Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008305.1 Hibiscus syriacus cultivar Beakdansim tig00110991_pilon, whole genome shotgun sequence
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: 75669
ACGTcount: A:0.32, C:0.18, G:0.17, T:0.33
Found at i:188 original size:42 final size:41
Alignment explanation
Indices: 104--189 Score: 109
Period size: 42 Copynumber: 2.0 Consensus size: 41
94 TTTATATATT
* * *
104 AACATGTCTATATTAAATAAATTCGATCTTGCGGAGTAAAA
1 AACATGTCTAAATTAAATAAATTCGATCTTGAGGAGCAAAA
* *
145 AACATGTCTCAAATTGAATAAATTCGATCTTGATGAGCCAAAA
1 AACATGTCT-AAATTAAATAAATTCGATCTTGAGGAG-CAAAA
188 AA
1 AA
190 AACATGCCTA
Statistics
Matches: 38, Mismatches: 5, Indels: 2
0.84 0.11 0.04
Matches are distributed among these distances:
41 9 0.24
42 23 0.61
43 6 0.16
ACGTcount: A:0.43, C:0.14, G:0.14, T:0.29
Consensus pattern (41 bp):
AACATGTCTAAATTAAATAAATTCGATCTTGAGGAGCAAAA
Found at i:13119 original size:20 final size:21
Alignment explanation
Indices: 13090--13143 Score: 69
Period size: 20 Copynumber: 2.7 Consensus size: 21
13080 TAACACAAAC
*
13090 TCCAATTTCGCAA-TACA-TTT
1 TCCAAATTCGCAACT-CAGTTT
13110 TCCAAATTCGCAACTCAGTTT
1 TCCAAATTCGCAACTCAGTTT
13131 T-CAAATTCGCAAC
1 TCCAAATTCGCAAC
13144 ACGAAGTACG
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
20 26 0.84
21 5 0.16
ACGTcount: A:0.31, C:0.28, G:0.07, T:0.33
Consensus pattern (21 bp):
TCCAAATTCGCAACTCAGTTT
Found at i:17954 original size:20 final size:20
Alignment explanation
Indices: 17931--17997 Score: 83
Period size: 20 Copynumber: 3.6 Consensus size: 20
17921 TTTGAAACTT
17931 AAATTCGCAACACGAAAATG
1 AAATTCGCAACACGAAAATG
*
17951 AAATTCACAACACG---A--
1 AAATTCGCAACACGAAAATG
17966 AAA-TCGCAACACGAAAATG
1 AAATTCGCAACACGAAAATG
17985 AAATTCGCAACAC
1 AAATTCGCAACAC
17998 AATTTTAGTT
Statistics
Matches: 39, Mismatches: 2, Indels: 12
0.74 0.04 0.23
Matches are distributed among these distances:
14 9 0.23
15 3 0.08
17 2 0.05
19 3 0.08
20 22 0.56
ACGTcount: A:0.51, C:0.24, G:0.12, T:0.13
Consensus pattern (20 bp):
AAATTCGCAACACGAAAATG
Found at i:19776 original size:21 final size:20
Alignment explanation
Indices: 19750--19914 Score: 127
Period size: 21 Copynumber: 8.0 Consensus size: 20
19740 AAGTTAGGAG
19750 TTACGTGATGAGGTCAGTGCT
1 TTACGTGATGAGGT-AGTGCT
* *
19771 TTACGTGATGAGGTCGGTTCT
1 TTACGTGATGAGGT-AGTGCT
* ** * *
19792 TTACGTGACGACAATGGTGCA
1 TTACGTGATGA-GGTAGTGCT
* *
19813 TGACGTGATGAGGTAGCGTCT
1 TTACGTGATGAGGTAGTG-CT
*
19834 TTACGTGGTGAGGTAGCTG-T
1 TTACGTGATGAGGTAG-TGCT
** *
19854 GTTACGTGATGAAATGGTGCT
1 -TTACGTGATGAGGTAGTGCT
*
19875 TTACGTGGTGAGGTA-TGCT
1 TTACGTGATGAGGTAGTGCT
19894 TTACGTGATGAGGTAGCTGCT
1 TTACGTGATGAGGTAG-TGCT
19915 CTGCGTAAGA
Statistics
Matches: 111, Mismatches: 26, Indels: 14
0.74 0.17 0.09
Matches are distributed among these distances:
19 18 0.16
20 17 0.15
21 74 0.67
22 2 0.02
ACGTcount: A:0.19, C:0.13, G:0.35, T:0.33
Consensus pattern (20 bp):
TTACGTGATGAGGTAGTGCT
Found at i:19836 original size:63 final size:61
Alignment explanation
Indices: 19752--19912 Score: 191
Period size: 63 Copynumber: 2.6 Consensus size: 61
19742 GTTAGGAGTT
* * *
19752 ACGTGATGAGGTCAGTGCTTTACGTGATGAGGTCGGT-TCTTTACGTGACGACAATGGTGCATG
1 ACGTGATGAGGT-AGTGCTTTACGTGATGAGGTAGCTGT-GTTACGTGACGA-AATGGTGCATG
* * * * *
19815 ACGTGATGAGGTAGCGTCTTTACGTGGTGAGGTAGCTGTGTTACGTGATGAAATGGTGCTTT
1 ACGTGATGAGGTAGTG-CTTTACGTGATGAGGTAGCTGTGTTACGTGACGAAATGGTGCATG
*
19877 ACGTGGTGAGGTA-TGCTTTACGTGATGAGGTAGCTG
1 ACGTGATGAGGTAGTGCTTTACGTGATGAGGTAGCTG
19913 CTCTGCGTAA
Statistics
Matches: 85, Mismatches: 11, Indels: 7
0.83 0.11 0.07
Matches are distributed among these distances:
60 20 0.24
61 1 0.01
62 24 0.28
63 39 0.46
64 1 0.01
ACGTcount: A:0.20, C:0.13, G:0.35, T:0.32
Consensus pattern (61 bp):
ACGTGATGAGGTAGTGCTTTACGTGATGAGGTAGCTGTGTTACGTGACGAAATGGTGCATG
Found at i:20248 original size:21 final size:21
Alignment explanation
Indices: 20199--20331 Score: 90
Period size: 21 Copynumber: 6.3 Consensus size: 21
20189 GAAGAAGCCC
* *
20199 GATCCATCTACCATTGTTCAA
1 GATCCACCTCCCATTGTTCAA
* *
20220 GATCCACCTCCCATTGTTTAG
1 GATCCACCTCCCATTGTTCAA
* **
20241 GATTCACCTGTCATTGTTCAA
1 GATCCACCTCCCATTGTTCAA
* * *
20262 GAGGCC-CCTTCCATCGTTCAA
1 GA-TCCACCTCCCATTGTTCAA
* * * *
20283 GAGGCC-CCTCCCATCGTTTAG
1 GA-TCCACCTCCCATTGTTCAA
**
20304 GATCCACCTCCCACCGTTCAA
1 GATCCACCTCCCATTGTTCAA
20325 GATCCAC
1 GATCCAC
20332 ATGGCATACT
Statistics
Matches: 89, Mismatches: 21, Indels: 4
0.78 0.18 0.04
Matches are distributed among these distances:
20 2 0.02
21 86 0.97
22 1 0.01
ACGTcount: A:0.22, C:0.35, G:0.15, T:0.28
Consensus pattern (21 bp):
GATCCACCTCCCATTGTTCAA
Found at i:21871 original size:20 final size:20
Alignment explanation
Indices: 21846--21888 Score: 77
Period size: 20 Copynumber: 2.1 Consensus size: 20
21836 TCGCGTTGCG
*
21846 ATTTTCGTGTTGCGAATTTT
1 ATTTTCGCGTTGCGAATTTT
21866 ATTTTCGCGTTGCGAATTTT
1 ATTTTCGCGTTGCGAATTTT
21886 ATT
1 ATT
21889 GAGTTACGAA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.16, C:0.12, G:0.19, T:0.53
Consensus pattern (20 bp):
ATTTTCGCGTTGCGAATTTT
Found at i:22152 original size:6 final size:6
Alignment explanation
Indices: 22141--22176 Score: 54
Period size: 6 Copynumber: 5.8 Consensus size: 6
22131 GTTGTGATTG
*
22141 GATTTT GATTTT GATTTT GATTGT GATTTTT GATTT
1 GATTTT GATTTT GATTTT GATTTT GA-TTTT GATTT
22177 CCTTTTGCTT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
6 22 0.81
7 5 0.19
ACGTcount: A:0.17, C:0.00, G:0.19, T:0.64
Consensus pattern (6 bp):
GATTTT
Found at i:24469 original size:24 final size:23
Alignment explanation
Indices: 24406--24472 Score: 80
Period size: 24 Copynumber: 2.8 Consensus size: 23
24396 CTGAAACATC
*
24406 ATCAAAATCGAGTATTGACCAAG
1 ATCAAAGTCGAGTATTGACCAAG
*
24429 ATCAAAGTCCAGGTATTGACCAAG
1 ATCAAAGTCGA-GTATTGACCAAG
* *
24453 ATCAAATTTCGAATATTGAC
