Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold373
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: 3053563
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 13 of 20
Found at i:1824097 original size:61 final size:61
Alignment explanation
Indices: 1823962--1824137 Score: 160
Period size: 61 Copynumber: 2.9 Consensus size: 61
1823952 ACTCATTAGT
* * * *
1823962 TTTATCCAGGCCATTTCATTAAGTCTTGGTTTTGCCTAAGTCATTATTTAGGTTTTTTGGT
1 TTTATCTAGGCCATTTCATTAAGTCTTAGTTTTGCCCAAGTCATTATTTAGGTTTTTTGGC
* * ** * * *
1824023 TTTGT-TCAAGCCATTTGGTTGAGTCTTATTTTTGCCCAAGTCATTTGTTTAGG-TTTTTGGC
1 TTTATCT-AGGCCATTTCATTAAGTCTTAGTTTTGCCCAAGTCA-TTATTTAGGTTTTTTGGC
* * *** *
1824084 TTTATCTAGGCCATTTCATTGAGCCTTAGTTTCATCCAAGTCATT-TTAAGGTTT
1 TTTATCTAGGCCATTTCATTAAGTCTTAGTTTTGCCCAAGTCATTATTTAGGTTT
1824138 CTGATTTAGT
Statistics
Matches: 90, Mismatches: 21, Indels: 9
0.75 0.17 0.08
Matches are distributed among these distances:
59 5 0.06
60 4 0.04
61 72 0.80
62 9 0.10
ACGTcount: A:0.18, C:0.16, G:0.18, T:0.48
Consensus pattern (61 bp):
TTTATCTAGGCCATTTCATTAAGTCTTAGTTTTGCCCAAGTCATTATTTAGGTTTTTTGGC
Found at i:1825455 original size:46 final size:46
Alignment explanation
Indices: 1825385--1825477 Score: 141
Period size: 46 Copynumber: 2.0 Consensus size: 46
1825375 TCTAGGTCAA
* *
1825385 TCCTTTCTCATCTGTTAACATGTATGGTTTCATCTTGGTTAACCTT
1 TCCTTTCCCATCTGTTAACATGTATGGTTTCATCTTGGTCAACCTT
* * *
1825431 TCCTTTCCCATGTGTTGACTTGTATGGTTTCATCTTGGTCAACCTT
1 TCCTTTCCCATCTGTTAACATGTATGGTTTCATCTTGGTCAACCTT
1825477 T
1 T
1825478 TTCATTCGTT
Statistics
Matches: 42, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
46 42 1.00
ACGTcount: A:0.15, C:0.23, G:0.15, T:0.47
Consensus pattern (46 bp):
TCCTTTCCCATCTGTTAACATGTATGGTTTCATCTTGGTCAACCTT
Found at i:1825489 original size:41 final size:41
Alignment explanation
Indices: 1825176--1825831 Score: 303
Period size: 41 Copynumber: 15.9 Consensus size: 41
1825166 ACACTCTTCT
* * *
1825176 ATCAACCCTTCTCATAT-GTTGACTTGTATGGTTTCATCCCA
1 ATCAACCTTTCTCAT-TCGTTGACTTGTATGGTTTCATCTCG
* * *
1825217 ATCAACCTTTCTCATTCGTTAACTTATATGGTTTCATCT-T
1 ATCAACCTTTCTCATTCGTTGACTTGTATGGTTTCATCTCG
** ** ** * * **
1825257 AAAAAGATATTCTCATTCGTAAACTAGTATAGTTTTGTCTCG
1 ATCAACCT-TTCTCATTCGTTGACTTGTATGGTTTCATCTCG
* * * * **
1825299 GTCAATCTCTCTCATTCGTTGAATCATATGGTTTCATCTCG
1 ATCAACCTTTCTCATTCGTTGACTTGTATGGTTTCATCTCG
* * * ** *
1825340 ATCAA-CTTTTTAATTCGTTGACTCGTAAAGTTTCATCTAG
1 ATCAACCTTTCTCATTCGTTGACTTGTATGGTTTCATCTCG
* * * *
1825380 GTCAATCCTTTCTCA-TCTGTTAACATGTATGGTTTCATCTTG
1 ATCAA-CCTTTCTCATTC-GTTGACTTGTATGGTTTCATCTCG
* * *
1825422 GTTAACCTTTCCTTTCCCATGT-GTTGACTTGTATGGTTTCATCTTG
1 ATCAACCTTT-C--T--CAT-TCGTTGACTTGTATGGTTTCATCTCG
* * * * * *
1825468 GTCAACCTTTTTCATTCGTTGATTTGAATGGTTTCA-CCCT
1 ATCAACCTTTCTCATTCGTTGACTTGTATGGTTTCATCTCG
* * * * *
1825508 AGTTAACCTGTCTCATGT-GTTGATTTGTATGGTTTCGTC-CC
