Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: scaffold3555.1
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: 119814
ACGTcount: A:0.31, C:0.16, G:0.20, T:0.32
Warning! 2033 characters in sequence are not A, C, G, or T
Found at i:5477 original size:27 final size:27
Alignment explanation
Indices: 5444--5519 Score: 95
Period size: 27 Copynumber: 2.9 Consensus size: 27
5434 CCCTAATTTA
5444 TAAAATGACTGTTATGCCCCTATGCGA-
1 TAAAATGACTGTTATGCCCCTATGC-AC
* * *
5471 TATAATGATTGTTATGCCCCTACGCAC
1 TAAAATGACTGTTATGCCCCTATGCAC
5498 TAAAATGACTGTTAT--CCCTATG
1 TAAAATGACTGTTATGCCCCTATG
5520 TGATGTATGA
Statistics
Matches: 42, Mismatches: 6, Indels: 4
0.81 0.12 0.08
Matches are distributed among these distances:
25 6 0.14
26 1 0.02
27 35 0.83
ACGTcount: A:0.29, C:0.22, G:0.16, T:0.33
Consensus pattern (27 bp):
TAAAATGACTGTTATGCCCCTATGCAC
Found at i:13044 original size:17 final size:18
Alignment explanation
Indices: 13022--13058 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
13012 TTCTAGGCTA
13022 TGTGGG-CCACATGAGCC
1 TGTGGGCCCACATGAGCC
*
13039 TGTGGGCCCACATGGGCC
1 TGTGGGCCCACATGAGCC
13057 TG
1 TG
13059 CAATATGGGC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 6 0.33
18 12 0.67
ACGTcount: A:0.14, C:0.30, G:0.38, T:0.19
Consensus pattern (18 bp):
TGTGGGCCCACATGAGCC
Found at i:33436 original size:40 final size:40
Alignment explanation
Indices: 33381--33607 Score: 384
Period size: 40 Copynumber: 5.7 Consensus size: 40
33371 AACATTGGAT
33381 TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGA
1 TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGA
*
33421 TATATCCGGGCTAAGACCCGAAGACAATTATGCGAGTTGA
1 TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGA
*
33461 CATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGA
1 TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGA
* *
33501 TATATCCGGGCTATGACCCGAAGGCAATTATGC-AGGATGA
1 TATATCCGGGCTAAGACCCGAAGGCAATTATGCGA-GTTGA
33541 TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGA
1 TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGA
* *
33581 TATGTCCGGGTTAAGACCCGAAGGCAA
1 TATATCCGGGCTAAGACCCGAAGGCAA
33608 ATGTGTTTGC
Statistics
Matches: 175, Mismatches: 10, Indels: 4
0.93 0.05 0.02
Matches are distributed among these distances:
39 1 0.01
40 173 0.99
41 1 0.01
ACGTcount: A:0.30, C:0.21, G:0.27, T:0.22
Consensus pattern (40 bp):
TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGA
Found at i:35352 original size:29 final size:28
Alignment explanation
Indices: 35274--35368 Score: 84
Period size: 29 Copynumber: 3.3 Consensus size: 28
35264 AAGTCTATAT
*
35274 ACATGCATATGGCCCA-CAAGGCCCAATC
1 ACATTCATATGGCCCATC-AGGCCCAATC
* * * *
35302 TCATTCATATAGCCTATTAGGCCCAAATC
1 ACATTCATATGGCCCATCAGGCCC-AATC
* *
35331 ACATTCGTATGGCCCATCAGGCGCATATC
1 ACATTCATATGGCCCATCAGGCCCA-ATC
*
35360 AAATTCATA
1 ACATTCATA
35369 GTCATGCCTT
Statistics
Matches: 51, Mismatches: 13, Indels: 5
0.74 0.19 0.07
Matches are distributed among these distances:
28 19 0.37
29 32 0.63
ACGTcount: A:0.32, C:0.29, G:0.15, T:0.24
Consensus pattern (28 bp):
ACATTCATATGGCCCATCAGGCCCAATC
Found at i:41694 original size:27 final size:27
Alignment explanation
Indices: 41624--41694 Score: 72
Period size: 27 Copynumber: 2.6 Consensus size: 27
41614 CTTAGTTTGT
41624 AAAATTACC-AAAGTACCCCCGATTTAC
1 AAAATTACCGAAA-TACCCCCGATTTAC
* * *** *
41651 AGAATTATCGTTTTACCCTCGATTTAC
1 AAAATTACCGAAATACCCCCGATTTAC
41678 AAAATTACCGAAATACC
1 AAAATTACCGAAATACC
41695 TCTGTAGGGT
Statistics
Matches: 32, Mismatches: 11, Indels: 2
0.71 0.24 0.04
Matches are distributed among these distances:
27 32 1.00
ACGTcount: A:0.38, C:0.25, G:0.08, T:0.28
Consensus pattern (27 bp):
AAAATTACCGAAATACCCCCGATTTAC
Found at i:42409 original size:27 final size:26
Alignment explanation
Indices: 42365--42416 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 26
42355 CTCGCTGCAA
*
42365 TCTGGTGGCCTCGCCACATATATCTGT
1 TCTGGTGACCTCGCCACA-ATATCTGT
* *
42392 TCTGGTGACTTCGTCACAATATCTG
1 TCTGGTGACCTCGCCACAATATCTG
42417 GCAGCCTCGC
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 7 0.32
27 15 0.68
ACGTcount: A:0.17, C:0.27, G:0.21, T:0.35
Consensus pattern (26 bp):
TCTGGTGACCTCGCCACAATATCTGT