1 ATCAAA-GTCGAGTATTGAC
24473 TAGTACTCAC
Statistics
Matches: 37, Mismatches: 5, Indels: 3
0.82 0.11 0.07
Matches are distributed among these distances:
23 9 0.24
24 25 0.68
25 3 0.08
ACGTcount: A:0.40, C:0.18, G:0.16, T:0.25
Consensus pattern (23 bp):
ATCAAAGTCGAGTATTGACCAAG
Found at i:25408 original size:20 final size:20
Alignment explanation
Indices: 25383--25551 Score: 91
Period size: 20 Copynumber: 8.5 Consensus size: 20
25373 AAATAAAAGT
*
25383 TGTTGCGAAATTAAAATTCA
1 TGTTGCGAAATTAAAATTCG
*
25403 TGTTGCG-AATTCGGAAATT-G
1 TGTTGCGAAATT--AAAATTCG
* **
25423 AGTTGCGAAAACAAAATTCG
1 TGTTGCGAAATTAAAATTCG
* *
25443 TGTTGCG-AATTAGAAAATCT
1 TGTTGCGAAATTA-AAATTCG
* * *
25463 TGTTGTGAAAATGAAACTT-G
1 TGTTGCG-AAATTAAAATTCG
* *
25483 TGTTGCGAATTTAAAAATCG
1 TGTTGCGAAATTAAAATTCG
* * *
25503 CGTTGCTAAA-AAAAATTCG
1 TGTTGCGAAATTAAAATTCG
25522 TGTTGCG-AATTCAGAAA-TCG
1 TGTTGCGAAATT-A-AAATTCG
*
25542 AGTTGCGAAA
1 TGTTGCGAAA
25552 AAGAAATTCG
Statistics
Matches: 107, Mismatches: 30, Indels: 23
0.67 0.19 0.14
Matches are distributed among these distances:
18 2 0.02
19 31 0.29
20 55 0.51
21 15 0.14
22 4 0.04
ACGTcount: A:0.36, C:0.11, G:0.22, T:0.31
Consensus pattern (20 bp):
TGTTGCGAAATTAAAATTCG
Found at i:25430 original size:40 final size:39
Alignment explanation
Indices: 25384--25590 Score: 220
Period size: 40 Copynumber: 5.2 Consensus size: 39
25374 AATAAAAGTT
* * * *
25384 GTTGCGAAATTAAAATTCATGTTGCGAATTCGGAAATTGA
1 GTTGCGAAA-AAAAATTCGTGTTGCGAATTCAGAAATCGA
**
25424 GTTGCGAAAACAAAATTCGTGTTGCGAATT-AGAAAATCTT
1 GTTGCGAAAA-AAAATTCGTGTTGCGAATTCAG-AAATCGA
* * * * *
25464 GTTGTGAAAATGAAACTT-GTGTTGCGAATTTAAAAATCGC
1 GTTGCGAAAA--AAAATTCGTGTTGCGAATTCAGAAATCGA
*
25504 GTTGCTAAAAAAAATTCGTGTTGCGAATTCAGAAATCGA
1 GTTGCGAAAAAAAATTCGTGTTGCGAATTCAGAAATCGA
* *
25543 GTTGCGAAAAAGAAATTCGCGTTACGAATTCAGAAATCGA
1 GTTGCGAAAAA-AAATTCGTGTTGCGAATTCAGAAATCGA
25583 GTTGCGAA
1 GTTGCGAA
25591 TTTGGAAACT
Statistics
Matches: 140, Mismatches: 21, Indels: 12
0.81 0.12 0.07
Matches are distributed among these distances:
38 5 0.04
39 30 0.21
40 99 0.71
41 6 0.04
ACGTcount: A:0.37, C:0.12, G:0.22, T:0.29
Consensus pattern (39 bp):
GTTGCGAAAAAAAATTCGTGTTGCGAATTCAGAAATCGA
Found at i:25467 original size:60 final size:60
Alignment explanation
Indices: 25367--25652 Score: 194
Period size: 60 Copynumber: 4.8 Consensus size: 60
25357 ACTATTTGTT
* * *
25367 TTGCGAAAATAAAAGT--TGTTGCGAAATTA-AAATTCATGTTGCGAATTCGGAAATTGAG
1 TTGCGAAAATAAAATTCGTGTTGCG-AATTAGAAAATCGTGTTGCGAATTCGGAAATTGAG
* * * * *
25425 TTGCGAAAACAAAATTCGTGTTGCGAATTAGAAAATCTTGTTGTGAAAAT--GAAACTTGTG
1 TTGCGAAAATAAAATTCGTGTTGCGAATTAGAAAATCGTGTTGCG-AATTCGGAAA-TTGAG
** * * * * * *
25485 TTGCGAATTTAAAAATCGCGTTGCTAA--AAAAAATTCGTGTTGCGAATTCAGAAATCGAG
1 TTGCGAAAATAAAATTCGTGTTGCGAATTAGAAAA-TCGTGTTGCGAATTCGGAAATTGAG
* * * * * *
25544 TTGCGAAAA-AGAAATTCGCGTTACGAATTCAG-AAATCGAGTTGCGAATTTGGAAACTGCG
1 TTGCGAAAATA-AAATTCGTGTTGCGAATT-AGAAAATCGTGTTGCGAATTCGGAAATTGAG
* ** * * * *
25604 TTGCGAAATTGGAGTTTGTGTTGCGAATTTGAAAACCGTGTTGCGAATT
1 TTGCGAAAATAAAATTCGTGTTGCGAATTAGAAAATCGTGTTGCGAATT
25653 TGAAAACCGC
Statistics
Matches: 173, Mismatches: 41, Indels: 26
0.72 0.17 0.11
Matches are distributed among these distances:
58 23 0.13
59 41 0.24
60 102 0.59
61 6 0.03
62 1 0.01
ACGTcount: A:0.35, C:0.12, G:0.23, T:0.30
Consensus pattern (60 bp):
TTGCGAAAATAAAATTCGTGTTGCGAATTAGAAAATCGTGTTGCGAATTCGGAAATTGAG
Found at i:25571 original size:79 final size:80
Alignment explanation
Indices: 25408--25590 Score: 210
Period size: 79 Copynumber: 2.3 Consensus size: 80
25398 ATTCATGTTG
** * ** *
25408 CGAATTCGGAAATTGAGTTGCGAAAACAAAATTCGTGTTGCGAATTAGAAAATCTTGTTGTGAAA
1 CGAATTCAAAAATCGAGTTGCGAAAACAAAATTCGTGTTGCGAATTAGAAAATCGAGTTGCGAAA
* * *
25473 ATGAAACTTGTGTTG
66 AAGAAACTTGCGTTA
* * *
25488 CGAATTTAAAAATCGCGTTGCTAAAA-AAAATTCGTGTTGCGAATTCAG-AAATCGAGTTGCGAA
1 CGAATTCAAAAATCGAGTTGCGAAAACAAAATTCGTGTTGCGAATT-AGAAAATCGAGTTGCGAA
25551 AAAGAAA-TTCGCGTTA
65 AAAGAAACTT-GCGTTA
*
25567 CGAATTCAGAAATCGAGTTGCGAA
1 CGAATTCAAAAATCGAGTTGCGAA
25591 TTTGGAAACT
Statistics
Matches: 85, Mismatches: 16, Indels: 5
0.80 0.15 0.05
Matches are distributed among these distances:
78 2 0.02
79 61 0.72
80 22 0.26
ACGTcount: A:0.37, C:0.13, G:0.22, T:0.28
Consensus pattern (80 bp):
CGAATTCAAAAATCGAGTTGCGAAAACAAAATTCGTGTTGCGAATTAGAAAATCGAGTTGCGAAA
AAGAAACTTGCGTTA
Found at i:25598 original size:20 final size:20
Alignment explanation
Indices: 25523--25814 Score: 121
Period size: 20 Copynumber: 14.6 Consensus size: 20
25513 AAAAATTCGT
**
25523 GTTGCGAATTCAGAAATCGA
1 GTTGCGAATTTGGAAATCGA
*** *
25543 GTTGCGAA-AAAGAAATTCGC
1 GTTGCGAATTTGGAAA-TCGA
* **
25563 GTTACGAATTCAGAAATCGA
1 GTTGCGAATTTGGAAATCGA
*
25583 GTTGCGAATTTGGAAA-CTGC
1 GTTGCGAATTTGGAAATC-GA
* ** * *
25603 GTTGCGAAATTGGAGTTTGT
1 GTTGCGAATTTGGAAATCGA
* * *
25623 GTTGCGAATTTGAAAACCGT
1 GTTGCGAATTTGGAAATCGA
* * *
25643 GTTGCGAATTTGAAAACCGC
1 GTTGCGAATTTGGAAATCGA
* *
25663 GTTGCGAATTT-GAAAACCA
1 GTTGCGAATTTGGAAATCGA
* * * *
25682 CATTGCGAATTTAGAAAATTGC
1 -GTTGCGAATTT-GGAAATCGA
* *
25704 GTTGCGAATTT-CAAAACTGA
1 GTTGCGAATTTGGAAATC-GA
* *
25724 GTTGCGAATTT-CAAAACTGA
1 GTTGCGAATTTGGAAATC-GA
*
25744 GTTGCGAATTTGGAAAT-TA
1 GTTGCGAATTTGGAAATCGA
* ** *
25763 TGTTGCGAAATTGGAGTTCGT
1 -GTTGCGAATTTGGAAATCGA
* * *
25784 GTTACGAATTT-GAGATCGC
1 GTTGCGAATTTGGAAATCGA
25803 GTTGCGAATTTG
1 GTTGCGAATTTG
25815 TTGGTTATTT
Statistics
Matches: 209, Mismatches: 51, Indels: 24
0.74 0.18 0.08
Matches are distributed among these distances:
19 30 0.14
20 158 0.76
21 18 0.09
22 3 0.01
ACGTcount: A:0.31, C:0.13, G:0.25, T:0.30
Consensus pattern (20 bp):
GTTGCGAATTTGGAAATCGA
Found at i:25605 original size:40 final size:40
Alignment explanation
Indices: 25523--25755 Score: 161
Period size: 40 Copynumber: 5.8 Consensus size: 40
25513 AAAAATTCGT