1 A-TCAACCTTTCTCAT-TCGTTGACTTGTATGGTTTCATCTCG
* * * *
1825549 ATTCAACATTTTTTATTCGTTGACTTGTATGGTTTCATCCCG
1 A-TCAACCTTTCTCATTCGTTGACTTGTATGGTTTCATCTCG
* * * * ** ** *
1825591 ATTAACATCTCTTATTCGTTGGTTTGTATGGTTTTGTCTCA
1 ATCAACCTTTCTCATTCGTTGACTTGTATGGTTTCATCTCG
* ** * *
1825632 ATCAACCTCTT-TCATTCATTGACTCATATGGTTTCGTCTTG
1 ATCAACCT-TTCTCATTCGTTGACTTGTATGGTTTCATCTCG
* ** * * * *
1825673 -TCATCCTTTCTCATTTATCT-ACTCGTTTAGTTTCATC-CTA
1 ATCAACCTTTCTCATTCGT-TGACTTGTATGGTTTCATCTC-G
* * ** *
1825713 ATCAACCCTTTCTCATTTGTTGATTTGTATGGTTTTGTCTTG
1 ATCAA-CCTTTCTCATTCGTTGACTTGTATGGTTTCATCTCG
* ** * * *
1825755 GTTGACCTTTC-CATTTCATTGACTTGTATGGTTTCATCCCA
1 ATCAACCTTTCTCA-TTCGTTGACTTGTATGGTTTCATCTCG
* *
1825796 ATCAACCTTTCTCATTCATTGACTTCTATGGTTTCA
1 ATCAACCTTTCTCATTCGTTGACTTGTATGGTTTCA
1825832 ACCTACTCAA
Statistics
Matches: 458, Mismatches: 128, Indels: 58
0.71 0.20 0.09
Matches are distributed among these distances:
39 2 0.00
40 67 0.15
41 288 0.63
42 65 0.14
43 1 0.00
44 1 0.00
46 33 0.07
48 1 0.00
ACGTcount: A:0.20, C:0.21, G:0.14, T:0.45
Consensus pattern (41 bp):
ATCAACCTTTCTCATTCGTTGACTTGTATGGTTTCATCTCG
Found at i:1825860 original size:41 final size:41
Alignment explanation
Indices: 1825759--1825861 Score: 116
Period size: 41 Copynumber: 2.5 Consensus size: 41
1825749 GTCTTGGTTG
* * *
1825759 ACCTTTCCATTTCATTGACTTGTATGGTTTCATCCCAATCA
1 ACCTTTCCCTTTCATTGACTTCTATGGTTTCAACCCAATCA
* * * *
1825800 ACCTTTCTCATTCATTGACTTCTATGGTTTCAACCTACTCA
1 ACCTTTCCCTTTCATTGACTTCTATGGTTTCAACCCAATCA
** *
1825841 AGTTTTCCCTTTCAGTGACTT
1 ACCTTTCCCTTTCATTGACTT
1825862 ATGTTGTTTT
Statistics
Matches: 50, Mismatches: 12, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
41 50 1.00
ACGTcount: A:0.20, C:0.27, G:0.10, T:0.43
Consensus pattern (41 bp):
ACCTTTCCCTTTCATTGACTTCTATGGTTTCAACCCAATCA
Found at i:1828797 original size:165 final size:164
Alignment explanation
Indices: 1828488--1828806 Score: 369
Period size: 165 Copynumber: 1.9 Consensus size: 164
1828478 AAAGTAGTAG
* * *
1828488 GGACTAATTTGTAATTTTTGCAAAACTAGTTGCATGGTGTATTAACTTTTGCCGAATACTCCTAA
1 GGACTAATTTGTAATTTTTGCAAAACTAGTTGAATGGTGTATTAACTTTGGCCGAAAACTCCTAA
* * * **** * ** * *
1828553 GCTAATTTTGAGACATTTTTGTGTGTTTTAGATGCATTTTGGTGCATTTTCAAACACTTTGGATA
66 GCTAATTTTAAAACATATTCACATGCTTTAGATGCATTTTAATGCATATTCAAACACTTTAGATA
*
1828618 GTATATGGTCTTTTTGTAATTTTAGAAACTTTAA
131 GTATATGATCTTTTTGTAATTTTAGAAACTTTAA
* *
1828652 GGACTAATTTGTAATTTTTGCAAAATTTA-TTGAATGGTGTATTTAGCTTTGGCC-AAAAGCTCC
1 GGACTAATTTGTAATTTTTGCAAAA-CTAGTTGAATGGTGTA-TTAACTTTGGCCGAAAA-CTCC
*
1828715 -AAGGCTAATTTTAAAACATATTCACATGCTTTAGATGCATTTTAATGCATATTCAAGCACTTTA
63 TAA-GCTAATTTTAAAACATATTCACATGCTTTAGATGCATTTTAATGCATATTCAAACACTTTA
*
1828779 GATTGT-TCGA-GATCTTTTTGTAATTTTA
127 GATAGTAT--ATGATCTTTTTGTAATTTTA
1828807 AAAAGTTAAA
Statistics
Matches: 129, Mismatches: 20, Indels: 11
0.81 0.12 0.07