Found at i:47962 original size:27 final size:27
Alignment explanation
Indices: 47892--47964 Score: 76
Period size: 27 Copynumber: 2.7 Consensus size: 27
47882 CCTGGTTTGT
47892 AAAATTACC-AAAGTACCCCCGATTTAC
1 AAAATTACCGAAA-TACCCCCGATTTAC
* *** **
47919 AGAATTACCGTTTTACCTTCGATTTAC
1 AAAATTACCGAAATACCCCCGATTTAC
47946 AAAATTACCGAAATACCCC
1 AAAATTACCGAAATACCCC
47965 TGTAAGGTAG
Statistics
Matches: 33, Mismatches: 12, Indels: 2
0.70 0.26 0.04
Matches are distributed among these distances:
27 33 1.00
ACGTcount: A:0.37, C:0.27, G:0.08, T:0.27
Consensus pattern (27 bp):
AAAATTACCGAAATACCCCCGATTTAC
Found at i:48723 original size:67 final size:67
Alignment explanation
Indices: 48615--48991 Score: 718
Period size: 67 Copynumber: 5.6 Consensus size: 67
48605 GAGGGAGCGT
48615 TCTGGCAGCCTCGCTGCAATCTGGTAGCCTCGCCACATATATCTGTTCTGGTGACTTCGTCACAA
1 TCTGGCAGCCTCGCTGCAATCTGGTAGCCTCGCCACATATATCTGTTCTGGTGACTTCGTCACAA
48680 TA
66 TA
48682 TCTGGCAGCCTCGCTGCAATCTGGTAGCCTCGCCACATATATCTGTTCTGGTGACTTCGTCACAA
1 TCTGGCAGCCTCGCTGCAATCTGGTAGCCTCGCCACATATATCTGTTCTGGTGACTTCGTCACAA
48747 TA
66 TA
48749 TCTGGCAGCCTCGCTGCAATCTGGTAGCCTCGCCACATATATCTGTTCTGGTGACTTCGTCACAA
1 TCTGGCAGCCTCGCTGCAATCTGGTAGCCTCGCCACATATATCTGTTCTGGTGACTTCGTCACAA
48814 TA
66 TA
48816 TCTGGCAGCCTCGCTGCAATCTGGTAGCCTCGCCACATATATCTGTTCTGGTGACTTCGTCACAA
1 TCTGGCAGCCTCGCTGCAATCTGGTAGCCTCGCCACATATATCTGTTCTGGTGACTTCGTCACAA
48881 TA
66 TA
48883 TCTGGCAGCCTCGCTGCAATCTGGTAGCCTCGCCACATATATCTGTTCTGGTGACTTCGTCACAA
1 TCTGGCAGCCTCGCTGCAATCTGGTAGCCTCGCCACATATATCTGTTCTGGTGACTTCGTCACAA
48948 TA
66 TA
* * * *
48950 TCTGGTAGCCTCGCTGCAATCTGGTGGCTTTGCCACATATAT
1 TCTGGCAGCCTCGCTGCAATCTGGTAGCCTCGCCACATATAT
48992 ATATCTGTTC
Statistics
Matches: 306, Mismatches: 4, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
67 306 1.00
ACGTcount: A:0.19, C:0.29, G:0.21, T:0.30
Consensus pattern (67 bp):
TCTGGCAGCCTCGCTGCAATCTGGTAGCCTCGCCACATATATCTGTTCTGGTGACTTCGTCACAA
TA
Found at i:51143 original size:29 final size:29
Alignment explanation
Indices: 51076--51170 Score: 120
Period size: 29 Copynumber: 3.3 Consensus size: 29
51066 AAGTCTACAT
* * * *
51076 ACATGCATATAGCCCACTAGG-CCTAATC
1 ACATTCATATGGCCCATTAGGCCCAAATC
*
51104 TCATTCATATGGCCCATTAGGCCCAAATC
1 ACATTCATATGGCCCATTAGGCCCAAATC
* *
51133 ACATTCGTATGGCCTATTAGGCCCAAATC
1 ACATTCATATGGCCCATTAGGCCCAAATC
51162 ACATTCATA
1 ACATTCATA
51171 GTCATGCTTT
Statistics
Matches: 57, Mismatches: 9, Indels: 1
0.85 0.13 0.01
Matches are distributed among these distances:
28 17 0.30
29 40 0.70
ACGTcount: A:0.31, C:0.29, G:0.14, T:0.26
Consensus pattern (29 bp):
ACATTCATATGGCCCATTAGGCCCAAATC
Found at i:56892 original size:27 final size:27
Alignment explanation
Indices: 56854--56972 Score: 132
Period size: 27 Copynumber: 4.4 Consensus size: 27
56844 TGGATAGGTT
* *
56854 GTAGAATTACCGAAATACCCCTATAAG
1 GTAGAATTACCGAAATACCCTTGTAAG
56881 GTAGAATTACCGAAATACCCTTGT-AG
1 GTAGAATTACCGAAATACCCTTGTAAG
* *
56907 TGTAGAAATACCGAAATACCCTTGTAGG
1 -GTAGAATTACCGAAATACCCTTGTAAG
* * * **
56935 GAAGAATCACCGAGATACCCTTGTGGG
1 GTAGAATTACCGAAATACCCTTGTAAG
*
56962 GTAAAATTACC
1 GTAGAATTACC
56973 ATTTTGCCCC
Statistics
Matches: 78, Mismatches: 12, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
26 2 0.03
27 75 0.96
28 1 0.01
ACGTcount: A:0.36, C:0.20, G:0.20, T:0.24
Consensus pattern (27 bp):
GTAGAATTACCGAAATACCCTTGTAAG
Found at i:56919 original size:54 final size:54
Alignment explanation
Indices: 56853--56958 Score: 149
Period size: 54 Copynumber: 2.0 Consensus size: 54
56843 GTGGATAGGT
* * *
56853 TGTAGAATTACCGAAATACCCCTATAAGGTAGAATTACCGAAATACCCTTGTAG
1 TGTAGAAATACCGAAATACCCCTATAAGGAAGAATCACCGAAATACCCTTGTAG
* * * *
56907 TGTAGAAATACCGAAATACCCTTGTAGGGAAGAATCACCGAGATACCCTTGT
1 TGTAGAAATACCGAAATACCCCTATAAGGAAGAATCACCGAAATACCCTTGT
56959 GGGGTAAAAT
Statistics
Matches: 45, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
54 45 1.00
ACGTcount: A:0.36, C:0.21, G:0.19, T:0.25
Consensus pattern (54 bp):
TGTAGAAATACCGAAATACCCCTATAAGGAAGAATCACCGAAATACCCTTGTAG
Found at i:57728 original size:33 final size:32
Alignment explanation
Indices: 57681--57742 Score: 81
Period size: 33 Copynumber: 1.9 Consensus size: 32
57671 CGCTGCAATC
* *
57681 TGGTGGCTTCGCCACATATATA-TATATCTGTTT