*** *
25523 GTTGCGAATTCAGAAATCGAGTTGCGAAAAAG-AAATTCGC
1 GTTGCGAATTCAGAAATCGAGTTGCGAATTTGAAAACT-GC
* *
25563 GTTACGAATTCAGAAATCGAGTTGCGAATTTGGAAACTGC
1 GTTGCGAATTCAGAAATCGAGTTGCGAATTTGAAAACTGC
* ** * * * *
25603 GTTGCGAAATT-GGAGTTTGTGTTGCGAATTTGAAAACCGT
1 GTTGCG-AATTCAGAAATCGAGTTGCGAATTTGAAAACTGC
* * * **
25643 GTTGCGAATT-TGAAAACCGCGTTGCGAATTTGAAAACCAC
1 GTTGCGAATTCAG-AAATCGAGTTGCGAATTTGAAAACTGC
* * * * * *
25683 ATTGCGAATTTAGAAAATTGCGTTGCGAATTTCAAAACTGA
1 GTTGCGAATTCAG-AAATCGAGTTGCGAATTTGAAAACTGC
25724 GTTGCGAATTTCA-AAA-CTGAGTTGCGAATTTG
1 GTTGCGAA-TTCAGAAATC-GAGTTGCGAATTTG
25756 GAAATTATGT
Statistics
Matches: 152, Mismatches: 35, Indels: 12
0.76 0.18 0.06
Matches are distributed among these distances:
39 5 0.03
40 106 0.70
41 38 0.25
42 3 0.02
ACGTcount: A:0.32, C:0.14, G:0.24, T:0.29
Consensus pattern (40 bp):
GTTGCGAATTCAGAAATCGAGTTGCGAATTTGAAAACTGC
Found at i:25607 original size:119 final size:119
Alignment explanation
Indices: 25395--25610 Score: 285
Period size: 119 Copynumber: 1.8 Consensus size: 119
25385 TTGCGAAATT
* * * *
25395 AAAATTCATGTTGCGAATTCGGAAATTGAGTTGCGAAAACAAAATTCGTGTTGCGAATTAGAAAA
1 AAAATTCATGTTGCGAATTCAGAAATCGAGTTGCGAAAACAAAATTCGCGTTACGAATTAGAAAA
** * *
25460 TCTTGTTGTGAAAATGAAACTTGTGTTGCGAATTTAAAAATCGCGTTGCTAAAA
66 TCGAGTTGCGAAAATGAAACTTGCGTTGCGAATTTAAAAATCGCGTTGCTAAAA
*
25514 AAAATTCGTGTTGCGAATTCAGAAATCGAGTTGCGAAAA-AGAAATTCGCGTTACGAATTCAG-A
1 AAAATTCATGTTGCGAATTCAGAAATCGAGTTGCGAAAACA-AAATTCGCGTTACGAATT-AGAA
**
25577 AATCGAGTTGCGAATTTGGAAAC-TGCGTTGCGAA
64 AATCGAGTTGCGAAAAT-GAAACTTGCGTTGCGAA
25611 ATTGGAGTTT
Statistics
Matches: 83, Mismatches: 11, Indels: 6
0.83 0.11 0.06
Matches are distributed among these distances:
118 1 0.01
119 75 0.90
120 7 0.08
ACGTcount: A:0.36, C:0.12, G:0.23, T:0.29
Consensus pattern (119 bp):
AAAATTCATGTTGCGAATTCAGAAATCGAGTTGCGAAAACAAAATTCGCGTTACGAATTAGAAAA
TCGAGTTGCGAAAATGAAACTTGCGTTGCGAATTTAAAAATCGCGTTGCTAAAA
Found at i:25720 original size:61 final size:60
Alignment explanation
Indices: 25624--25740 Score: 162
Period size: 61 Copynumber: 1.9 Consensus size: 60
25614 GGAGTTTGTG
* * * *
25624 TTGCGAATTTGAAAACCGTGTTGCGAATTTGAAAACCGCGTTGCGAATTTGAAAACCACA
1 TTGCGAATTTGAAAACCGCGTTGCGAATTTCAAAACCGAGTTGCGAATTTCAAAACCACA
** *
25684 TTGCGAATTTAGAAAATTGCGTTGCGAATTTCAAAACTGAGTTGCGAATTTCAAAAC
1 TTGCGAATTT-GAAAACCGCGTTGCGAATTTCAAAACCGAGTTGCGAATTTCAAAAC
25741 TGAGTTGCGA
Statistics
Matches: 49, Mismatches: 7, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
60 10 0.20
61 39 0.80
ACGTcount: A:0.34, C:0.16, G:0.21, T:0.29
Consensus pattern (60 bp):
TTGCGAATTTGAAAACCGCGTTGCGAATTTCAAAACCGAGTTGCGAATTTCAAAACCACA
Found at i:25749 original size:61 final size:60
Alignment explanation
Indices: 25623--25755 Score: 160
Period size: 61 Copynumber: 2.2 Consensus size: 60
25613 TGGAGTTTGT
* * * *
25623 GTTGCGAATTTGAAAACCGTGTTGCGAATTTGAAAACCGCGTTGCGAATTTGAAAACCAC
1 GTTGCGAATTTGAAAACCGCGTTGCGAATTTCAAAACCGAGTTGCGAATTTCAAAACCAC
* ** * *
25683 ATTGCGAATTTAGAAAATTGCGTTGCGAATTTCAAAACTGAGTTGCGAATTTCAAAACTGA-
1 GTTGCGAATTT-GAAAACCGCGTTGCGAATTTCAAAACCGAGTTGCGAATTTCAAAAC-CAC
25744 GTTGCGAATTTG
1 GTTGCGAATTTG
25756 GAAATTATGT
Statistics
Matches: 61, Mismatches: 10, Indels: 4
0.81 0.13 0.05
Matches are distributed among these distances:
60 11 0.18
61 49 0.80
62 1 0.02
ACGTcount: A:0.32, C:0.15, G:0.23, T:0.30
Consensus pattern (60 bp):
GTTGCGAATTTGAAAACCGCGTTGCGAATTTCAAAACCGAGTTGCGAATTTCAAAACCAC
Found at i:25768 original size:40 final size:40
Alignment explanation
Indices: 25623--25771 Score: 165
Period size: 40 Copynumber: 3.7 Consensus size: 40
25613 TGGAGTTTGT
* *
25623 GTTGCGAATTTGAAAACCGTGTTGCGAATTTGAAAACCGC
1 GTTGCGAATTTGAAAACCATGTTGCGAATTTGAAAACTGC
** *
25663 GTTGCGAATTTGAAAACCACATTGCGAATTTAGAAAATTGC
1 GTTGCGAATTTGAAAACCATGTTGCGAATTT-GAAAACTGC
* * * *
25704 GTTGCGAATTTCAAAACTGA-GTTGCGAATTTCAAAACTGA
1 GTTGCGAATTTGAAAAC-CATGTTGCGAATTTGAAAACTGC
* **
25744 GTTGCGAATTTGGAAATTATGTTGCGAA
1 GTTGCGAATTTGAAAACCATGTTGCGAA
25772 ATTGGAGTTC
Statistics
Matches: 91, Mismatches: 15, Indels: 6
0.81 0.13 0.05
Matches are distributed among these distances:
39 1 0.01
40 56 0.62
41 33 0.36
42 1 0.01
ACGTcount: A:0.33, C:0.14, G:0.23, T:0.30
Consensus pattern (40 bp):
GTTGCGAATTTGAAAACCATGTTGCGAATTTGAAAACTGC
Found at i:30955 original size:23 final size:23
Alignment explanation
Indices: 30920--30987 Score: 84
Period size: 23 Copynumber: 3.0 Consensus size: 23
30910 CATCTTATAT
30920 GGCACTTCA-GTGCATTTCTACGC
1 GGCACTT-AGGTGCATTTCTACGC
* *
30943 GGCACTTAGGTGCAATTCTACGT
1 GGCACTTAGGTGCATTTCTACGC
* *
30966 GGCACTTCGGTGCATTTATACG
1 GGCACTTAGGTGCATTTCTACG
30988 AGCTGTGGTG
Statistics
Matches: 39, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
22 1 0.03
23 38 0.97
ACGTcount: A:0.19, C:0.25, G:0.25, T:0.31
Consensus pattern (23 bp):
GGCACTTAGGTGCATTTCTACGC
Found at i:32519 original size:17 final size:18
Alignment explanation
Indices: 32499--32540 Score: 59
Period size: 17 Copynumber: 2.4 Consensus size: 18
32489 GAAAGATTGC
*
32499 AAAGAAATTAAATAACA-
1 AAAGAAATTAAATAAAAT
*
32516 AAAGTAATTAAATAAAAT
1 AAAGAAATTAAATAAAAT
32534 AAAGAAA
1 AAAGAAA
32541 GGTAAATTAA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
17 15 0.71
18 6 0.29
ACGTcount: A:0.71, C:0.02, G:0.07, T:0.19
Consensus pattern (18 bp):
AAAGAAATTAAATAAAAT
Found at i:34446 original size:23 final size:23
Alignment explanation
Indices: 34420--34488 Score: 93
Period size: 23 Copynumber: 3.0 Consensus size: 23
34410 CACCACAGCT
* *
34420 CGTATAAATGCACCGAAGTGTCA
1 CGTAGAAATGCACCGAAGTGCCA
* * *
34443 CGTAGAATTGCACCGTAGTGCCG
1 CGTAGAAATGCACCGAAGTGCCA
34466 CGTAGAAATGCACCGAAGTGCCA
1 CGTAGAAATGCACCGAAGTGCCA
34489 TATAAGGTTG
Statistics
Matches: 38, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
23 38 1.00
ACGTcount: A:0.30, C:0.25, G:0.26, T:0.19