Matches are distributed among these distances:
164 42 0.33
165 86 0.67
166 1 0.01
ACGTcount: A:0.29, C:0.12, G:0.17, T:0.43
Consensus pattern (164 bp):
GGACTAATTTGTAATTTTTGCAAAACTAGTTGAATGGTGTATTAACTTTGGCCGAAAACTCCTAA
GCTAATTTTAAAACATATTCACATGCTTTAGATGCATTTTAATGCATATTCAAACACTTTAGATA
GTATATGATCTTTTTGTAATTTTAGAAACTTTAA
Found at i:1829608 original size:19 final size:19
Alignment explanation
Indices: 1829592--1829630 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
1829582 TTGGATACTT
*
1829592 TCATGTGAAAAGTATACCC
1 TCATATGAAAAGTATACCC
*
1829611 TCATATGAACAGTATACCC
1 TCATATGAAAAGTATACCC
1829630 T
1 T
1829631 TAGGCATTTT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.36, C:0.23, G:0.13, T:0.28
Consensus pattern (19 bp):
TCATATGAAAAGTATACCC
Found at i:1830873 original size:7 final size:7
Alignment explanation
Indices: 1830861--1830897 Score: 56
Period size: 7 Copynumber: 5.3 Consensus size: 7
1830851 TTGAAAAAGA
1830861 AAGAATG
1 AAGAATG
1830868 AAGAATG
1 AAGAATG
*
1830875 AAGACTG
1 AAGAATG
1830882 AAGAATG
1 AAGAATG
*
1830889 AATAATG
1 AAGAATG
1830896 AA
1 AA
1830898 ACATGTAAAA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
7 27 1.00
ACGTcount: A:0.57, C:0.03, G:0.24, T:0.16
Consensus pattern (7 bp):
AAGAATG
Found at i:1831440 original size:32 final size:32
Alignment explanation
Indices: 1831404--1831471 Score: 91
Period size: 32 Copynumber: 2.1 Consensus size: 32
1831394 AATTTAAATA
* *
1831404 AAAATACCATATGTTAACATATGATATAAGTT
1 AAAATACCATAAGTCAACATATGATATAAGTT
***
1831436 AAAATTTGATAAGTCAACATATGATATAAGTT
1 AAAATACCATAAGTCAACATATGATATAAGTT
1831468 AAAA
1 AAAA
1831472 ATAAAAACAA
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
32 31 1.00
ACGTcount: A:0.50, C:0.07, G:0.10, T:0.32
Consensus pattern (32 bp):
AAAATACCATAAGTCAACATATGATATAAGTT
Found at i:1831445 original size:17 final size:17
Alignment explanation
Indices: 1831416--1831471 Score: 62
Period size: 17 Copynumber: 3.4 Consensus size: 17
1831406 AATACCATAT
*
1831416 GTTAACATATGATATAA
1 GTTAAAATATGATATAA
*
1831433 GTTAAAATTTG--ATAA
1 GTTAAAATATGATATAA
* *
1831448 GTCAACATATGATATAA
1 GTTAAAATATGATATAA
1831465 GTTAAAA
1 GTTAAAA
1831472 ATAAAAACAA
Statistics
Matches: 30, Mismatches: 7, Indels: 4
0.73 0.17 0.10
Matches are distributed among these distances:
15 12 0.40
17 18 0.60
ACGTcount: A:0.48, C:0.05, G:0.12, T:0.34
Consensus pattern (17 bp):
GTTAAAATATGATATAA
Found at i:1832355 original size:10 final size:10
Alignment explanation
Indices: 1832340--1832380 Score: 55
Period size: 10 Copynumber: 3.9 Consensus size: 10
1832330 AATTTGGATT
1832340 AAAAATTTTA
1 AAAAATTTTA
1832350 AAAAATTTTA
1 AAAAATTTTA
*
1832360 AAAGATTTTA
1 AAAAATTTTA
1832370 ATTAAAATTTT
1 A--AAAATTTT
1832381 TTATGTAAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
10 20 0.74
12 7 0.26
ACGTcount: A:0.54, C:0.00, G:0.02, T:0.44
Consensus pattern (10 bp):