1 TGGTGGCCTAGCCACA-ATA-ACTATATCTGTTT
57714 TGGTGGCCTAGCCACAATAACTATATCTG
1 TGGTGGCCTAGCCACAATAACTATATCTG
57743 GTGACTTTGT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
31 1 0.04
32 11 0.42
33 14 0.54
ACGTcount: A:0.24, C:0.21, G:0.19, T:0.35
Consensus pattern (32 bp):
TGGTGGCCTAGCCACAATAACTATATCTGTTT
Found at i:58996 original size:20 final size:20
Alignment explanation
Indices: 58971--59013 Score: 61
Period size: 20 Copynumber: 2.1 Consensus size: 20
58961 AAGCCACAGT
58971 TTATATAGACCATT-TAACCA
1 TTATATAGACCATTCT-ACCA
*
58991 TTATATAGATCATTCTACCA
1 TTATATAGACCATTCTACCA
59011 TTA
1 TTA
59014 AATACTTGGT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 20 0.95
21 1 0.05
ACGTcount: A:0.37, C:0.19, G:0.05, T:0.40
Consensus pattern (20 bp):
TTATATAGACCATTCTACCA
Found at i:62051 original size:32 final size:31
Alignment explanation
Indices: 62014--62103 Score: 117
Period size: 32 Copynumber: 2.8 Consensus size: 31
62004 ACAGTCTCAA
*
62014 TTGGGCCTAGACCATCTCAAAATCAATACCAG
1 TTGGGCCTAG-CCATTTCAAAATCAATACCAG
* *
62046 TTGGGCCTAGCCTATTTCAGAATCAATATCAG
1 TTGGGCCTAGCC-ATTTCAAAATCAATACCAG
*
62078 TTGGGCCTAGCCCATTTCAATATCAA
1 TTGGGCCTAG-CCATTTCAAAATCAA
62104 ACCCATATGA
Statistics
Matches: 51, Mismatches: 5, Indels: 4
0.85 0.08 0.07
Matches are distributed among these distances:
31 2 0.04
32 47 0.92
33 2 0.04
ACGTcount: A:0.30, C:0.26, G:0.17, T:0.28
Consensus pattern (31 bp):
TTGGGCCTAGCCATTTCAAAATCAATACCAG
Found at i:63511 original size:16 final size:17
Alignment explanation
Indices: 63490--63523 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
63480 GGCATGATAA
*
63490 CCAAAAT-GAACTTAAG
1 CCAAAATCGAACTCAAG
63506 CCAAAATCGAACTCAAG
1 CCAAAATCGAACTCAAG
63523 C
1 C
63524 ATGGAAATTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 7 0.44
17 9 0.56
ACGTcount: A:0.47, C:0.26, G:0.12, T:0.15
Consensus pattern (17 bp):
CCAAAATCGAACTCAAG
Found at i:64871 original size:30 final size:31
Alignment explanation
Indices: 64837--64933 Score: 101
Period size: 30 Copynumber: 3.2 Consensus size: 31
64827 AGCTCACTCC
*
64837 TAGCTC-ACTTTCAACTCACGAGCTAAACCT
1 TAGCTCAACTTTCAGCTCACGAGCTAAACCT
* * * * *
64867 TAGCTCAAC-TTCAGCTTAGGAGTTTAGCCT
1 TAGCTCAACTTTCAGCTCACGAGCTAAACCT
* *
64897 CAGCTCAACTTT-AGCTCACGAGCTAAAGCT
1 TAGCTCAACTTTCAGCTCACGAGCTAAACCT
64927 TAGCTCA
1 TAGCTCA
64934 TTTTAGTTTA
Statistics
Matches: 51, Mismatches: 14, Indels: 4
0.74 0.20 0.06
Matches are distributed among these distances:
30 47 0.92
31 4 0.08
ACGTcount: A:0.28, C:0.29, G:0.15, T:0.28
Consensus pattern (31 bp):
TAGCTCAACTTTCAGCTCACGAGCTAAACCT
Found at i:66627 original size:12 final size:12
Alignment explanation
Indices: 66610--66649 Score: 53
Period size: 12 Copynumber: 3.2 Consensus size: 12
66600 ATACAAGTCA
66610 AAAAAAAATTCG
1 AAAAAAAATTCG
*
66622 AAAAAAAAATTCA
1 -AAAAAAAATTCG
*
66635 AAAAAAAAATCG
1 AAAAAAAATTCG
66647 AAA
1 AAA
66650 TGAAAAAAAA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
12 13 0.54
13 11 0.46
ACGTcount: A:0.75, C:0.07, G:0.05, T:0.12
Consensus pattern (12 bp):
AAAAAAAATTCG
Found at i:66669 original size:13 final size:13
Alignment explanation
Indices: 66609--66649 Score: 66
Period size: 13 Copynumber: 3.2 Consensus size: 13
66599 TATACAAGTC
66609 AAAAAAAAATTCG
1 AAAAAAAAATTCG
66622 AAAAAAAAATTC-
1 AAAAAAAAATTCG
*
66634 AAAAAAAAAATCG
1 AAAAAAAAATTCG
66647 AAA
1 AAA
66650 TGAAAAAAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
12 11 0.42
13 15 0.58
ACGTcount: A:0.76, C:0.07, G:0.05, T:0.12
Consensus pattern (13 bp):
AAAAAAAAATTCG
Found at i:66672 original size:17 final size:17
Alignment explanation
Indices: 66634--66672 Score: 53
Period size: 17 Copynumber: 2.3 Consensus size: 17
66624 AAAAAAATTC
66634 AAAAAAAAAATCGAAAT
1 AAAAAAAAAATCGAAAT
*
66651 GAAAAAAAAATCTGAAA-
1 AAAAAAAAAATC-GAAAT
66668 AAAAA
1 AAAAA
66673 GTGTTTAATG
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
17 15 0.79
18 4 0.21
ACGTcount: A:0.77, C:0.05, G:0.08, T:0.10
Consensus pattern (17 bp):
AAAAAAAAAATCGAAAT
Found at i:67593 original size:9 final size:10
Alignment explanation
Indices: 67586--67642 Score: 55
Period size: 11 Copynumber: 5.5 Consensus size: 10
67576 AAGAGAAAAT
67586 AAAGAAAAGA
