynumber: 1.9 Consensus size: 18
63017710 GCAACTCATA
63017720 ATTTCAACTATTTTACAC
1 ATTTCAACTATTTTACAC
63017738 ATTTACAACTCATTTTACA
1 ATTT-CAACT-ATTTTACA
63017757 ACTTAGCAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 4 0.24
19 5 0.29
20 8 0.47
ACGTcount: A:0.35, C:0.22, G:0.00, T:0.43
Consensus pattern (18 bp):
ATTTCAACTATTTTACAC
Found at i:63018700 original size:26 final size:26
Alignment explanation
Indices: 63018659--63018726 Score: 118
Period size: 26 Copynumber: 2.6 Consensus size: 26
63018649 TTATTGCGAT
*
63018659 ATGGGCTTCGGCCCAACTGAGGCTAAG
1 ATGGGC-TAGGCCCAACTGAGGCTAAG
63018686 ATGGGCTAGGCCCAACTGAGGCTAAG
1 ATGGGCTAGGCCCAACTGAGGCTAAG
63018712 ATGGGCTAGGCCCAA
1 ATGGGCTAGGCCCAA
63018727 TTGATTTTGT
Statistics
Matches: 40, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
26 34 0.85
27 6 0.15
ACGTcount: A:0.25, C:0.25, G:0.34, T:0.16
Consensus pattern (26 bp):
ATGGGCTAGGCCCAACTGAGGCTAAG
Found at i:63018758 original size:27 final size:27
Alignment explanation
Indices: 63018722--63018773 Score: 77
Period size: 27 Copynumber: 1.9 Consensus size: 27
63018712 ATGGGCTAGG
* * *
63018722 CCCAATTGATTTTGTTATGGGCTTTGA
1 CCCAAATGATATTGTAATGGGCTTTGA
63018749 CCCAAATGATATTGTAATGGGCTTT
1 CCCAAATGATATTGTAATGGGCTTT
63018774 AGCCCACGTA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 22 1.00
ACGTcount: A:0.23, C:0.15, G:0.21, T:0.40
Consensus pattern (27 bp):
CCCAAATGATATTGTAATGGGCTTTGA
Found at i:63018779 original size:27 final size:26
Alignment explanation
Indices: 63018712--63018779 Score: 73
Period size: 27 Copynumber: 2.5 Consensus size: 26
63018702 TGAGGCTAAG
** * * *
63018712 ATGGGCTAGGCCCAATTGATTTTGTT
1 ATGGGCTTTGCCCAAATGATATTGTA
63018738 ATGGGCTTTGACCCAAATGATATTGTA
1 ATGGGCTTTG-CCCAAATGATATTGTA
63018765 ATGGGCTTTAGCCCA
1 ATGGGCTTT-GCCCA
63018780 CGTATGCTCT
Statistics
Matches: 35, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
26 8 0.23
27 26 0.74
28 1 0.03
ACGTcount: A:0.24, C:0.18, G:0.25, T:0.34
Consensus pattern (26 bp):
ATGGGCTTTGCCCAAATGATATTGTA
Found at i:63021964 original size:389 final size:380
Alignment explanation
Indices: 63021248--63022019 Score: 1391
Period size: 389 Copynumber: 2.0 Consensus size: 380
63021238 GAAGATTGAA
63021248 TTGGTGCTAGTAGTTTGTGAGTTTATAGATGTGTTTCTAGAAGAATTGCCCGGATTACCACCAGC
1 TTGGTGCTAGTAGTTTGTGAGTTTATAGATGTGTTTCTAGAAGAATTGCCCGGATTACCACCAGC
*
63021313 TAGGGAATTTGAATTCGGCATCGAGTTGGTTCCTAGTATGGCACCTATCTCGATCCCTCCTTATA
66 TAGGGAATTTGAATTCGGCATCGAGTTGGTCCCTAGTATGGCACCTATCTCGATCCCTCCTTATA
63021378 GAATGCCCCCAACAGAGTTCAAAGAGTTAAAAGTACAACTGCAAGAGTTAACGGATAAAGGTTCT
131 GAATGCCCCCAACAGAGTTCAAAGAGTTAAAAGTACAACTGCAAGAGTTAACGGATAAAGGTTCT
63021443 ATGAGACCTAGTTATTCACCGTGGGCGCACCAGTGTTGTTTGTGAAAAAAGAAAGACAGGTCGAT
196 ATGAGACCTAGTTATTCACCGTGGGCGCACCAGTGTTGTTTGTGAAAAAAGAAAGACAGGTCGAT
63021508 GAGGTTATGTATTGATTATAGATAGCTTAATAAGGTAACTGTGAAGAACAAGTATCCTTTTCCAA