AAAAATTTTA
Found at i:1838986 original size:20 final size:20
Alignment explanation
Indices: 1838961--1839014 Score: 90
Period size: 20 Copynumber: 2.7 Consensus size: 20
1838951 GTTGGGCTCA
1838961 ATGTATCGATACAATTCACC
1 ATGTATCGATACAATTCACC
*
1838981 ATGTATCGATACAATTCATC
1 ATGTATCGATACAATTCACC
*
1839001 ATGTATCAATACAA
1 ATGTATCGATACAA
1839015 AGTGAGTTTT
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 32 1.00
ACGTcount: A:0.39, C:0.20, G:0.09, T:0.31
Consensus pattern (20 bp):
ATGTATCGATACAATTCACC
Found at i:1839251 original size:20 final size:21
Alignment explanation
Indices: 1839226--1839269 Score: 72
Period size: 22 Copynumber: 2.1 Consensus size: 21
1839216 AATACTTTGA
1839226 ATTATTTTTA-CTTGAAAAAC
1 ATTATTTTTAGCTTGAAAAAC
1839246 ATTATTTTTATGCTTGAAAAAC
1 ATTATTTTTA-GCTTGAAAAAC
1839268 AT
1 AT
1839270 CTATACTTAA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
20 10 0.45
22 12 0.55
ACGTcount: A:0.39, C:0.09, G:0.07, T:0.45
Consensus pattern (21 bp):
ATTATTTTTAGCTTGAAAAAC
Found at i:1840014 original size:190 final size:190
Alignment explanation
Indices: 1839691--1840037 Score: 586
Period size: 190 Copynumber: 1.8 Consensus size: 190
1839681 TTATAACCCA
* * * * *
1839691 AAACATTTCTTTTATGAACTCTCTCCCTATTTGTAAACTTTTAGTAAATTCTCCCTTTTTTATTA
1 AAACATTTCTTTGATGAACTCTCCCCCTATTTGTAAACTTTTAGTAAATTCTCCATTTTGTATAA
*
1839756 TAAAGAAATTTTATACCAATTTTCTTCAATTTTTCTATTTCTTCCTTTATAACAAATAATCAATT
66 TAAAGAAATTTTATACCAATTTTCTTCAATTTTTCAATTTCTTCCTTTATAACAAATAATCAATT
*
1839821 CTATTTCTCTACGAATTTTTTCCCTTTATGAAACATCTCTTTTCTCCCCCTTTCTATCCG
131 CTATTTCTCTACGAATTCTTTCCCTTTATGAAACATCTCTTTTCTCCCCCTTTCTATCCG
* *
1839881 AAACATTTCTTTGATGAACTCTCCCCCTATTTGTAAACTTTTAGTGAATTCTCCATTTTGTGTAA
1 AAACATTTCTTTGATGAACTCTCCCCCTATTTGTAAACTTTTAGTAAATTCTCCATTTTGTATAA
* * *
1839946 TAAAGAAATTTTGTACCAATTTTTTTCAATTTTTCAATTTCTTCCTTTATGACAAATAATCAATT
66 TAAAGAAATTTTATACCAATTTTCTTCAATTTTTCAATTTCTTCCTTTATAACAAATAATCAATT
1840011 CTATTTCTCTACGAATTCTTTCCCTTT
131 CTATTTCTCTACGAATTCTTTCCCTTT
1840038 CTATTAGGCC
Statistics
Matches: 145, Mismatches: 12, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
190 145 1.00
ACGTcount: A:0.27, C:0.21, G:0.05, T:0.47
Consensus pattern (190 bp):
AAACATTTCTTTGATGAACTCTCCCCCTATTTGTAAACTTTTAGTAAATTCTCCATTTTGTATAA
TAAAGAAATTTTATACCAATTTTCTTCAATTTTTCAATTTCTTCCTTTATAACAAATAATCAATT
CTATTTCTCTACGAATTCTTTCCCTTTATGAAACATCTCTTTTCTCCCCCTTTCTATCCG
Found at i:1840937 original size:25 final size:25
Alignment explanation
Indices: 1840908--1840960 Score: 106
Period size: 25 Copynumber: 2.1 Consensus size: 25
1840898 TTTCGATTAA
1840908 TGATGTATAATCGTGATAACAATGT
1 TGATGTATAATCGTGATAACAATGT
1840933 TGATGTATAATCGTGATAACAATGT
1 TGATGTATAATCGTGATAACAATGT
1840958 TGA
1 TGA
1840961 AACTTGATTG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 28 1.00
ACGTcount: A:0.36, C:0.08, G:0.21, T:0.36