Consensus pattern (23 bp):
CGTAGAAATGCACCGAAGTGCCA
Found at i:35310 original size:24 final size:20
Alignment explanation
Indices: 35253--35329 Score: 70
Period size: 20 Copynumber: 3.8 Consensus size: 20
35243 TTTCTATTGA
*
35253 AGTGCATCGATGCATTCTAC
1 AGTGCATCGATGCATCCTAC
*
35273 AGTGTATCGATGCATCCCTAAAC
1 AGTGCATCGATGCAT-CCT--AC
35296 ATGTGCATCGATGCACTCCT--
1 A-GTGCATCGATGCA-TCCTAC
35316 A-TGCATCGATGCAT
1 AGTGCATCGATGCAT
35330 TAATTGCATT
Statistics
Matches: 49, Mismatches: 3, Indels: 13
0.75 0.05 0.20
Matches are distributed among these distances:
17 1 0.02
18 12 0.24
20 15 0.31
21 2 0.04
23 3 0.06
24 15 0.31
25 1 0.02
ACGTcount: A:0.26, C:0.26, G:0.19, T:0.29
Consensus pattern (20 bp):
AGTGCATCGATGCATCCTAC
Found at i:43289 original size:26 final size:26
Alignment explanation
Indices: 43250--43328 Score: 140
Period size: 26 Copynumber: 3.0 Consensus size: 26
43240 AAAAGAAAGA
43250 AAGAACAAAAGAATTCTGATGATTCG
1 AAGAACAAAAGAATTCTGATGATTCG
* *
43276 AATAACAAAAGAATTTTGATGATTCG
1 AAGAACAAAAGAATTCTGATGATTCG
43302 AAGAACAAAAGAATTCTGATGATTCG
1 AAGAACAAAAGAATTCTGATGATTCG
43328 A
1 A
43329 GATATTGAAT
Statistics
Matches: 49, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 49 1.00
ACGTcount: A:0.47, C:0.10, G:0.18, T:0.25
Consensus pattern (26 bp):
AAGAACAAAAGAATTCTGATGATTCG
Found at i:44890 original size:18 final size:18
Alignment explanation
Indices: 44867--44905 Score: 78
Period size: 18 Copynumber: 2.2 Consensus size: 18
44857 TTCCACAGCT
44867 TCCCAAAGATCTACATCC
1 TCCCAAAGATCTACATCC
44885 TCCCAAAGATCTACATCC
1 TCCCAAAGATCTACATCC
44903 TCC
1 TCC
44906 AGGTAAATCC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.31, C:0.41, G:0.05, T:0.23
Consensus pattern (18 bp):
TCCCAAAGATCTACATCC
Found at i:50150 original size:20 final size:20
Alignment explanation
Indices: 50127--50178 Score: 95
Period size: 20 Copynumber: 2.6 Consensus size: 20
50117 AACGCGATCC
50127 CCAGAATCGCAAATCAGTTT
1 CCAGAATCGCAAATCAGTTT
50147 CCAGAATCGCAAATCAGTTT
1 CCAGAATCGCAAATCAGTTT
*
50167 CCAAAATCGCAA
1 CCAGAATCGCAA
50179 CGCGATTCTT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.38, C:0.27, G:0.13, T:0.21
Consensus pattern (20 bp):
CCAGAATCGCAAATCAGTTT
Found at i:50195 original size:21 final size:20
Alignment explanation
Indices: 50168--50266 Score: 72
Period size: 21 Copynumber: 4.8 Consensus size: 20
50158 AATCAGTTTC
50168 CAAAATCGCAACGCGATTCTT
1 CAAAATCGCAACGCGATT-TT
* * * * *
50189 GAAAATCGCGATGCGATAGTA
1 CAAAATCGCAACGCGAT-TTT
* **
50210 CAAATTCGCATTGCGATTTT
1 CAAAATCGCAACGCGATTTT
* *
50230 CCAAAATCGCAACGCGAATAT
1 -CAAAATCGCAACGCGATTTT
*
50251 GAAAATCGCAACGCGA
1 CAAAATCGCAACGCGA
50267 ACACATAAAT
Statistics
Matches: 59, Mismatches: 17, Indels: 5
0.73 0.21 0.06
Matches are distributed among these distances:
20 16 0.27
21 43 0.73
ACGTcount: A:0.36, C:0.23, G:0.19, T:0.21
Consensus pattern (20 bp):
CAAAATCGCAACGCGATTTT
Found at i:50295 original size:20 final size:20
Alignment explanation
Indices: 50233--50426 Score: 221
Period size: 20 Copynumber: 9.7 Consensus size: 20
50223 CGATTTTCCA
* ** *
50233 AAATCGCAACGCGAATATGA
1 AAATCGCAACGCGTATCCGT
* *
50253 AAATCGCAACGCG-AACACAT
1 AAATCGCAACGCGTATC-CGT
50273 AAATCGCAACGCGTATCCGT
1 AAATCGCAACGCGTATCCGT
*
50293 AAATCGCAACGTGTATCCGT
1 AAATCGCAACGCGTATCCGT
**
50313 AAATCGCAACGCGTATGGGT
1 AAATCGCAACGCGTATCCGT
*
50333 AAATCGCAATGCGTATCCGT
1 AAATCGCAACGCGTATCCGT
*
50353 ATATCGCAACGCGTATCCGT
1 AAATCGCAACGCGTATCCGT
* * *
50373 AAATCGCAACG-ATAATACAT
1 AAATCGCAACGCGT-ATCCGT
50393 AAAATCGCAACGCGTATCCGT
1 -AAATCGCAACGCGTATCCGT
50414 AAATCGCAACGCG
1 AAATCGCAACGCG
50427 ATATTTAAAG
Statistics
Matches: 146, Mismatches: 23, Indels: 10
0.82 0.13 0.06
Matches are distributed among these distances:
19 2 0.01
20 126 0.86
21 17 0.12
22 1 0.01
ACGTcount: A:0.36, C:0.26, G:0.20, T:0.19
Consensus pattern (20 bp):
AAATCGCAACGCGTATCCGT
Found at i:50317 original size:60 final size:60
Alignment explanation
Indices: 50233--50426 Score: 253
Period size: 60 Copynumber: 3.2 Consensus size: 60
50223 CGATTTTCCA
* ** * *
50233 AAATCGCAACGCGAATATGAAAATCGCAACGCGAACACATAAATCGCAACGCGTATCCGT
1 AAATCGCAACGCGTATCCGTAAATCGCAACGCGAATACATAAATCGCAACGCGTATCCGT
* * *** *
50293 AAATCGCAACGTGTATCCGTAAATCGCAACGCGTATGGGTAAATCGCAATGCGTATCCGT
1 AAATCGCAACGCGTATCCGTAAATCGCAACGCGAATACATAAATCGCAACGCGTATCCGT
* **
50353 ATATCGCAACGCGTATCCGTAAATCGCAACGATAATACATAAAATCGCAACGCGTATCCGT
1 AAATCGCAACGCGTATCCGTAAATCGCAACGCGAATACAT-AAATCGCAACGCGTATCCGT
50414 AAATCGCAACGCG
1 AAATCGCAACGCG
50427 ATATTTAAAG
Statistics
Matches: 112, Mismatches: 21, Indels: 1
0.84 0.16 0.01
Matches are distributed among these distances:
60 81 0.72
61 31 0.28
ACGTcount: A:0.36, C:0.26, G:0.20, T:0.19
Consensus pattern (60 bp):
AAATCGCAACGCGTATCCGTAAATCGCAACGCGAATACATAAATCGCAACGCGTATCCGT
Found at i:50847 original size:33 final size:33
Alignment explanation
Indices: 50808--50878 Score: 115
Period size: 33 Copynumber: 2.2 Consensus size: 33
50798 TTCACTTAGA
*
50808 TTTCATTTCGCGTTACGATTCTGTCGTTGCGAT
1 TTTCATTTCGCGTTACGATTCTCTCGTTGCGAT
* *
50841 TTTCATTTCGCGTTGCTATTCTCTCGTTGCGAT
1 TTTCATTTCGCGTTACGATTCTCTCGTTGCGAT
50874 TTTCA
1 TTTCA
50879 AGTTAGTATT
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
33 35 1.00
ACGTcount: A:0.11, C:0.23, G:0.18, T:0.48
Consensus pattern (33 bp):
TTTCATTTCGCGTTACGATTCTCTCGTTGCGAT
Found at i:51018 original size:14 final size:14
Alignment explanation
Indices: 50999--51053 Score: 56
Period size: 14 Copynumber: 3.6 Consensus size: 14
50989 AGAATGACTG
50999 TCGCAACGAGAGAA
1 TCGCAACGAGAGAA
*
51013 TCGCAACGCGAAATGGAAA
1 TCGCAA--CGAGA--G-AA
51032 TCGCAACGAGAGAA
1 TCGCAACGAGAGAA
51046 TCGCAACG
1 TCGCAACG
51054 CGAAACCAAA
Statistics
Matches: 34, Mismatches: 2, Indels: 10
0.74 0.04 0.22
Matches are distributed among these distances:
14 16 0.47
15 1 0.03
16 4 0.12