1 AAAGAAAAGA
67596 AAAGAAAAAGCA
1 AAAG-AAAAG-A
*
67608 AAAGAAGA-A
1 AAAGAAAAGA
67617 AAAGAAAATGA
1 AAAGAAAA-GA
67628 AATA-AAAAGA
1 AA-AGAAAAGA
67638 AAAGA
1 AAAGA
67643 GAGGCAAGAG
Statistics
Matches: 39, Mismatches: 2, Indels: 12
0.74 0.04 0.23
Matches are distributed among these distances:
9 9 0.23
10 9 0.23
11 15 0.38
12 6 0.15
ACGTcount: A:0.77, C:0.02, G:0.18, T:0.04
Consensus pattern (10 bp):
AAAGAAAAGA
Found at i:67610 original size:6 final size:5
Alignment explanation
Indices: 67586--67642 Score: 55
Period size: 5 Copynumber: 11.0 Consensus size: 5
67576 AAGAGAAAAT
*
67586 AAAGA AAAGA AAAGAA AAAGCA AAAGA AGA-A AAAGA AAATGA AATA-A
1 AAAGA AAAGA AAAG-A AAAG-A AAAGA AAAGA AAAGA AAA-GA AA-AGA
67633 AAAGA AAAGA
1 AAAGA AAAGA
67643 GAGGCAAGAG
Statistics
Matches: 44, Mismatches: 3, Indels: 10
0.77 0.05 0.18
Matches are distributed among these distances:
4 4 0.09
5 25 0.57
6 14 0.32
7 1 0.02
ACGTcount: A:0.77, C:0.02, G:0.18, T:0.04
Consensus pattern (5 bp):
AAAGA
Found at i:67617 original size:15 final size:14
Alignment explanation
Indices: 67586--67642 Score: 60
Period size: 16 Copynumber: 3.7 Consensus size: 14
67576 AAGAGAAAAT
67586 AAAGAAAAGAAAAGAA
1 AAAGAAAAG--AAGAA
67602 AAAGCAAAAGAAGAA
1 AAAG-AAAAGAAGAA
*
67617 AAAGAAAATGAAATAA
1 AAAGAAAA-G-AAGAA
67633 AAAGAAAAGA
1 AAAGAAAAGA
67643 GAGGCAAGAG
Statistics
Matches: 37, Mismatches: 1, Indels: 8
0.80 0.02 0.17
Matches are distributed among these distances:
14 5 0.14
15 11 0.30
16 16 0.43
17 5 0.14
ACGTcount: A:0.77, C:0.02, G:0.18, T:0.04
Consensus pattern (14 bp):
AAAGAAAAGAAGAA
Found at i:67759 original size:30 final size:31
Alignment explanation
Indices: 67724--67804 Score: 103
Period size: 30 Copynumber: 2.7 Consensus size: 31
67714 TTGAAAAGCG
*
67724 AAAAGAAAATGAAAAAGAAA-ATGAGATTGA
1 AAAAGAAAATGAAAAAGAAATATGAGAGTGA
* * *
67754 AAAAGAGAACG-AAAAGAAATTTGAGAGTGA
1 AAAAGAAAATGAAAAAGAAATATGAGAGTGA
*
67784 AAAAGAAGATGAAAAAGAAAT
1 AAAAGAAAATGAAAAAGAAAT
67805 TGAAACAAAA
Statistics
Matches: 42, Mismatches: 7, Indels: 3
0.81 0.13 0.06
Matches are distributed among these distances:
29 8 0.19
30 25 0.60
31 9 0.21
ACGTcount: A:0.64, C:0.01, G:0.22, T:0.12
Consensus pattern (31 bp):
AAAAGAAAATGAAAAAGAAATATGAGAGTGA
Found at i:70013 original size:30 final size:30
Alignment explanation
Indices: 69918--70014 Score: 83
Period size: 30 Copynumber: 3.2 Consensus size: 30
69908 AGCTCACTCC
* *
69918 TAGCTC-ACTTTCAACTCACGAGCTAAACCT
1 TAGCTCAACTTT-AGCTCACGAGCTAAAGCT
* * **
69948 TAGCTCAACTTCAGCTTA-G-GCGTTTAGCCT
1 TAGCTCAACTTTAGCTCACGAGC-TAAAG-CT
*
69978 CAGCTCAACTTTAGCTCACGAGCTAAAGCT
1 TAGCTCAACTTTAGCTCACGAGCTAAAGCT
70008 TAGCTCA
1 TAGCTCA
70015 TTTTAGTTTA
Statistics
Matches: 50, Mismatches: 12, Indels: 10
0.69 0.17 0.14
Matches are distributed among these distances:
28 2 0.04
29 3 0.06
30 35 0.70
31 8 0.16
32 2 0.04
ACGTcount: A:0.27, C:0.30, G:0.15, T:0.28
Consensus pattern (30 bp):
TAGCTCAACTTTAGCTCACGAGCTAAAGCT
Found at i:80213 original size:24 final size:25
Alignment explanation
Indices: 80169--80217 Score: 82
Period size: 24 Copynumber: 2.0 Consensus size: 25
80159 AAAATGTTCA
80169 TCTTCTTCACCTTACCTCTCTCAAG
1 TCTTCTTCACCTTACCTCTCTCAAG
*
80194 TCTTCTTCTCC-TACCTCTCTCAAG
1 TCTTCTTCACCTTACCTCTCTCAAG
80218 CCGAAACTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
24 13 0.57
25 10 0.43
ACGTcount: A:0.14, C:0.41, G:0.04, T:0.41
Consensus pattern (25 bp):
TCTTCTTCACCTTACCTCTCTCAAG
Found at i:82358 original size:47 final size:47
Alignment explanation
Indices: 82307--82451 Score: 213
Period size: 47 Copynumber: 3.1 Consensus size: 47
82297 TTAGGATTTT
82307 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* *
82354 ATGTGATGAATGTGAGCATGCATATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* * * * *
82401 ATGTGGTGAATATGAACATGC--ATATGTGGTAAAGCCGAATGGTCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
82446 ATGTGA
1 ATGTGA
82452 AATATATATA
Statistics
Matches: 88, Mismatches: 10, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
45 25 0.28
47 63 0.72
ACGTcount: A:0.32, C:0.12, G:0.30, T:0.26
Consensus pattern (47 bp):
ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
Found at i:82409 original size:25 final size:25