Consensus pattern (25 bp):
TGATGTATAATCGTGATAACAATGT
Found at i:1841230 original size:79 final size:80
Alignment explanation
Indices: 1841127--1841301 Score: 255
Period size: 79 Copynumber: 2.2 Consensus size: 80
1841117 GAGATAATAA
* * * *
1841127 CGGGGTTGGAGTATCCCCTTGAAAATAACGGGGTTGGAGTATCCTCGGTTGTGAAAAATCGATG-
1 CGGGATTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCGATTGTGAAAAATCGATGT
1841191 ATTAGGAAATAAAAT
66 ATTAGGAAATAAAAT
*
1841206 CGGGATTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCGATTGTGAAAAATTGATGT
1 CGGGATTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCGATTGTGAAAAATCGATGT
* *
1841271 TTTTGGAAATAAAAT
66 ATTAGGAAATAAAAT
*
1841286 C-AGAGTTGGAGTATCC
1 CGGGA-TTGGAGTATCC
1841302 TCGATTGTGG
Statistics
Matches: 86, Mismatches: 8, Indels: 3
0.89 0.08 0.03
Matches are distributed among these distances:
79 61 0.71
80 25 0.29
ACGTcount: A:0.31, C:0.14, G:0.28, T:0.27
Consensus pattern (80 bp):
CGGGATTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCGATTGTGAAAAATCGATGT
ATTAGGAAATAAAAT
Found at i:1841352 original size:51 final size:51
Alignment explanation
Indices: 1841234--1841405 Score: 204
Period size: 51 Copynumber: 3.4 Consensus size: 51
1841224 TCGAAAATAA
* * *
1841234 CGGGGTTGGAGTATCCCCGATTGTGAAAAATT-GATGTTTTTGGAAATAAAAT
1 CGGGGTTGGAGTATCCCCGATTGTGGAAAATTAG-TG-TTTTAGAAATAAAAC
* * *
1841286 CAGAGTTGGAGTATCCTCGATTGTGGAAAATTAGTGTTTTAGAAATAAAAC
1 CGGGGTTGGAGTATCCCCGATTGTGGAAAATTAGTGTTTTAGAAATAAAAC
* * * * *
1841337 CGGGGTTGGAGTATCCCCGATT-TTGATAAATCAATATTTTAGAAATAAAGC
1 CGGGGTTGGAGTATCCCCGATTGTGGA-AAATTAGTGTTTTAGAAATAAAAC
1841388 CGGGGTTGGAGTATCCCC
1 CGGGGTTGGAGTATCCCC
1841406 TCGGAGGTAA
Statistics
Matches: 104, Mismatches: 14, Indels: 5
0.85 0.11 0.04
Matches are distributed among these distances:
50 3 0.03
51 70 0.67
52 30 0.29
53 1 0.01
ACGTcount: A:0.31, C:0.13, G:0.26, T:0.31
Consensus pattern (51 bp):
CGGGGTTGGAGTATCCCCGATTGTGGAAAATTAGTGTTTTAGAAATAAAAC
Found at i:1843894 original size:13 final size:13
Alignment explanation
Indices: 1843876--1843901 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1843866 ACAAAGATCG
1843876 ATGTATCGATACA
1 ATGTATCGATACA
1843889 ATGTATCGATACA
1 ATGTATCGATACA
1843902 TTTCCTTAAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:1843912 original size:21 final size:21
Alignment explanation
Indices: 1843888--1843929 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
1843878 GTATCGATAC
1843888 AATGTATCGATACATTTCCTT
1 AATGTATCGATACATTTCCTT
1843909 AATGTATCGATACATTTCCTT
1 AATGTATCGATACATTTCCTT
1843930 GGCAGTAGCT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.29, C:0.19, G:0.10, T:0.43
Consensus pattern (21 bp):
AATGTATCGATACATTTCCTT
Found at i:1843979 original size:19 final size:19
Alignment explanation
Indices: 1843955--1844003 Score: 89
Period size: 19 Copynumber: 2.6 Consensus size: 19