17 4 0.12
18 1 0.03
19 8 0.24
ACGTcount: A:0.40, C:0.24, G:0.27, T:0.09
Consensus pattern (14 bp):
TCGCAACGAGAGAA
Found at i:51066 original size:33 final size:33
Alignment explanation
Indices: 50999--51069 Score: 115
Period size: 33 Copynumber: 2.2 Consensus size: 33
50989 AGAATGACTG
***
50999 TCGCAACGAGAGAATCGCAACGCGAAATGGAAA
1 TCGCAACGAGAGAATCGCAACGCGAAACCAAAA
51032 TCGCAACGAGAGAATCGCAACGCGAAACCAAAA
1 TCGCAACGAGAGAATCGCAACGCGAAACCAAAA
51065 TCGCA
1 TCGCA
51070 TTGCGATTTT
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
33 35 1.00
ACGTcount: A:0.42, C:0.25, G:0.24, T:0.08
Consensus pattern (33 bp):
TCGCAACGAGAGAATCGCAACGCGAAACCAAAA
Found at i:51087 original size:19 final size:19
Alignment explanation
Indices: 51065--51162 Score: 81
Period size: 19 Copynumber: 5.7 Consensus size: 19
51055 GAAACCAAAA
*
51065 TCGCATTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
51084 TCGCGTTGCGA--TTC---
1 TCGCGTTGCGATTTTCATT
*
51098 TCTCGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
51117 TCGCGTTGCGA--TTC---
1 TCGCGTTGCGATTTTCATT
* * *
51131 TCTCGTTGCGATTGTCATC
1 TCGCGTTGCGATTTTCATT
51150 TCGCGTTGCGATT
1 TCGCGTTGCGATT
51163 CTCTCGTTGC
Statistics
Matches: 63, Mismatches: 6, Indels: 20
0.71 0.07 0.22
Matches are distributed among these distances:
14 20 0.32
16 5 0.08
17 6 0.10
19 32 0.51
ACGTcount: A:0.10, C:0.24, G:0.22, T:0.43
Consensus pattern (19 bp):
TCGCGTTGCGATTTTCATT
Found at i:51106 original size:14 final size:14
Alignment explanation
Indices: 51087--51176 Score: 81
Period size: 14 Copynumber: 5.7 Consensus size: 14
51077 TTTCATTTCG
51087 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
*
51101 CGTTGCGATTTTCATTTCG
1 CGTTGCGA--TTC---TCT
51120 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
51134 CGTTGCGATTGTCATCT
1 CGTTGCGA-T-TC-TCT
51151 CGCGTTGCGATTCTCT
1 --CGTTGCGATTCTCT
51167 CGTTGCGATT
1 CGTTGCGATT
51177 TTCATTTCAA
Statistics
Matches: 64, Mismatches: 2, Indels: 20
0.74 0.02 0.23
Matches are distributed among these distances:
14 28 0.44
15 1 0.02
16 8 0.12
17 8 0.12
18 1 0.02
19 18 0.28
ACGTcount: A:0.09, C:0.26, G:0.23, T:0.42
Consensus pattern (14 bp):
CGTTGCGATTCTCT
Found at i:51112 original size:33 final size:33
Alignment explanation
Indices: 51070--51184 Score: 212
Period size: 33 Copynumber: 3.5 Consensus size: 33
51060 CAAAATCGCA
51070 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
51103 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
* *
51136 TTGCGATTGTCATCTCGCGTTGCGATTCTCTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
51169 TTGCGATTTTCATTTC
1 TTGCGATTTTCATTTC
51185 AACCAAAAGA
Statistics
Matches: 78, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 78 1.00
ACGTcount: A:0.10, C:0.24, G:0.21, T:0.45
Consensus pattern (33 bp):
TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
Found at i:53191 original size:184 final size:186
Alignment explanation
Indices: 52882--53262 Score: 739
Period size: 184 Copynumber: 2.1 Consensus size: 186
52872 TAGATTGCTT
52882 AGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
52947 TTTGTCTTTGTTTTGTCTTTTGGTTGAAAGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACT
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAAAGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACT
53012 GTGTATTCTTTAACACTGTGAAATA-TA-TTGTCTTTGTTTTGTCTTTTGGTTGAA
131 GTGTATTCTTTAACACTGTGAAATAGTATTTGTCTTTGTTTTGTCTTTTGGTTGAA
*
53066 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
53131 TTTGTCTTTGTTTTGTCTTTTGGTTGAAAGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACT
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAAAGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACT
53196 GTGTATTCTTTAACACTGTGAAATAGTATTTGTCTTTGTTTTGTCTTTTGGTTGAA
131 GTGTATTCTTTAACACTGTGAAATAGTATTTGTCTTTGTTTTGTCTTTTGGTTGAA
53252 AGTAAATTTAT
1 AGTAAATTTAT
53263 CCATTCAAGT
Statistics
Matches: 193, Mismatches: 2, Indels: 2
0.98 0.01 0.01
Matches are distributed among these distances:
184 154 0.80
185 2 0.01
186 37 0.19
ACGTcount: A:0.23, C:0.13, G:0.19, T:0.46
Consensus pattern (186 bp):
AGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
TTTGTCTTTGTTTTGTCTTTTGGTTGAAAGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACT
GTGTATTCTTTAACACTGTGAAATAGTATTTGTCTTTGTTTTGTCTTTTGGTTGAA
Found at i:53198 original size:93 final size:93
Alignment explanation
Indices: 52882--53260 Score: 735
Period size: 93 Copynumber: 4.1 Consensus size: 93
52872 TAGATTGCTT
*
52882 AGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
52947 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
52975 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATA-TA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
53039 -TTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
53066 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
53131 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
53159 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
53224 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
53252 AGTAAATTT
1 AGTAAATTT
53261 ATCCATTCAA
Statistics
Matches: 283, Mismatches: 1, Indels: 4
0.98 0.00 0.01
Matches are distributed among these distances:
91 89 0.31
92 4 0.01
93 190 0.67
ACGTcount: A:0.22, C:0.13, G:0.19, T:0.46
Consensus pattern (93 bp):
AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
TTTGTCTTTGTTTTGTCTTTTGGTTGAA
Found at i:53344 original size:19 final size:19
Alignment explanation
Indices: 53304--53432 Score: 107
Period size: 19 Copynumber: 7.3 Consensus size: 19
53294 TAGTTTACTT
* *
53304 TCGCAACACGAAACTTAAAA
1 TCGCAACGCGAAA-TCAAAA
53324 TCGCAACGCGAAATCAAAA
1 TCGCAACGCGAAATCAAAA
*
53343 TCGCAACGCGAAATGAAAA
1 TCGCAACGCGAAATCAAAA
*
53362 TCGCAA--CG--A-CAGAA
1 TCGCAACGCGAAATCAAAA
*
53376 TCGCAACGCGAAACCAAAA
1 TCGCAACGCGAAATCAAAA
* *