261 GAGGTTATGTATTGATTATAGATAGCTTAATAAGGTAACTGTGAAGAACAAGTATCCTTTT----
* *
63021573 GGACCAAGGATTGATGATTTATTCGATTAGTTGAAGGGAGCCACGGTGTTCTCCAATATAGAC
322 ---CCAAGGATTGATGATTTATTCGATCAGTTGAAGAGAGCCA-GGTGTTCTCCAATATAGAC
* *
63021636 TTGGTGCTAGTAGTTTGTGAGTTTATAGATGTGTTTCTGGAAGAATTGTCCGGATTACCACCAGC
1 TTGGTGCTAGTAGTTTGTGAGTTTATAGATGTGTTTCTAGAAGAATTGCCCGGATTACCACCAGC
*
63021701 TAGGGAATTTGAATTCGGCTTCGAGTTGGTCCCTAGTATGGCACCTATCTCGATCCCTCCTTATA
66 TAGGGAATTTGAATTCGGCATCGAGTTGGTCCCTAGTATGGCACCTATCTCGATCCCTCCTTATA
* *
63021766 GAATGGGCCCCAACAGAGTTCAAAGAGTTAAAATTACAACTGCAAGAGTTAACGGATAAAGGTTC
131 GAAT-GCCCCCAACAGAGTTCAAAGAGTTAAAAGTACAACTGCAAGAGTTAACGGATAAAGGTTC
63021831 TATGAGACCTAGTTATTCACCGTGGGCGCACCAGTGTTGTTTGTGAAAAAAGAAAGACAGGTCGA
195 TATGAGACCTAGTTATTCACCGTGGGCGCACCAGTGTTGTTTGTGAAAAAAGAAAGACAGGTCGA
63021896 TGAGGTTATGTATTGATTATAGATAGCTTAATAAGGTAACTGTGAAGAACAAGTATCCTTTTCCA
260 TGAGGTTATGTATTGATTATAGATAGCTTAATAAGGTAACTGTGAAGAACAAGTATCCTTTTCCA
63021961 AGGATTGATGATTTATTCGATCAGTTGAAGAGAGCCAGGTGTTCTCCAATATAGAC
325 AGGATTGATGATTTATTCGATCAGTTGAAGAGAGCCAGGTGTTCTCCAATATAGAC
63022017 TTG
1 TTG
63022020 AGGTCTGGTT
Statistics
Matches: 375, Mismatches: 8, Indels: 9
0.96 0.02 0.02
Matches are distributed among these distances:
381 22 0.06
382 38 0.10
388 130 0.35
389 185 0.49
ACGTcount: A:0.30, C:0.16, G:0.24, T:0.30
Consensus pattern (380 bp):
TTGGTGCTAGTAGTTTGTGAGTTTATAGATGTGTTTCTAGAAGAATTGCCCGGATTACCACCAGC
TAGGGAATTTGAATTCGGCATCGAGTTGGTCCCTAGTATGGCACCTATCTCGATCCCTCCTTATA
GAATGCCCCCAACAGAGTTCAAAGAGTTAAAAGTACAACTGCAAGAGTTAACGGATAAAGGTTCT
ATGAGACCTAGTTATTCACCGTGGGCGCACCAGTGTTGTTTGTGAAAAAAGAAAGACAGGTCGAT
GAGGTTATGTATTGATTATAGATAGCTTAATAAGGTAACTGTGAAGAACAAGTATCCTTTTCCAA
GGATTGATGATTTATTCGATCAGTTGAAGAGAGCCAGGTGTTCTCCAATATAGAC
Found at i:63026138 original size:19 final size:20
Alignment explanation
Indices: 63026114--63026151 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
63026104 GGTACCACCA
63026114 AAACAT-ATATCA-CATCTTT
1 AAACATCAT-TCATCATCTTT
63026133 AAACATCATTCATCATCTT
1 AAACATCATTCATCATCTT
63026152 ACCACCTTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.39, C:0.24, G:0.00, T:0.37
Consensus pattern (20 bp):
AAACATCATTCATCATCTTT
Found at i:63026447 original size:46 final size:45
Alignment explanation
Indices: 63026380--63026544 Score: 174
Period size: 46 Copynumber: 3.6 Consensus size: 45
63026370 CGCCCCTAAG
* *
63026380 TGAACTCAGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAA
1 TGAACTCGGACTCAACTCAACGAGTTCGGGCGTT-GCATCCATAAA
* *
63026426 TGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT-C-T-CA
1 TGAACTCGGACTCAACTCAACGAGTTCGG--G-C--GTTGCATCCATAAA
* * * *
63026473 CGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCATAAG
1 TGAACTCGGACTCAACTCAACGAGTTCGGGC-GTTGCATCCATAAA
63026519 TGAACTCGGACTCAACTCAACGAGTT
1 TGAACTCGGACTCAACTCAACGAGTT