1843945 GCGATACATC
1843955 GTATCGATACAAAACTTAT
1 GTATCGATACAAAACTTAT
*
1843974 GTATCGATACAACACTTAT
1 GTATCGATACAAAACTTAT
1843993 GTATCGATACA
1 GTATCGATACA
1844004 TTTTCTATTT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
19 29 1.00
ACGTcount: A:0.39, C:0.18, G:0.12, T:0.31
Consensus pattern (19 bp):
GTATCGATACAAAACTTAT
Found at i:1844097 original size:76 final size:76
Alignment explanation
Indices: 1844003--1844155 Score: 270
Period size: 76 Copynumber: 2.0 Consensus size: 76
1843993 GTATCGATAC
* *
1844003 ATTTTCTATTTGTATCGATACAAACTGTTTGAAGTTCAAAATTTTTGACCGTTGGGACCTTGTAT
1 ATTTTCTATTTATATCGATAAAAACTGTTTGAAGTTCAAAATTTTTGACCGTTGGGACCTTGTAT
1844068 CGATACATTCT
66 CGATACATTCT
*
1844079 ATTTTCTGTTTATATCGATAAAAACTGTTTGAAGTTCAAAATTTTTGACCGTTGGGACCTTGTAT
1 ATTTTCTATTTATATCGATAAAAACTGTTTGAAGTTCAAAATTTTTGACCGTTGGGACCTTGTAT
*
1844144 CGATATATTCT
66 CGATACATTCT
1844155 A
1 A
1844156 CAAATGTATC
Statistics
Matches: 73, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
76 73 1.00
ACGTcount: A:0.27, C:0.14, G:0.16, T:0.42
Consensus pattern (76 bp):
ATTTTCTATTTATATCGATAAAAACTGTTTGAAGTTCAAAATTTTTGACCGTTGGGACCTTGTAT
CGATACATTCT
Found at i:1844165 original size:21 final size:21
Alignment explanation
Indices: 1844139--1844194 Score: 103
Period size: 21 Copynumber: 2.7 Consensus size: 21
1844129 GTTGGGACCT
*
1844139 TGTATCGATATATTCTACAAA
1 TGTATCGATACATTCTACAAA
1844160 TGTATCGATACATTCTACAAA
1 TGTATCGATACATTCTACAAA
1844181 TGTATCGATACATT
1 TGTATCGATACATT
1844195 TGGATAAAAA
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 34 1.00
ACGTcount: A:0.36, C:0.16, G:0.11, T:0.38
Consensus pattern (21 bp):
TGTATCGATACATTCTACAAA
Found at i:1846801 original size:21 final size:22
Alignment explanation
Indices: 1846759--1846816 Score: 57
Period size: 21 Copynumber: 2.7 Consensus size: 22
1846749 TTCTTCTTGC
* *
1846759 AACTCATTTCTTTTC-CTTTCT
1 AACTCATTTATTTTCTCTCTCT
1846780 AACTCATTTATTTTCTC-CTCT
1 AACTCATTTATTTTCTCTCTCT
** *
1846801 AGTTCATTTAATTTCT
1 AACTCATTTATTTTCT
1846817 TTTCAAAAAG
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
21 30 0.97
22 1 0.03
ACGTcount: A:0.19, C:0.24, G:0.02, T:0.55
Consensus pattern (22 bp):
AACTCATTTATTTTCTCTCTCT
Found at i:1848394 original size:30 final size:31
Alignment explanation
Indices: 1848360--1848422 Score: 85
Period size: 31 Copynumber: 2.1 Consensus size: 31
1848350 CCTTATAACA
*
1848360 CTATC-TTTCA-AGGCTAAGATAGAAACTTCT
1 CTATCTTTTCATAGGCTAAGATA-AAACCTCT
*
1848390 CTATCTTTTCATGGGCTAAGATAAAACCTCT
1 CTATCTTTTCATAGGCTAAGATAAAACCTCT
1848421 CT
1 CT
1848423 TTTTATCTTT
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
30 5 0.17
31 14 0.48
32 10 0.34
ACGTcount: A:0.30, C:0.22, G:0.13, T:0.35
Consensus pattern (31 bp):
CTATCTTTTCATAGGCTAAGATAAAACCTCT
Found at i:1848867 original size:32 final size:35
Alignment explanation
Indices: 1848822--1848914 Score: 108