53395 TCGCTA--CG--AT-AAGA
1 TCGCAACGCGAAATCAAAA
*
53409 TCGCAACGCGAAACCAAAA
1 TCGCAACGCGAAATCAAAA
53428 TCGCA
1 TCGCA
53433 TTGCGATTTT
Statistics
Matches: 87, Mismatches: 12, Indels: 21
0.73 0.10 0.17
Matches are distributed among these distances:
14 17 0.20
15 2 0.02
16 4 0.05
17 4 0.05
18 2 0.02
19 46 0.53
20 12 0.14
ACGTcount: A:0.45, C:0.27, G:0.17, T:0.11
Consensus pattern (19 bp):
TCGCAACGCGAAATCAAAA
Found at i:53383 original size:33 final size:32
Alignment explanation
Indices: 53340--53432 Score: 132
Period size: 33 Copynumber: 2.8 Consensus size: 32
53330 CGCGAAATCA
**
53340 AAATCGCAACGCGAAATGAAAATCGCAACGAC
1 AAATCGCAACGCGAAACCAAAATCGCAACGAC
* *
53372 AGAATCGCAACGCGAAACCAAAATCGCTACGAT
1 A-AATCGCAACGCGAAACCAAAATCGCAACGAC
53405 AAGATCGCAACGCGAAACCAAAATCGCA
1 AA-ATCGCAACGCGAAACCAAAATCGCA
53433 TTGCGATTTT
Statistics
Matches: 54, Mismatches: 5, Indels: 3
0.87 0.08 0.05
Matches are distributed among these distances:
32 2 0.04
33 52 0.96
ACGTcount: A:0.45, C:0.27, G:0.18, T:0.10
Consensus pattern (32 bp):
AAATCGCAACGCGAAACCAAAATCGCAACGAC
Found at i:53430 original size:52 final size:52
Alignment explanation
Indices: 53304--53432 Score: 120
Period size: 52 Copynumber: 2.5 Consensus size: 52
53294 TAGTTTACTT
** * *
53304 TCGCAACACGAAACTTAAAATCGCAACGCGAAATCAAAATCGCAACGCGAAA
1 TCGCAACACGAAACACAAAATCGCAACGCGAAACCAAAATCGCAACGAGAAA
* * * * *
53356 T-G-AAAATCGCAACGACAGAATCGCAACGCGAAACCAAAATCGCTACGATAAGA
1 TCGCAACA-CGAAAC-ACAAAATCGCAACGCGAAACCAAAATCGCAACGAGAA-A
*
53409 TCGCAACGCGAAAC-CAAAATCGCA
1 TCGCAACACGAAACACAAAATCGCA
53433 TTGCGATTTT
Statistics
Matches: 59, Mismatches: 13, Indels: 10
0.72 0.16 0.12
Matches are distributed among these distances:
50 3 0.05
51 6 0.10
52 40 0.68
53 2 0.03
54 6 0.10
55 2 0.03
ACGTcount: A:0.45, C:0.27, G:0.17, T:0.11
Consensus pattern (52 bp):
TCGCAACACGAAACACAAAATCGCAACGCGAAACCAAAATCGCAACGAGAAA
Found at i:53450 original size:19 final size:19
Alignment explanation
Indices: 53428--53561 Score: 119
Period size: 19 Copynumber: 7.6 Consensus size: 19
53418 GAAACCAAAA
*
53428 TCGCATTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
53447 TCGCGTTGCGA--TTC-TT
1 TCGCGTTGCGATTTTCATT
53463 T--CGTTGCGA-TTTCATT
1 TCGCGTTGCGATTTTCATT
* *
53479 TCGCATTGCGA--TTC-TG
1 TCGCGTTGCGATTTTCATT
53495 T--CGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
**
53512 TCGCGTTGCGATTTTGGTT
1 TCGCGTTGCGATTTTCATT
*
53531 TCGCGTTGCGATTTTAAGTT
1 TCGCGTTGCGATTTTCA-TT
*
53551 TCGTGTTGCGA
1 TCGCGTTGCGA
53562 AAGTAAACTA
Statistics
Matches: 95, Mismatches: 10, Indels: 19
0.77 0.08 0.15
Matches are distributed among these distances:
14 15 0.16
15 3 0.03
16 11 0.12
17 8 0.08
18 7 0.07
19 39 0.41
20 12 0.13
ACGTcount: A:0.11, C:0.19, G:0.24, T:0.46
Consensus pattern (19 bp):
TCGCGTTGCGATTTTCATT
Found at i:53469 original size:14 final size:14
Alignment explanation
Indices: 53450--53505 Score: 67
Period size: 14 Copynumber: 3.7 Consensus size: 14
53440 TTTCATTTCG
53450 CGTTGCGATTCTTT
1 CGTTGCGATTCTTT
53464 CGTTGCGATTTCATTT
1 CGTTGCGA-TTC-TTT
*
53480 CGCATTGCGATTCTGT
1 CG--TTGCGATTCTTT
53496 CGTTGCGATT
1 CGTTGCGATT
53506 TTCATTTCGC
Statistics
Matches: 37, Mismatches: 1, Indels: 8
0.80 0.02 0.17
Matches are distributed among these distances:
14 16 0.43
15 3 0.08
16 9 0.24
17 3 0.08
18 6 0.16
ACGTcount: A:0.11, C:0.21, G:0.23, T:0.45
Consensus pattern (14 bp):
CGTTGCGATTCTTT
Found at i:53514 original size:33 final size:33
Alignment explanation
Indices: 53433--53524 Score: 159
Period size: 32 Copynumber: 2.8 Consensus size: 33
53423 CAAAATCGCA
*
53433 TTGCGATTTTCATTTCGCGTTGCGATTCTTTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTGTCG
*
53466 TTGCGA-TTTCATTTCGCATTGCGATTCTGTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTGTCG
53498 TTGCGATTTTCATTTCGCGTTGCGATT
1 TTGCGATTTTCATTTCGCGTTGCGATT
53525 TTGGTTTCGC
Statistics
Matches: 55, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
32 30 0.55
33 25 0.45
ACGTcount: A:0.11, C:0.21, G:0.22, T:0.47
Consensus pattern (33 bp):
TTGCGATTTTCATTTCGCGTTGCGATTCTGTCG
Found at i:55421 original size:38 final size:38
Alignment explanation
Indices: 55378--55450 Score: 137
Period size: 38 Copynumber: 1.9 Consensus size: 38
55368 AATTGATTGT
*
55378 TTTTTGATTGTTTAATTGATTTGTAAAAGTTGATTCAA
1 TTTTTGATTGTTTAATTGATTTGTAAAAGATGATTCAA
55416 TTTTTGATTGTTTAATTGATTTGTAAAAGATGATT
1 TTTTTGATTGTTTAATTGATTTGTAAAAGATGATT
55451 TGTAAAAGTT
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
38 34 1.00
ACGTcount: A:0.29, C:0.01, G:0.16, T:0.53
Consensus pattern (38 bp):
TTTTTGATTGTTTAATTGATTTGTAAAAGATGATTCAA
Found at i:55437 original size:19 final size:19
Alignment explanation
Indices: 55373--55437 Score: 51
Period size: 19 Copynumber: 3.4 Consensus size: 19
55363 AGTTTAATTG
*
55373 ATTGTTTTTTGATTGTTTA
1 ATTGATTTTTGATTGTTTA
* * ** *
55392 ATTGATTTGTAAAAG-TTG
1 ATTGATTTTTGATTGTTTA
*
55410 ATTCAATTTTTGATTGTTTA
1 ATT-GATTTTTGATTGTTTA
55430 ATTGATTT
1 ATTGATTT
55438 GTAAAAGATG
Statistics
Matches: 31, Mismatches: 13, Indels: 4
0.65 0.27 0.08
Matches are distributed among these distances:
18 5 0.16
19 21 0.68
20 5 0.16
ACGTcount: A:0.25, C:0.02, G:0.15, T:0.58
Consensus pattern (19 bp):
ATTGATTTTTGATTGTTTA
Found at i:55451 original size:14 final size:14
Alignment explanation
Indices: 55432--55467 Score: 63
Period size: 14 Copynumber: 2.6 Consensus size: 14
55422 ATTGTTTAAT
55432 TGATTTGTAAAAGA
1 TGATTTGTAAAAGA
*
55446 TGATTTGTAAAAGT
1 TGATTTGTAAAAGA
55460 TGATTTGT
1 TGATTTGT
55468 GTAATTGATG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.33, C:0.00, G:0.22, T:0.44
Consensus pattern (14 bp):
TGATTTGTAAAAGA
Found at i:55590 original size:19 final size:19
Alignment explanation
Indices: 55574--55675 Score: 151
Period size: 19 Copynumber: 5.6 Consensus size: 19
55564 AAAAATGACT
55574 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