63026545 TGGATGCTCA
Statistics
Matches: 100, Mismatches: 11, Indels: 16
0.79 0.09 0.13
Matches are distributed among these distances:
43 6 0.06
44 2 0.02
45 1 0.01
46 52 0.52
47 29 0.29
48 2 0.02
49 2 0.02
50 3 0.03
51 3 0.03
ACGTcount: A:0.30, C:0.28, G:0.19, T:0.22
Consensus pattern (45 bp):
TGAACTCGGACTCAACTCAACGAGTTCGGGCGTTGCATCCATAAA
Found at i:63026492 original size:93 final size:93
Alignment explanation
Indices: 63026381--63026551 Score: 279
Period size: 93 Copynumber: 1.8 Consensus size: 93
63026371 GCCCCTAAGT
* *
63026381 GAACTCAGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAATGAACTCGGACTCAACTCAA
1 GAACTCAGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAATGAACTCGGACTCAACTCAA
63026446 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
* * * *
63026474 GAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCAGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAATGAACTCGGACTCAACTCAA
*
63026539 CGAGTTTGGATGC
66 CGAGTTCGGATGC
63026552 TCAACCATCC
Statistics
Matches: 71, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
93 71 1.00
ACGTcount: A:0.29, C:0.28, G:0.20, T:0.22
Consensus pattern (93 bp):
GAACTCAGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAATGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:63026567 original size:46 final size:45
Alignment explanation
Indices: 63026426--63026567 Score: 123
Period size: 46 Copynumber: 3.1 Consensus size: 45
63026416 CATCCATAAA
63026426 TGAACTCGGACTCAACTCAACGAGTTCGGATGC-CTAGTTA-CATCTCA-
1 TGAACTCGGACTCAACTCAACGAGTTCGGATGCTC-A---ACCATCT-AG
* * * *
63026473 CGAACTCGGACTCAACTCAACGAGTTCGGACAT-TTGCATCCAT-AAG
1 TGAACTCGGACTCAACTCAACGAGTTCGG--ATGCT-CAACCATCTAG
*
63026519 TGAACTCGGACTCAACTCAACGAGTTTGGATGCTCAACCATCCTAG
1 TGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCAT-CTAG
63026565 TGA
1 TGA
63026568 TATGTCACTT
Statistics
Matches: 77, Mismatches: 9, Indels: 19
0.73 0.09 0.18
Matches are distributed among these distances:
44 8 0.10
45 2 0.03
46 32 0.42
47 31 0.40
49 3 0.04
50 1 0.01
ACGTcount: A:0.29, C:0.27, G:0.20, T:0.24
Consensus pattern (45 bp):
TGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCATCTAG
Found at i:63027003 original size:29 final size:30
Alignment explanation
Indices: 63026970--63027028 Score: 75
Period size: 29 Copynumber: 2.0 Consensus size: 30
63026960 ATTTAATACG
63026970 AACTTTAAAAAAATTACAC-TTTGCCCCTA
1 AACTTTAAAAAAATTACACTTTTGCCCCTA
*** *
63026999 AACTTTTGCATAATTACACTTTTGCCCCTA
1 AACTTTAAAAAAATTACACTTTTGCCCCTA
63027029 GGCTCGGGAA
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
29 15 0.60
30 10 0.40
ACGTcount: A:0.34, C:0.25, G:0.05, T:0.36
Consensus pattern (30 bp):
AACTTTAAAAAAATTACACTTTTGCCCCTA
Found at i:63030950 original size:19 final size:20
Alignment explanation
Indices: 63030926--63030963 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