Period size: 36 Copynumber: 2.8 Consensus size: 35
1848812 TAACACTATC
1848822 TTTC-AAGGCTAAGATAGAAACCTC-CC-TATC-T
1 TTTCAAAGGCTAAGATAGAAACCTCTCCTTATCTT
**
1848853 TTTCATGGGCTAAGATA-AAACCTTTCTCCTTATCTT
1 TTTCAAAGGCTAAGATAGAAACC--TCTCCTTATCTT
1848889 TTTCAAAGGCTAAGATAG-AACCTCTC
1 TTTCAAAGGCTAAGATAGAAACCTCTC
1848915 AATCACTTAG
Statistics
Matches: 51, Mismatches: 4, Indels: 11
0.77 0.06 0.17
Matches are distributed among these distances:
31 9 0.18
32 10 0.20
33 2 0.04
34 6 0.12
35 4 0.08
36 20 0.39
ACGTcount: A:0.30, C:0.24, G:0.13, T:0.33
Consensus pattern (35 bp):
TTTCAAAGGCTAAGATAGAAACCTCTCCTTATCTT
Found at i:1849229 original size:458 final size:457
Alignment explanation
Indices: 1848355--1849254 Score: 1577
Period size: 458 Copynumber: 2.0 Consensus size: 457
1848345 TATAACCTTA
* *
1848355 TAACACTATCTTTCAAGGCTAAGATAGAAACTTCTCTATCTTTTCATGGGCTAAGATAAAACCTC
1 TAACACTATCTTTCAAGGCTAAGATAGAAACCTCCCTATCTTTTCATGGGCTAAGATAAAACCTC
** *
1848420 TCTTTTTATCTTTTTCAAAGGCTAAGAAAGAACCTTTCAATCACTTAGAGAATTATACCCCAAAT
66 TCTCCTTATCTTTTTCAAAGGCTAAGAAAGAACCTCTCAATCACTTAGAGAATTATACCCCAAAT
*
1848485 TCTCAAGTGATTACAAACAAGGTTGAATACAACCTTACACAATGAAACAAAGAATTACAAACTCA
131 TCTCAAGTGATTACAAACAAGCTTGAATACAACCTTACACAATGAAACAAAGAATTACAAACTCA
*
1848550 ATAGACCTCTATAGACTGGTGTTTATGGACGTTTAAGTACAATGAATGAATGAAAAAGCTTTGAT
196 ATAAACCTCTATAGACTGGTGTTTATGGACGTTTAAGTACAATGAATGAATGAAAAAGCTTTGAT
1848615 AGAAAAACAACAATAGAAAACTTAATTCTAAGCTCATGATTTTGTATATAGATGAATAAGCTTGA
261 AGAAAAACAACAATAGAAAACTTAATTCTAAGCTCATGATTTTGTATATAGATGAATAAGCTTGA
*
1848680 TTTTGCACTTCTTGTTATTGATTTCTTGCTTGGAATGCTATATTTATAGGCTTGATCAAGGATGT
326 TTTTGCACTTCTTGTTATTGATTTCTTGCTTGGAATGCTATATTCATAGGCTTGATCAAGGATGT
* *
1848745 ATCCGTTAGAGACATTATGATTGTGTTGTATGGCATATTTGACTTGTTGGGACCTTATTTCCTTA
391 ATCCATTAGAGACATTATGATTGTGTTGTATGACATATTTGACTTGTTGGGACCTTATTTCCTTA
1848810 GT
456 GT
*
1848812 TAACACTATCTTTCAAGGCTAAGATAGAAACCTCCCTATCTTTTCATGGGCTAAGATAAAACCTT
1 TAACACTATCTTTCAAGGCTAAGATAGAAACCTCCCTATCTTTTCATGGGCTAAGATAAAACCTC
*
1848877 TCTCCTTATCTTTTTCAAAGGCTAAGATAGAACCTCTCAATCACTTAGAGAATTATACCCCAAAT
66 TCTCCTTATCTTTTTCAAAGGCTAAGAAAGAACCTCTCAATCACTTAGAGAATTATACCCCAAAT
* *
1848942 TCTCAAGTGATTGCAAACAAGCTTGAATACAACCTTACACAATGAAACAAAGAATTACAAATTCA
131 TCTCAAGTGATTACAAACAAGCTTGAATACAACCTTACACAATGAAACAAAGAATTACAAACTCA
* * *
1849007 ATAAACCTCTATAAGGCTGGTGTTTGTGGACGTTTAAGTACAATGAATGAATGAAAGAGCTTTGA
196 ATAAACCTCTAT-AGACTGGTGTTTATGGACGTTTAAGTACAATGAATGAATGAAAAAGCTTTGA
* * *
1849072 TAGAAAAATAATAATAGAAAACTTAATTCTAAGCTCTTGGA-TTTGTATATAGATGAATAAGCTT
260 TAGAAAAACAACAATAGAAAACTTAATTCTAAGCTCAT-GATTTTGTATATAGATGAATAAGCTT
*
1849136 GATTTTGCACTTCTTGTTATTGATTTCTTGCTTGGAATGCTGTATTCATAGGCTTGATCAAGGAT
324 GATTTTGCACTTCTTGTTATTGATTTCTTGCTTGGAATGCTATATTCATAGGCTTGATCAAGGAT
*
1849201 GTATCCATTGGAGACATTATGATTGTGTTGTATGACATATTTGACTTGTTGGGA
389 GTATCCATTAGAGACATTATGATTGTGTTGTATGACATATTTGACTTGTTGGGA