55593 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
*
55612 ATCGCAA--CG--A-GAGA
1 ATCGCAATGCGAAATGAAA
55626 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
55645 ATCGCAATGCGGAAATGAAA
1 ATCGCAATGC-GAAATGAAA
55665 ATCGCAATGCG
1 ATCGCAATGCG
55676 TTTATAATTT
Statistics
Matches: 75, Mismatches: 2, Indels: 12
0.84 0.02 0.13
Matches are distributed among these distances:
14 10 0.13
15 1 0.01
16 2 0.03
17 2 0.03
18 1 0.01
19 40 0.53
20 19 0.25
ACGTcount: A:0.44, C:0.18, G:0.24, T:0.15
Consensus pattern (19 bp):
ATCGCAATGCGAAATGAAA
Found at i:55728 original size:19 final size:19
Alignment explanation
Indices: 55704--56029 Score: 405
Period size: 19 Copynumber: 18.4 Consensus size: 19
55694 GATTATCTCG
55704 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
55723 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
55742 TTGCGA--TTC-TTTCG--
1 TTGCGATTTTCATTTCGCA
55756 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
55775 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
*
55794 TTGCGATTTTCATTTCGTA
1 TTGCGATTTTCATTTCGCA
*
55813 TTGCGATTTTAATTTCGCA
1 TTGCGATTTTCATTTCGCA
55832 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
*
55851 TTGCGA--TTC-TCTCG--
1 TTGCGATTTTCATTTCGCA
55865 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
55884 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
*
55903 TTGCGA--TTC-TCTCG--
1 TTGCGATTTTCATTTCGCA
55917 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
55936 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
*
55955 TTGCGA--TTC-TCTCG--
1 TTGCGATTTTCATTTCGCA
55969 TTGCGATTTTCATTTCCGCA
1 TTGCGATTTTCATTT-CGCA
55989 TTGCGATTTTCA--T-G--
1 TTGCGATTTTCATTTCGCA
* *
56003 TTGGGATTTTCATTTCGCG
1 TTGCGATTTTCATTTCGCA
56022 TTGCGATT
1 TTGCGATT
56030 GTATTTTCCG
Statistics
Matches: 269, Mismatches: 12, Indels: 52
0.81 0.04 0.16
Matches are distributed among these distances:
14 35 0.13
16 31 0.12
17 28 0.10
18 3 0.01
19 160 0.59
20 12 0.04
ACGTcount: A:0.14, C:0.21, G:0.18, T:0.47
Consensus pattern (19 bp):
TTGCGATTTTCATTTCGCA
Found at i:55744 original size:52 final size:52
Alignment explanation
Indices: 55682--56001 Score: 550
Period size: 52 Copynumber: 6.0 Consensus size: 52
55672 TGCGTTTATA
*
55682 ATTTCGCATTGCGATTATCTCGTTGCGATTTTCATTTCGCATTGCGATTTTC
1 ATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCATTGCGATTTTC
*
55734 ATTTCGCATTGCGATTCTTTCGTTGCGATTTTCATTTCGCATTGCGATTTTC
1 ATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCATTGCGATTTTC
* *
55786 ATTTCGCATTGCGATTTTCATTTCGTATTGCGATTTTAATTTCGCATTGCGATTTTC
1 ATTTCGCATTGCGA--TTC-TCTCG--TTGCGATTTTCATTTCGCATTGCGATTTTC
55843 ATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCATTGCGATTTTC
1 ATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCATTGCGATTTTC
55895 ATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCATTGCGATTTTC
1 ATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCATTGCGATTTTC
55947 ATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCCGCATTGCGATTTTC
1 ATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTT-CGCATTGCGATTTTC
56000 AT
1 AT
56002 GTTGGGATTT
Statistics
Matches: 257, Mismatches: 5, Indels: 11
0.94 0.02 0.04
Matches are distributed among these distances:
52 182 0.71
53 17 0.07
54 7 0.03
55 8 0.03
57 43 0.17
ACGTcount: A:0.15, C:0.22, G:0.17, T:0.47
Consensus pattern (52 bp):
ATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCATTGCGATTTTC
Found at i:55779 original size:71 final size:72
Alignment explanation
Indices: 55704--56029 Score: 389
Period size: 71 Copynumber: 4.6 Consensus size: 72
55694 GATTATCTCG
55704 TTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCGATTCTTTCG-TTGCGATTTTCA
1 TTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCGATTCTTTCGATTGCGATTTTCA
55768 TTTCGCA
66 TTTCGCA
* *
55775 TTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGTATTGCGATTTTAATTTCGCATTGCGATT
1 TTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCGA--TT-CTTTCG-ATTGCGATT
55840 TTCATTTCGCA
62 TTCATTTCGCA
*
55851 TTGCGA--TTC-TCTCG--TTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCGA--
1 TTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCGA--TTC-TTTCG-ATTGCGATT
*
55909 TTC-TCTCG--
62 TTCATTTCGCA
*
55917 TTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCGATTCTCTCG-TTGCGATTTTCA
1 TTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCGATTCTTTCGATTGCGATTTTCA
55981 TTTCCGCA
66 TTT-CGCA
* *
55989 TTGCGATTTTCA--T-G--TTGGGATTTTCATTTCGCGTTGCGATT
1 TTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCGATT
56030 GTATTTTCCG
Statistics
Matches: 227, Mismatches: 11, Indels: 38
0.82 0.04 0.14
Matches are distributed among these distances:
66 12 0.05
67 25 0.11
68 14 0.06
69 13 0.06
70 3 0.01
71 109 0.48
72 12 0.05
73 6 0.03
74 8 0.04
76 25 0.11
ACGTcount: A:0.14, C:0.21, G:0.18, T:0.47
Consensus pattern (72 bp):
TTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCGATTCTTTCGATTGCGATTTTCA
TTTCGCA
Found at i:55947 original size:161 final size:157
Alignment explanation
Indices: 55682--56001 Score: 552
Period size: 161 Copynumber: 2.0 Consensus size: 157
55672 TGCGTTTATA
55682 ATTTCGCATTGCGATTATCTCGTTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCG
1 ATTTCGCATTGCGATTATCTCGTTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCG
* *
55747 ATTCTTTCGTTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGT
66 ATTCTCTCGTTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCGA--TTC-TCTCG-
55812 ATTGCGATTTTAATTT-CGCATTGCGATTTTC
127 -TTGCGATTTTAATTTCCGCATTGCGATTTTC
*
55843 ATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCG
1 ATTTCGCATTGCGATTATCTCGTTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCG
55908 ATTCTCTCGTTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCGATTCTCTCGTTGC
66 ATTCTCTCGTTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCGATTCTCTCGTTGC
*
55973 GATTTTCATTTCCGCATTGCGATTTTC
131 GATTTTAATTTCCGCATTGCGATTTTC
56000 AT
1 AT
56002 GTTGGGATTT
Statistics
Matches: 154, Mismatches: 4, Indels: 6
0.94 0.02 0.04
Matches are distributed among these distances:
156 14 0.09
157 17 0.11
158 4 0.03
159 3 0.02
161 116 0.75
ACGTcount: A:0.15, C:0.22, G:0.17, T:0.47
Consensus pattern (157 bp):
ATTTCGCATTGCGATTATCTCGTTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCG
ATTCTCTCGTTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCGATTCTCTCGTTGC
GATTTTAATTTCCGCATTGCGATTTTC
Found at i:55973 original size:33 final size:33
Alignment explanation
Indices: 55723--56029 Score: 280
Period size: 33 Copynumber: 8.8 Consensus size: 33
55713 TCATTTCGCA
*
55723 TTGCGATTTTCATTTCGCATTGCGATTCTTTCG
1 TTGCGATTTTCATTTCGCATTGCGATTCTCTCG
*
55756 TTGCGATTTTCATTTCGCATTGCGATTTTCATTTCG
1 TTGCGATTTTCATTTCGCATTGCGA--TTC-TCTCG
* * *
55792 CATTGCGATTTTCATTTCGTATTGCGATTTTAATTTCG
1 --TTGCGATTTTCATTTCGCATTGCGA--TT-CTCTCG
55830 CATTGCGATTTTCATTTCGCATTGCGATTCTCTCG
1 --TTGCGATTTTCATTTCGCATTGCGATTCTCTCG
*
55865 TTGCGATTTTCATTTCGCATTGCGATTTTCATTTCG
1 TTGCGATTTTCATTTCGCATTGCGA--TTC-TCTCG
* * * * *
55901 CATTGCGATTCTCTCGTTGCG-ATTTTC-ATT-TCGCA
1 --TTGCGATT-T-TCATTTCGCA-TTGCGATTCTCTCG
55936 TTGCGATTTTCATTTCGCATTGCGATTCTCTCG
1 TTGCGATTTTCATTTCGCATTGCGATTCTCTCG
*
55969 TTGCGATTTTCATTTCCGCATTGCGATTTTCAT-G
1 TTGCGATTTTCATTT-CGCATTGCGATTCTC-TCG
* *
56003 TTGGGATTTTCATTTCGCGTTGCGATT
1 TTGCGATTTTCATTTCGCATTGCGATT
56030 GTATTTTCCG
Statistics
Matches: 235, Mismatches: 20, Indels: 38
0.80 0.07 0.13
Matches are distributed among these distances:
31 9 0.04
32 5 0.02
33 87 0.37
34 29 0.12
35 13 0.06
36 11 0.05
37 2 0.01
38 67 0.29
39 3 0.01
40 9 0.04
ACGTcount: A:0.14, C:0.21, G:0.18, T:0.47
Consensus pattern (33 bp):
TTGCGATTTTCATTTCGCATTGCGATTCTCTCG
Found at i:58351 original size:12 final size:12
Alignment explanation
Indices: 58334--58358 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
58324 TCTTCGGGGA
58334 CTTTTTCTTCTT
1 CTTTTTCTTCTT
58346 CTTTTTCTTCTT
1 CTTTTTCTTCTT
58358 C
1 C
58359 AGGATTATAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.00, C:0.28, G:0.00, T:0.72
Consensus pattern (12 bp):
CTTTTTCTTCTT
Found at i:58567 original size:24 final size:24
Alignment explanation
Indices: 58533--58579 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
58523 CTGAAACATC
58533 ATCAAAATCCGTG-TATTGACCAAT
1 ATCAAAATCCG-GATATTGACCAAT
*
58557 ATCAAAGTCCGGATATTGACCAA
1 ATCAAAATCCGGATATTGACCAA
58580 GACCAAATTT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 1 0.05
24 20 0.95
ACGTcount: A:0.38, C:0.21, G:0.15, T:0.26
Consensus pattern (24 bp):
ATCAAAATCCGGATATTGACCAAT
Found at i:59280 original size:20 final size:20
Alignment explanation
Indices: 59252--59620 Score: 458
Period size: 20 Copynumber: 18.4 Consensus size: 20
59242 AAATTTCAGT
* * * *
59252 GTTGTGATTTACAGATTCTC
1 GTTGCGATTTACGGATACGC
*
59272 GTTGCGATTTACGGATTA-TC
1 GTTGCGATTTACGGA-TACGC
* * *
59292 GTTGCGATTTACAGATTCTC
1 GTTGCGATTTACGGATACGC
*
59312 GTTGCGATTTACGGATTA-TC
1 GTTGCGATTTACGGA-TACGC
59332 GTTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATACGC
*
59352 GTTGCGATTTACGGATTA-TC
1 GTTGCGATTTACGGA-TACGC
59372 GTTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATACGC
59392 GTTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATACGC
*
59412 ATTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATACGC
*
59432 GTTGCGATTTACGGATACAC
1 GTTGCGATTTACGGATACGC
*
59452 GTTGCGGTTTACGGATACGC
1 GTTGCGATTTACGGATACGC
59472 GTTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATACGC
*
59492 GTTGCGATATACGGATACGC
1 GTTGCGATTTACGGATACGC
* **
59512 ATTGCGATTTACCCATACGC
1 GTTGCGATTTACGGATACGC
*
59532 GTTGCGATTTACGGATACAC
1 GTTGCGATTTACGGATACGC
59552 GTTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATACGC
* *
59572 GTTGCGATTTATGTG-TTCGC
1 GTTGCGATTTACG-GATACGC
* ** *
59592 GTTGCGATTTTCATATTCGC
1 GTTGCGATTTACGGATACGC
59612 GTTGCGATT
1 GTTGCGATT
59621 ATGGAAAATC
Statistics
Matches: 309, Mismatches: 32, Indels: 16
0.87 0.09 0.04
Matches are distributed among these distances:
19 5 0.02
20 299 0.97
21 5 0.02
ACGTcount: A:0.20, C:0.19, G:0.26, T:0.35
Consensus pattern (20 bp):
GTTGCGATTTACGGATACGC
Found at i:60985 original size:27 final size:28
Alignment explanation
Indices: 60955--61011 Score: 71
Period size: 28 Copynumber: 2.1 Consensus size: 28
60945 AAAGTTATCT
*
60955 TTTTA-ATCAAAATAGATAACTAAAGTA
1 TTTTATATCAAAATAGATAACTAAACTA
* * *
60982 TTTTATGTCAAAATAGGTACCTAAACTA
1 TTTTATATCAAAATAGATAACTAAACTA
61010 TT
1 TT
61012 CAAAGCTTTC
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
27 5 0.20
28 20 0.80
ACGTcount: A:0.44, C:0.11, G:0.09, T:0.37
Consensus pattern (28 bp):
TTTTATATCAAAATAGATAACTAAACTA
Found at i:61137 original size:29 final size:31
Alignment explanation
Indices: 61105--61173 Score: 88
Period size: 31 Copynumber: 2.3 Consensus size: 31
61095 ATACTTTATG
* * *
61105 CTATTTTGAC-CAAAA-ATTACTTTTAGTAC
1 CTATTTTGACAAAAAAGATAACTTTTAATAC
61134 CTATTTTGACAAAAAAGATAACTTTTAATAC
1 CTATTTTGACAAAAAAGATAACTTTTAATAC
*
61165 TTATTTTGA
1 CTATTTTGA
61174 TTAAAAAAAT
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
29 10 0.29
30 4 0.12
31 20 0.59
ACGTcount: A:0.38, C:0.13, G:0.07, T:0.42
Consensus pattern (31 bp):
CTATTTTGACAAAAAAGATAACTTTTAATAC
Found at i:74244 original size:19 final size:19
Alignment explanation
Indices: 74220--74258 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 19
74210 TACAAGAGCA
*
74220 CTTGTATAACAGTCTTAAC
1 CTTGTATAACAGCCTTAAC
74239 CTTGTATAACAGCCTTAAC
1 CTTGTATAACAGCCTTAAC
74258 C
1 C
74259 AACTTAGTTA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.31, C:0.26, G:0.10, T:0.33
Consensus pattern (19 bp):
CTTGTATAACAGCCTTAAC
Done.