63030916 GGTACCACCA
63030926 AAACAT-ATATCA-CATCTTT
1 AAACATCAT-TCATCATCTTT
63030945 AAACATCATTCATCATCTT
1 AAACATCATTCATCATCTT
63030964 ACCACCTTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.39, C:0.24, G:0.00, T:0.37
Consensus pattern (20 bp):
AAACATCATTCATCATCTTT
Found at i:63031816 original size:30 final size:30
Alignment explanation
Indices: 63031782--63031842 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 30
63031772 CATTTAATAC
*
63031782 AAACTTTAAAAAAATTACACTTTTTCCCCT
1 AAACTTTAAAAAAATTACACTTTTGCCCCT
* * *
63031812 AAACTTTTACATAATTACACTTTTGCCCCT
1 AAACTTTAAAAAAATTACACTTTTGCCCCT
63031842 A
1 A
63031843 GGCTCGGGAA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.36, C:0.25, G:0.02, T:0.38
Consensus pattern (30 bp):
AAACTTTAAAAAAATTACACTTTTGCCCCT
Found at i:63034925 original size:53 final size:54
Alignment explanation
Indices: 63034743--63034949 Score: 220
Period size: 53 Copynumber: 3.8 Consensus size: 54
63034733 ATTAGGGCTT
* * * * *
63034743 AAGGATACCAAGTAAGACCATGCCAAGGCATGGCATTGGTAAGTTCTACAAGGC
1 AAGGATACCATGTAAGACCATGTCAAGACATGGCAATGGTAAGTTCTATAAGGC
* * * * * * *
63034797 AAGGAAATCTTGTAAGACCATGTCAAGACATGGCATTGATAAACTACTATAAGGC
1 AAGGATACCATGTAAGACCATGTCAAGACATGGCAATGGT-AAGTTCTATAAGGC
* * * * *
63034852 AAAGATCCCATGTAAGACCATG-CTAAGGCATGGCAATGGTGAGTTC-ATAAGGT
1 AAGGATACCATGTAAGACCATGTC-AAGACATGGCAATGGTAAGTTCTATAAGGC
*
63034905 AAGGATACCACGTAAGACCATGTCAAGACATGGCAATGGTAAGTT
1 AAGGATACCATGTAAGACCATGTCAAGACATGGCAATGGTAAGTT
63034950 TAAAAAGGAA
Statistics
Matches: 123, Mismatches: 27, Indels: 7
0.78 0.17 0.04
Matches are distributed among these distances:
53 44 0.36
54 38 0.31
55 41 0.33
ACGTcount: A:0.37, C:0.18, G:0.24, T:0.21
Consensus pattern (54 bp):
AAGGATACCATGTAAGACCATGTCAAGACATGGCAATGGTAAGTTCTATAAGGC
Found at i:63035986 original size:26 final size:26
Alignment explanation
Indices: 63035956--63036056 Score: 139
Period size: 27 Copynumber: 3.8 Consensus size: 26
63035946 AGCATGGCTG
* *
63035956 CCAGAACAGATAATGTGACAGTGTCA
1 CCAGAACAGATAATGTGGCAGTGCCA
*
63035982 CCAGAACAGATAATTGTGGCAGAGCCA
1 CCAGAACAGATAA-TGTGGCAGTGCCA
63036009 CCAGAACAGATATATGTGGCAGTGCCA
1 CCAGAACAGATA-ATGTGGCAGTGCCA
*
63036036 CCAGATCAGATAATTGTGGCA
1 CCAGAACAGATAA-TGTGGCA
63036057 TAGGCACCAG
Statistics
Matches: 67, Mismatches: 5, Indels: 5
0.87 0.06 0.06
Matches are distributed among these distances:
26 14 0.21
27 52 0.78
28 1 0.01
ACGTcount: A:0.36, C:0.21, G:0.25, T:0.19
Consensus pattern (26 bp):
CCAGAACAGATAATGTGGCAGTGCCA
Found at i:63036040 original size:54 final size:53
Alignment explanation
Indices: 63035956--63036066 Score: 168
Period size: 54 Copynumber: 2.1 Consensus size: 53
63035946 AGCATGGCTG
*
63035956 CCAGAACAGATAATGTGACAGTGTCACCAGAACAGATAATTGTGGCAGAGCCA
1 CCAGAACAGATAATGTGACAGTGCCACCAGAACAGATAATTGTGGCAGAGCCA
* * * *
63036009 CCAGAACAGATATATGTGGCAGTGCCACCAGATCAGATAATTGTGGCATAGGCA