Alignment explanation
Indices: 82334--82409 Score: 63
Period size: 23 Copynumber: 3.2 Consensus size: 25
82324 ATGCATATAT
82334 GTGATAAGGCCGAATGGCCAATGTG
1 GTGATAAGGCCGAATGGCCAATGTG
* * * *
82359 ATGA-ATGTG-AGCAT-G-CATATGT-
1 GTGATAAG-GCCGAATGGCCA-ATGTG
82381 GTGATAAGGCCGAATGGCCAATGTG
1 GTGATAAGGCCGAATGGCCAATGTG
82406 GTGA
1 GTGA
82410 ATATGAACAT
Statistics
Matches: 36, Mismatches: 8, Indels: 14
0.62 0.14 0.24
Matches are distributed among these distances:
22 6 0.17
23 10 0.28
24 10 0.28
25 10 0.28
ACGTcount: A:0.29, C:0.13, G:0.34, T:0.24
Consensus pattern (25 bp):
GTGATAAGGCCGAATGGCCAATGTG
Found at i:82483 original size:50 final size:50
Alignment explanation
Indices: 82410--82556 Score: 244
Period size: 50 Copynumber: 3.0 Consensus size: 50
82400 AATGTGGTGA
*
82410 ATATGA-ACATGCATATGTGGTAAAGCCGAATGGTCAATGTGAAATATAT
1 ATATGAGATATGCATATGTGGTAAAGCCGAATGGTCAATGTGAAATATAT
82459 ATATGAGATATGCATATGTGGTAAAGCCGAATGGTCAATGTGAAATATAT
1 ATATGAGATATGCATATGTGGTAAAGCCGAATGGTCAATGTGAAATATAT
* *
82509 ATATGAGATATGTATATGTGGTAAAGCCGAATGG-CTAGTGTGAAATAT
1 ATATGAGATATGCATATGTGGTAAAGCCGAATGGTC-AATGTGAAATAT
82557 GTAGGCGATG
Statistics
Matches: 93, Mismatches: 3, Indels: 3
0.94 0.03 0.03
Matches are distributed among these distances:
49 7 0.08
50 86 0.92
ACGTcount: A:0.37, C:0.08, G:0.24, T:0.30
Consensus pattern (50 bp):
ATATGAGATATGCATATGTGGTAAAGCCGAATGGTCAATGTGAAATATAT
Found at i:82851 original size:37 final size:37
Alignment explanation
Indices: 82706--82850 Score: 236
Period size: 37 Copynumber: 3.9 Consensus size: 37
82696 GGAAATATAT
*
82706 TCCGGGCAAGACCCGATGACTACGTGTGGAGATTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
*
82743 TCCGGGTAAGACCCGATGACTAAGTGTGGAGATTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
* *
82780 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTT
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
* *
82817 TCCGGGTAAGACCCGATAACTTCGTGTGGAGATT
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATT
82851 TCGTCTGAGC
Statistics
Matches: 101, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
37 101 1.00
ACGTcount: A:0.24, C:0.19, G:0.31, T:0.26
Consensus pattern (37 bp):
TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
Found at i:84563 original size:40 final size:40
Alignment explanation
Indices: 84121--84551 Score: 686
Period size: 40 Copynumber: 10.8 Consensus size: 40
84111 GAGAATTGAG
*
84121 AGTGATATATCCGGGCTAAGTCCCGAAGAG-ATTCGTGCT
1 AGTGATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
*
84160 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
1 AGTGATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
84200 AGTGATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
1 AGTGATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
84240 AGTGATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
1 AGTGATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
*
84280 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
1 AGTGATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
* * *
84320 AGTGATGTATCCAGACTAAGTCCCGAAGAGCATTTGTGCT
1 AGTGATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
*
84360 AGTGATGTATCCGGACTAAGTCCCGAAGAGCATTCGTGCT
1 AGTGATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
*
84400 AGTGATGTATCCGGACTAAGTCCCGAAGAGCATTCGTGCT
1 AGTGATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
**
84440 AGTGATGTATCCGGGCTAAGTTTCGAAGAGCATTCGTGCT
1 AGTGATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
* * *
84480 AGTGATATATCCGTGCTAA-ACCCTGAAGAGCATTCGTGCT
1 AGTGATGTATCCGGGCTAAGTCCC-GAAGAGCATTCGTGCT
* * * *
84520 GGTGTTATATCCGGGCTAGGTCCCGAAGAGCA
1 AGTGATGTATCCGGGCTAAGTCCCGAAGAGCA
84552 ATCATGCTGG
Statistics
Matches: 368, Mismatches: 21, Indels: 5
0.93 0.05 0.01
Matches are distributed among these distances:
39 31 0.08
40 334 0.91
41 3 0.01
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.26
Consensus pattern (40 bp):
AGTGATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
Found at i:88332 original size:48 final size:48
Alignment explanation
Indices: 88046--88323 Score: 493
Period size: 48 Copynumber: 5.8 Consensus size: 48
88036 AACCCGTATA
*
88046 TATATGTGTGATAAGGCCGAATGGCTAATGTGAAATATATGTGTGATATG