1 CCAGAACAGATA-ATGTGACAGTGCCACCAGAACAGATAATTGTGGCAGAGCCA
63036063 CCAG
1 CCAG
63036067 GACGCTTCCT
Statistics
Matches: 52, Mismatches: 5, Indels: 1
0.90 0.09 0.02
Matches are distributed among these distances:
53 12 0.23
54 40 0.77
ACGTcount: A:0.35, C:0.22, G:0.25, T:0.18
Consensus pattern (53 bp):
CCAGAACAGATAATGTGACAGTGCCACCAGAACAGATAATTGTGGCAGAGCCA
Found at i:63037524 original size:24 final size:24
Alignment explanation
Indices: 63037486--63037562 Score: 118
Period size: 24 Copynumber: 3.2 Consensus size: 24
63037476 CCAACACCAT
*
63037486 TCTCCCTAATCAGCTCCTAAATCC
1 TCTCCCTTATCAGCTCCTAAATCC
*
63037510 TCTCCCTTATTAGCTCCTAAATCC
1 TCTCCCTTATCAGCTCCTAAATCC
* *
63037534 TCTCCCTTATCAGCTCCCAAATCT
1 TCTCCCTTATCAGCTCCTAAATCC
63037558 TCTCC
1 TCTCC
63037563 TGACAGCCTT
Statistics
Matches: 48, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 48 1.00
ACGTcount: A:0.21, C:0.42, G:0.04, T:0.34
Consensus pattern (24 bp):
TCTCCCTTATCAGCTCCTAAATCC
Found at i:63042129 original size:17 final size:17
Alignment explanation
Indices: 63042107--63042162 Score: 67
Period size: 17 Copynumber: 3.0 Consensus size: 17
63042097 CTTTTTCTCG
63042107 ATTTTCTTTTCTTTTTC
1 ATTTTCTTTTCTTTTTC
63042124 ATTTTCTTTTCTTTTTTCAC
1 ATTTTCTTTTC-TTTTT--C
63042144 ATTCATTCTTTTCTTTTTC
1 ATT--TTCTTTTCTTTTTC
63042163 TCTCAACTGA
Statistics
Matches: 34, Mismatches: 0, Indels: 8
0.81 0.00 0.19
Matches are distributed among these distances:
17 11 0.32
18 5 0.15
19 1 0.03
20 4 0.12
21 5 0.15
22 8 0.24
ACGTcount: A:0.09, C:0.20, G:0.00, T:0.71
Consensus pattern (17 bp):
ATTTTCTTTTCTTTTTC
Found at i:63045394 original size:16 final size:16
Alignment explanation
Indices: 63045373--63045407 Score: 61
Period size: 16 Copynumber: 2.2 Consensus size: 16
63045363 TCTAGGCCAT
*
63045373 GATGGATTTTATAGAA
1 GATGGATTTTATAAAA
63045389 GATGGATTTTATAAAA
1 GATGGATTTTATAAAA
63045405 GAT
1 GAT
63045408 TCATTAAGTA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.40, C:0.00, G:0.23, T:0.37
Consensus pattern (16 bp):
GATGGATTTTATAAAA
Found at i:63047414 original size:36 final size:36
Alignment explanation
Indices: 63047374--63047449 Score: 100
Period size: 36 Copynumber: 2.1 Consensus size: 36
63047364 TGTTATTGGG
*
63047374 TGGATT-GCCTCTTACGAGCATCTGGTATGTTTCGGA
1 TGGATTAG-CTCTTACGAGCATCTAGTATGTTTCGGA
* * *
63047410 TGGATTAGCTCTTATGAGCATCTAGTGTGTTTCGGT
1 TGGATTAGCTCTTACGAGCATCTAGTATGTTTCGGA
63047446 TGGA
1 TGGA
63047450 ATATTGATGT
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
36 34 0.97
37 1 0.03
ACGTcount: A:0.17, C:0.16, G:0.29, T:0.38
Consensus pattern (36 bp):
TGGATTAGCTCTTACGAGCATCTAGTATGTTTCGGA
Found at i:63055188 original size:39 final size:40
Alignment explanation
Indices: 63055087--63055271 Score: 182
Period size: 40 Copynumber: 4.7 Consensus size: 40
63055077 TTGAATGATG
* * *
63055087 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAC-CAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAT
* * *
63055126 ATCTGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 -TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAT
* * *
63055167 TCCGGGCTAAG-CCCAAAGGCATTTGCGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
* *
63055206 TCCGGGTTAAGTCCCGAAGGCAATTGTGCGAGTTACT-AT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
* *
63055245 AACCGGGCTATGTCCCGAAGGCATTTG
1 -TCCGGGCTAAGTCCCGAAGGCATTTG
63055272 AACGAGTAGC
Statistics
Matches: 118, Mismatches: 21, Indels: 12
0.78 0.14 0.08
Matches are distributed among these distances:
39 34 0.29
40 74 0.63
41 10 0.08
ACGTcount: A:0.25, C:0.23, G:0.27, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
Found at i:63055293 original size:79 final size:79
Alignment explanation
Indices: 63055140--63055304 Score: 192
Period size: 79 Copynumber: 2.1 Consensus size: 79
63055130 GGACTAAGAT
* * **
63055140 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCAAAGGCATTTGCGCGAGTTACTAA
1 CCGAAGGCAATTGTGCGAGATACTAATACCGGGCTAAGCCCAAAGGCATTTGAACGAGTTACTAA
*
63055205 ATCCGGGTTAAGTC
66 ATCCGGGTTAAATC
* * *
63055219 CCGAAGGCAATTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGC
1 CCGAAGGCAATTGTGCGAGATACTAAT-ACCGGGCTAAG-CCCAAAGGCATTTGAACGAGTTA-C
* *
63055282 TATATCC-GGTTAAATT
63 TAAATCCGGGTTAAATC
63055298 CCGAAGG
1 CCGAAGG
63055305 TACGTGATTT
Statistics
Matches: 73, Mismatches: 10, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
78 2 0.03
79 47 0.64
80 24 0.33
ACGTcount: A:0.27, C:0.22, G:0.27, T:0.24
Consensus pattern (79 bp):
CCGAAGGCAATTGTGCGAGATACTAATACCGGGCTAAGCCCAAAGGCATTTGAACGAGTTACTAA
ATCCGGGTTAAATC
Found at i:63057670 original size:68 final size:65
Alignment explanation
Indices: 63057457--63057708 Score: 196
Period size: 68 Copynumber: 3.8 Consensus size: 65
63057447 TATAGTTCGA
* * * *
63057457 CTCTCTTGTAC-ACATGGTGAACACTTAGTACCACCCATGTGACCTAGC--CAGTTTA-TCTCGT
1 CTCTCTTGT-CTACATGGTGTACACATAGTACCACCCATGCGACCTAGCTACA-TATATTCTCGT
63057518 AG
64 AG
* * * * * *
63057520 CTCTATTGTCTACATGGTGTCCTTCACCA-AGAACCACACATGCGACCTAGATACATATA-TCCC
1 CTCTCTTGTCTACATGGTG---TACA-CATAGTACCACCCATGCGACCTAGCTACATATATTCTC
63057583 GTAG
62 GTAG
*
63057587 CTCTCTTGTCTACATGGTGTACACATAGTATCACCCATGCGACCTAGCTACATCATAATGTCTCG
1 CTCTCTTGTCTACATGGTGTACACATAGTACCACCCATGCGACCTAGCTACAT-AT-AT-TCTCG
63057652 TAG
63 TAG
* * * ** *
63057655 CTCTCTTGTAC-ACATGATGTGCAC-TCAGCACCATACATGTGACCTAGCTACATA
1 CTCTCTTGT-CTACATGGTGTACACAT-AGTACCACCCATGCGACCTAGCTACATA
63057709 CCATCTGTAT
Statistics
Matches: 151, Mismatches: 24, Indels: 24
0.76 0.12 0.12
Matches are distributed among these distances:
62 1 0.01
63 18 0.12
64 26 0.17
65 2 0.01
66 21 0.14
67 31 0.21
68 51 0.34
69 1 0.01
ACGTcount: A:0.26, C:0.29, G:0.16, T:0.29
Consensus pattern (65 bp):