1 TATATGTG-G-TAAAGCCGAATGGCTAATGTGAAATATATGTGTGATATG
88096 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATGTGTGATATG
1 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATGTGTGATATG
88144 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATGTGTGATATG
1 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATGTGTGATATG
88192 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATGTGTGATATG
1 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATGTGTGATATG
* * *
88240 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGCGATATG
1 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATGTGTGATATG
*
88288 TATATGTGGTAAAGCCGAATGGCTAGTGTGAAATAT
1 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATAT
88324 GTAGGCGATG
Statistics
Matches: 223, Mismatches: 5, Indels: 2
0.97 0.02 0.01
Matches are distributed among these distances:
48 214 0.96
49 1 0.00
50 8 0.04
ACGTcount: A:0.33, C:0.07, G:0.27, T:0.33
Consensus pattern (48 bp):
TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATGTGTGATATG
Found at i:88523 original size:37 final size:37
Alignment explanation
Indices: 88473--88618 Score: 211
Period size: 37 Copynumber: 3.9 Consensus size: 37
88463 GGAAATATAT
* *
88473 TCCGGGTAAGACCCGGTGACTATGTGTGGAGATTTTG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
* *
88510 TCCGGGTAAGACCCGATGACTACGTGTGGAGAGTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
* *
88547 TTCGGGTAAGACCCGCTGACTACGTGTGGAGATTTTG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
* * *
88584 TTCGGGTAAGACCCGATAACTTCGTGTGGAGATTT
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTT
88619 CGTCTGAGCT
Statistics
Matches: 98, Mismatches: 11, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 98 1.00
ACGTcount: A:0.21, C:0.18, G:0.33, T:0.28
Consensus pattern (37 bp):
TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
Found at i:88596 original size:74 final size:74
Alignment explanation
Indices: 88475--88615 Score: 237
Period size: 74 Copynumber: 1.9 Consensus size: 74
88465 AAATATATTC
* * *
88475 CGGGTAAGACCCGGTGACTATGTGTGGAGATTTTGTCCGGGTAAGACCCGATGACTACGTGTGGA
1 CGGGTAAGACCCGCTGACTACGTGTGGAGATTTTGTCCGGGTAAGACCCGATAACTACGTGTGGA
88540 GAGTATGTT
66 GAGTATGTT
* *
88549 CGGGTAAGACCCGCTGACTACGTGTGGAGATTTTGTTCGGGTAAGACCCGATAACTTCGTGTGGA
1 CGGGTAAGACCCGCTGACTACGTGTGGAGATTTTGTCCGGGTAAGACCCGATAACTACGTGTGGA
88614 GA
66 GA
88616 TTTCGTCTGA
Statistics
Matches: 62, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
74 62 1.00
ACGTcount: A:0.22, C:0.18, G:0.34, T:0.26
Consensus pattern (74 bp):
CGGGTAAGACCCGCTGACTACGTGTGGAGATTTTGTCCGGGTAAGACCCGATAACTACGTGTGGA
GAGTATGTT
Found at i:90864 original size:14 final size:15
Alignment explanation
Indices: 90847--90875 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
90837 GTACGAAAAT
90847 TTCACACAT-ATAAA
1 TTCACACATAATAAA
90861 TTCACACATAATAAA
1 TTCACACATAATAAA
90876 CATAGAAAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 9 0.64
15 5 0.36
ACGTcount: A:0.52, C:0.21, G:0.00, T:0.28
Consensus pattern (15 bp):
TTCACACATAATAAA
Found at i:94845 original size:22 final size:22
Alignment explanation
Indices: 94820--94863 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
94810 AACTATTAAC
*
94820 ATAATGAATTTT-AGTTAATTTT
1 ATAATAAATTTTGA-TTAATTTT
94842 ATAATAAATTTTGATTAATTTT
1 ATAATAAATTTTGATTAATTTT
94864 GATTATTTTC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
22 19 0.95
23 1 0.05
ACGTcount: A:0.39, C:0.00, G:0.07, T:0.55
Consensus pattern (22 bp):
ATAATAAATTTTGATTAATTTT
Found at i:98100 original size:43 final size:43
Alignment explanation
Indices: 98053--98202 Score: 160
Period size: 43 Copynumber: 3.5 Consensus size: 43
98043 GTTACCGAGA
* *
98053 TGTGATTACATGTACGACCATGTCTGGGACATTGGCATTGTAT
1 TGTGATTACATGTAAGACCATGTCTGGGACATTGGCATCGTAT
* * * *
98096 TGTGATTACGTGTAAAACCATGTCTAGGACATTGGCATCGTTAA
1 TGTGATTACATGTAAGACCATGTCTGGGACATTGGCATCG-TAT
* * * * *
98140 T-CGATTTCATGTAAGACCCTGTCTGGGATAGTGGCATCG-AT
1 TGTGATTACATGTAAGACCATGTCTGGGACATTGGCATCGTAT
*
98181 ATGTGATAACATGTAAGACCAT
1 -TGTGATTACATGTAAGACCAT
98203 ATCTAGGATA
Statistics
Matches: 85, Mismatches: 19, Indels: 6
0.77 0.17 0.05
Matches are distributed among these distances:
41 1 0.01
42 1 0.01
43 80 0.94
44 3 0.04
ACGTcount: A:0.27, C:0.17, G:0.24, T:0.32
Consensus pattern (43 bp):
TGTGATTACATGTAAGACCATGTCTGGGACATTGGCATCGTAT
Found at i:107242 original size:10 final size:11
Alignment explanation
Indices: 107217--107264 Score: 53
Period size: 11 Copynumber: 4.3 Consensus size: 11
107207 TCATGATTAT
107217 AATCATATCAA
1 AATCATATCAA
*
107228 AATCAT-TCCA
1 AATCATATCAA
107238 AATCATGAGTCAA
1 AATCAT-A-TCAA
*
107251 AATCATAACAA
1 AATCATATCAA
107262 AAT
1 AAT
107265 TTATCTTTCA
Statistics
Matches: 31, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
10 9 0.29
11 12 0.39
12 1 0.03
13 9 0.29
ACGTcount: A:0.52, C:0.19, G:0.04, T:0.25
Consensus pattern (11 bp):
AATCATATCAA
Found at i:107262 original size:23 final size:21
Alignment explanation
Indices: 107217--107262 Score: 56
Period size: 23 Copynumber: 2.1 Consensus size: 21
107207 TCATGATTAT
**
107217 AATCATATCAAAATCATTCCA
1 AATCATATCAAAATCATAACA
107238 AATCATGAGTCAAAATCATAACA
1 AATCAT-A-TCAAAATCATAACA
107261 AA
1 AA
107263 ATTTATCTTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
21 6 0.29
22 1 0.05
23 14 0.67
ACGTcount: A:0.52, C:0.20, G:0.04, T:0.24
Consensus pattern (21 bp):
AATCATATCAAAATCATAACA
Found at i:108063 original size:43 final size:42
Alignment explanation
Indices: 107997--108163 Score: 153
Period size: 43 Copynumber: 3.9 Consensus size: 42
107987 CTCATACAAT
*
107997 GCCAATGTCCCAGAC-GTGGTCTTACATGTAATCAAATATTGAC
1 GCCAATGTCCCAGACAG-GGTCTTACACGTAATCAAATA-TGAC
* * *
108040 GCCACTGTCCCAGACAGGGTCTTACACGAAATC-AATATGAT
1 GCCAATGTCCCAGACAGGGTCTTACACGTAATCAAATATGAC
* * * *
108081 GTCAATGTCCCAGACATGGTCTTACACGTGAATCAGAAGT-CGAT
1 GCCAATGTCCCAGACAGGGTCTTACACGT-AATCA-AA-TATGAC
* * *
108125 GCCAACGTCCCAGAC-GTGGTCTTACACGAAATCACATAT
1 GCCAATGTCCCAGACAG-GGTCTTACACGTAATCAAATAT
108164 CGGATCCTAT
Statistics
Matches: 102, Mismatches: 15, Indels: 15
0.77 0.11 0.11
Matches are distributed among these distances:
41 29 0.28
42 9 0.09
43 33 0.32
44 30 0.29
45 1 0.01
ACGTcount: A:0.31, C:0.26, G:0.20, T:0.24
Consensus pattern (42 bp):
GCCAATGTCCCAGACAGGGTCTTACACGTAATCAAATATGAC
Found at i:108146 original size:85 final size:85
Alignment explanation
Indices: 107999--108163 Score: 221
Period size: 85 Copynumber: 1.9 Consensus size: 85
107989 CATACAATGC
* * *
107999 CAATGTCCCAGACGTGGTCTTACATGTAATCAAATATTGACGCCACTGTCCCAGACAGGGTCTTA
1 CAATGTCCCAGACATGGTCTTACACGTAATCAAATATCGACGCCACTGTCCCAGACAGGGTCTTA
108064 CACGAAATCA-ATATGATGT
66 CACGAAATCACATATGATGT
* *
108083 CAATGTCCCAGACATGGTCTTACACGTGAATCAGAA-GTCGATGCCAAC-GTCCCAGAC-GTGGT
1 CAATGTCCCAGACATGGTCTTACACGT-AATCA-AATATCGACGCC-ACTGTCCCAGACAG-GGT
108145 CTTACACGAAATCACATAT
62 CTTACACGAAATCACATAT
108164 CGGATCCTAT
Statistics
Matches: 71, Mismatches: 5, Indels: 8
0.85 0.06 0.10
Matches are distributed among these distances:
84 26 0.37
85 37 0.52
86 8 0.11
ACGTcount: A:0.31, C:0.25, G:0.19, T:0.24
Consensus pattern (85 bp):
CAATGTCCCAGACATGGTCTTACACGTAATCAAATATCGACGCCACTGTCCCAGACAGGGTCTTA
CACGAAATCACATATGATGT
Found at i:111567 original size:43 final size:43
Alignment explanation
Indices: 111519--111668 Score: 144
Period size: 43 Copynumber: 3.5 Consensus size: 43
111509 GTTACCGAAA
*
111519 TGTGATTACATGTAAGACCATGTCTGGGACATTGGCATTGTAT
1 TGTGATTACATGTAAGACCATGTCTGGGACATTGGCATCGTAT
** * *
111562 TGTGATTATGTGTATA-ACCATGTCTAGGACATTGGCATCGTTAA
1 TGTGATTACATGTA-AGACCATGTCTGGGACATTGGCATCG-TAT
* * * * * *
111606 T-CGATTTCGTGTAAGACCCTGTCTGAGACAGTGGCATCG-AT
1 TGTGATTACATGTAAGACCATGTCTGGGACATTGGCATCGTAT
*
111647 ATGTGATAACATGTAAGACCAT
1 -TGTGATTACATGTAAGACCAT
111669 ATATGGGATA
Statistics
Matches: 84, Mismatches: 18, Indels: 10
0.75 0.16 0.09
Matches are distributed among these distances:
41 1 0.01
42 2 0.02
43 77 0.92
44 4 0.05
ACGTcount: A:0.27, C:0.16, G:0.24, T:0.33
Consensus pattern (43 bp):
TGTGATTACATGTAAGACCATGTCTGGGACATTGGCATCGTAT
Found at i:111972 original size:18 final size:18
Alignment explanation
Indices: 111946--111988 Score: 68
Period size: 18 Copynumber: 2.4 Consensus size: 18
111936 TTTGTATATG
111946 GCTTACTAAGATTTTAAA
1 GCTTACTAAGATTTTAAA
* *
111964 GCTTGCTAAGCTTTTAAA
1 GCTTACTAAGATTTTAAA
111982 GCTTACT
1 GCTTACT
111989 TTTTGTGTTT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.30, C:0.16, G:0.14, T:0.40
Consensus pattern (18 bp):
GCTTACTAAGATTTTAAA
Found at i:112289 original size:24 final size:23
Alignment explanation
Indices: 112259--112319 Score: 59
Period size: 24 Copynumber: 2.4 Consensus size: 23
112249 ATATAATGCC
*
112259 TTATATGTTGGCTTGTTTTGGTATAG
1 TTATA-GTTGGC-TATTTTGG-ATAG
112285 TTATGAGTTGGCTATTTTGGATAG
1 TTAT-AGTTGGCTATTTTGGATAG
*
112309 TTGTAAGTTGG
1 TTAT-AGTTGG
112320 TATATTAATT
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
24 13 0.42
25 7 0.23
26 10 0.32
27 1 0.03
ACGTcount: A:0.18, C:0.03, G:0.30, T:0.49
Consensus pattern (23 bp):
TTATAGTTGGCTATTTTGGATAG
Found at i:112325 original size:25 final size:25
Alignment explanation
Indices: 112274--112325 Score: 61
Period size: 24 Copynumber: 2.1 Consensus size: 25
112264 TGTTGGCTTG
* *
112274 TTTTGGTATAGTTATGAGTTGGCTA
1 TTTTGGTATAGTTATAAGTTGGATA
*
112299 TTTTGG-ATAGTTGTAAGTTGGTATA
1 TTTTGGTATAGTTATAAGTTGG-ATA
112324 TT
1 TT
112326 AATTTTTGAG
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
24 13 0.57
25 10 0.43
ACGTcount: A:0.21, C:0.02, G:0.27, T:0.50
Consensus pattern (25 bp):
TTTTGGTATAGTTATAAGTTGGATA
Found at i:118158 original size:40 final size:40
Alignment explanation
Indices: 117079--118146 Score: 1807
Period size: 40 Copynumber: 26.7 Consensus size: 40
117069 ATTGAGGGTA
*
117079 ATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTG
1 ATGTATCCGGACTAAGTCCCGAAGAGCATTCGTGCTAGTG
* *
117119 ATGTATCCGGGCTAAGTCCCGAAGAGCATTTGTGCTAGTG
1 ATGTATCCGGACTAAGTCCCGAAGAGCATTCGTGCTAGTG
117159 ATGTATCCGGACTAAGTCCCGAAGAGCATTCGTGCTAGTG
1 ATGTATCCGGACTAAGTCCCGAAGAGCATTCGTGCTAGTG
* *
117199 ATGTATCCAGACTAAGTCCCGAAGAGCATTTGTGCTAGTG
1 ATGTATCCGGACTAAGTCCCGAAGAGCATTCGTGCTAGTG
117239 ATGTATCCGGACTAAGTCCCGAAGAGCATTCGTGCTAGTG
1 ATGTATCCGGACTAAGTCCCGAAGAGCATTCGTGCTAGTG
* *
117279 ATGTATCCAGACTAAGTCCCGAAGAGCATTTGTGCTAGTG
1 ATGTATCCGGACTAAGTCCCGAAGAGCATTCGTGCTAGTG
117319 ATGTATCCGGACTAAGTCCCGAAGAGCATTCGTGCTAGTG
1 ATGTATCCGGACTAAGTCCCGAAGAGCATTCGTGCTAGTG
* *
117359 ATGTATCCAGACTAAGTCCCGAAGAGCATTTGTGCTAGTG
1 ATGTATCCGGACTAAGTCCCGAAGAGCATTCGTGCTAGTG
117399 ATGTATCCGGACTAAGTCCCGAAGAGCATTCGTGCTAGTG
1 ATGTATCCGGACTAAGTCCCGAAGAGCATTCGTGCTAGTG
* *
117439 ATGTATCCAGACTAAGTCCCGAAGAGCATTTGTGCTAGTG
1 ATGTATCCGGACTAAGTCCCGAAGAGCATTCGTGCTAGTG
117479 ATGTATCCGGACTAAGTCCCGAAGAGCATTCGTGCTAGTG
1 ATGTATCCGGACTAAGTCCCGAAGAGCATTCGTGCTAGTG
* *
117519 ATGTATCCAGACTAAGTCCCGAAGAGCATTTGTGCTAGTG
1 ATGTATCCGGACTAAGTCCCGAAGAGCATTCGTGCTAGTG
117559 ATGTATCCGGACTAAGTCCCGAAGAGCATTCGTGCTAGTG
1 ATGTATCCGGACTAAGTCCCGAAGAGCATTCGTGCTAGTG
* *
117599 ATGTATCCAGACTAAGTCCCGAAGAGCATTTGTGCTAGTG
1 ATGTATCCGGACTAAGTCCCGAAGAGCATTCGTGCTAGTG
117639 ATGTATCCGGACTAAGTCCCGAAGAGCATTCGTGCTAGTG
1 ATGTATCCGGACTAAGTCCCGAAGAGCATTCGTGCTAGTG
* *
117679 ATGTATCCAGACTAAGTCCCGAAGAGCATTTGTGCTAGTG
1 ATGTATCCGGACTAAGTCCCGAAGAGCATTCGTGCTAGTG
117719 ATGTATCCGGACTAAGTCCCGAAGAGCATTCGTGCTAGTG
1 ATGTATCCGGACTAAGTCCCGAAGAGCATTCGTGCTAGTG
* *
117759 ATGTATCCAGACTAAGTCCCGAAGAGCATTTGTGCTAGTG
1 ATGTATCCGGACTAAGTCCCGAAGAGCATTCGTGCTAGTG
117799 ATGTATCCGGACTAAGTCCCGAAGAGCATTCGTGCTAGTG
1 ATGTATCCGGACTAAGTCCCGAAGAGCATTCGTGCTAGTG
* *
117839 ATGTATCCAGACTAAGTCCCGAAGAGCATTTGTGCTAGTG
1 ATGTATCCGGACTAAGTCCCGAAGAGCATTCGTGCTAGTG
117879 ATGTATCCGGACTAAGTCCCGAAGAGCATTCGTGCTAGTG
1 ATGTATCCGGACTAAGTCCCGAAGAGCATTCGTGCTAGTG
*
117919 ATGTATCCGGACTAAGTCCCGAAGAGCACTCGTGCTAGTG
1 ATGTATCCGGACTAAGTCCCGAAGAGCATTCGTGCTAGTG
*
117959 ATGTATCCGGACTAAGTCCCGAAGAGCACTCGTGCTAGTG
1 ATGTATCCGGACTAAGTCCCGAAGAGCATTCGTGCTAGTG
*
117999 ATGTATCCGGACTAAGTCCCGAAGAGCACTCGTGCTAGTG
1 ATGTATCCGGACTAAGTCCCGAAGAGCATTCGTGCTAGTG
**
118039 ATGTATCCGGACTAAGTTTCGAAGAGCATTCGTGCTAGTG
1 ATGTATCCGGACTAAGTCCCGAAGAGCATTCGTGCTAGTG
* * *
118079 ATATATCCGTG-CTAA-ACCCTGAAGAGCATTCGTGCTGGTG
1 ATGTATCCG-GACTAAGTCCC-GAAGAGCATTCGTGCTAGTG
* * * *
118119 TTATATCCGGGCTAGGTCCCGAAGAGCA
1 ATGTATCCGGACTAAGTCCCGAAGAGCA
118147 ATCAAGCTGG
Statistics
Matches: 973, Mismatches: 51, Indels: 8
0.94 0.05 0.01
Matches are distributed among these distances:
39 2 0.00
40 967 0.99
41 4 0.00
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.26
Consensus pattern (40 bp):
ATGTATCCGGACTAAGTCCCGAAGAGCATTCGTGCTAGTG
Done.