CTCTCTTGTCTACATGGTGTACACATAGTACCACCCATGCGACCTAGCTACATATATTCTCGTAG
Found at i:63070832 original size:21 final size:22
Alignment explanation
Indices: 63070808--63070848 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
63070798 TATAGTGAAT
*
63070808 TTCTTTTA-ATAAACTTAAAGA
1 TTCTTGTAGATAAACTTAAAGA
*
63070829 TTCTTGTAGCTAAACTTAAA
1 TTCTTGTAGATAAACTTAAA
63070849 AAGAATTTTC
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 7 0.41
22 10 0.59
ACGTcount: A:0.39, C:0.12, G:0.07, T:0.41
Consensus pattern (22 bp):
TTCTTGTAGATAAACTTAAAGA
Found at i:63073641 original size:30 final size:30
Alignment explanation
Indices: 63073605--63073677 Score: 83
Period size: 31 Copynumber: 2.4 Consensus size: 30
63073595 TGGTTGTCCC
*
63073605 AACCCTTTTCATAGCTCGATAGATGAAGCT
1 AACCCTTTTCATAGCTCGATAGACGAAGCT
* * * *
63073635 AACCCTTTTTCACAGTTTGATAGCCGAAGCT
1 AACCC-TTTTCATAGCTCGATAGACGAAGCT
*
63073666 ATCCCTTTTCAT
1 AACCCTTTTCAT
63073678 TATTTGATAG
Statistics
Matches: 35, Mismatches: 7, Indels: 2
0.80 0.16 0.05
Matches are distributed among these distances:
30 11 0.31
31 24 0.69
ACGTcount: A:0.26, C:0.26, G:0.14, T:0.34
Consensus pattern (30 bp):
AACCCTTTTCATAGCTCGATAGACGAAGCT
Found at i:63073684 original size:30 final size:30
Alignment explanation
Indices: 63073630--63073767 Score: 143
Period size: 30 Copynumber: 4.6 Consensus size: 30
63073620 TCGATAGATG
* * * *
63073630 AAGCTAACCCTTTTTCACAGTTTGATAGCCG
1 AAGCTATCCC-TTTTCATAATTTGATAGCCA
* *
63073661 AAGCTATCCCTTTTCATTATTTGATAGTCA
1 AAGCTATCCCTTTTCATAATTTGATAGCCA
* * *
63073691 TCA-CCATCCCTTTTCATAATTTGATAGTCA
1 -AAGCTATCCCTTTTCATAATTTGATAGCCA
* *
63073721 AAGCTATCCCATTTCACAATTTGATAGCCA
1 AAGCTATCCCTTTTCATAATTTGATAGCCA
*
63073751 AAGCTATCCGTTTTCAT
1 AAGCTATCCCTTTTCAT
63073768 TGTTCCATGG
Statistics
Matches: 88, Mismatches: 17, Indels: 5
0.80 0.15 0.05
Matches are distributed among these distances:
29 1 0.01
30 77 0.88
31 10 0.11
ACGTcount: A:0.28, C:0.25, G:0.11, T:0.37
Consensus pattern (30 bp):
AAGCTATCCCTTTTCATAATTTGATAGCCA
Found at i:63076066 original size:43 final size:43
Alignment explanation
Indices: 63075926--63076069 Score: 150
Period size: 43 Copynumber: 3.3 Consensus size: 43
63075916 ATAAAGATGA
* * * * *
63075926 GATTATATGTAAGACCATGTCTGGGATATTGGCATTG-TAGTGA
1 GATTACATGTAAGACCATGTCTGGGACACTGGCATCGATA-TGT
*
63075969 GATTACGTGTAAGACCATGTCTGGGACACTGGCATC-ATTAAT-T
1 GATTACATGTAAGACCATGTCTGGGACACTGGCATCGA-T-ATGT
* * *
63076012 GATTACGTGTAAGACCCTGTCTGGGACAGTGGCATCGATATGT
1 GATTACATGTAAGACCATGTCTGGGACACTGGCATCGATATGT
*
63076055 GATAACATGTAAGAC
1 GATTACATGTAAGAC
63076070 TATATCTAGG
Statistics
Matches: 86, Mismatches: 10, Indels: 10
0.81 0.09 0.09
Matches are distributed among these distances:
42 2 0.02
43 80 0.93
44 3 0.03
45 1 0.01
ACGTcount: A:0.28, C:0.15, G:0.26, T:0.30
Consensus pattern (43 bp):
GATTACATGTAAGACCATGTCTGGGACACTGGCATCGATATGT
Done.