1849255 AGTTGTTTCT
Statistics
Matches: 419, Mismatches: 22, Indels: 3
0.94 0.05 0.01
Matches are distributed among these distances:
457 196 0.47
458 221 0.53
459 2 0.00
ACGTcount: A:0.34, C:0.16, G:0.16, T:0.34
Consensus pattern (457 bp):
TAACACTATCTTTCAAGGCTAAGATAGAAACCTCCCTATCTTTTCATGGGCTAAGATAAAACCTC
TCTCCTTATCTTTTTCAAAGGCTAAGAAAGAACCTCTCAATCACTTAGAGAATTATACCCCAAAT
TCTCAAGTGATTACAAACAAGCTTGAATACAACCTTACACAATGAAACAAAGAATTACAAACTCA
ATAAACCTCTATAGACTGGTGTTTATGGACGTTTAAGTACAATGAATGAATGAAAAAGCTTTGAT
AGAAAAACAACAATAGAAAACTTAATTCTAAGCTCATGATTTTGTATATAGATGAATAAGCTTGA
TTTTGCACTTCTTGTTATTGATTTCTTGCTTGGAATGCTATATTCATAGGCTTGATCAAGGATGT
ATCCATTAGAGACATTATGATTGTGTTGTATGACATATTTGACTTGTTGGGACCTTATTTCCTTA
GT
Found at i:1849395 original size:20 final size:20
Alignment explanation
Indices: 1849347--1849397 Score: 84
Period size: 20 Copynumber: 2.5 Consensus size: 20
1849337 AGGCCCAATA
*
1849347 TATCGATAAAATTCACCATG
1 TATCGATACAATTCACCATG
*
1849367 TATCGATACAATTCATCATG
1 TATCGATACAATTCACCATG
1849387 TATCGATACAA
1 TATCGATACAA
1849398 AGTGAGTTTT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.39, C:0.20, G:0.10, T:0.31
Consensus pattern (20 bp):
TATCGATACAATTCACCATG
Found at i:1853935 original size:2 final size:2
Alignment explanation
Indices: 1853924--1853962 Score: 69
Period size: 2 Copynumber: 19.5 Consensus size: 2
1853914 ATATATCTTA
*
1853924 AT AT AC AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1853963 ATAACTAATT
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.51, C:0.03, G:0.00, T:0.46
Consensus pattern (2 bp):
AT
Found at i:1855848 original size:16 final size:17
Alignment explanation
Indices: 1855829--1855902 Score: 57
Period size: 16 Copynumber: 4.4 Consensus size: 17
1855819 ATTAATAATT
1855829 TATTTTATTTTTTA-TA
1 TATTTTATTTTTTACTA
*
1855845 TATTTT-TATATTTACGTA
1 TATTTTAT-TTTTTAC-TA
*
1855863 TA-TTTATTTTATA-TA
1 TATTTTATTTTTTACTA
* *
1855878 TATATTATTTTTATATTA
1 TATTTTATTTTT-TACTA
1855896 TATTTTA
1 TATTTTA
1855903 AATATTTTTT
Statistics
Matches: 45, Mismatches: 6, Indels: 12
0.71 0.10 0.19
Matches are distributed among these distances:
15 5 0.11
16 18 0.40
17 9 0.20
18 13 0.29
ACGTcount: A:0.30, C:0.01, G:0.01, T:0.68
Consensus pattern (17 bp):
TATTTTATTTTTTACTA
Found at i:1855909 original size:38 final size:39
Alignment explanation
Indices: 1855867--1855947 Score: 110
Period size: 38 Copynumber: 2.1 Consensus size: 39
1855857 TACGTATATT
* * *
1855867 TATTTTATATATATATTATTTTTATATTATATTTTA-AA
1 TATTTTATATAAATATCATATTTATATTATATTTTATAA
* *
1855905 TATTTTTTATAAATATCATATTTATATTATTTTTTATAA
1 TATTTTATATAAATATCATATTTATATTATATTTTATAA
1855944 TATT
1 TATT
1855948 AAAGTAAAAT
Statistics
Matches: 37, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
38 31 0.84
39 6 0.16
ACGTcount: A:0.36, C:0.01, G:0.00, T:0.63
Consensus pattern (39 bp):
TATTTTATATAAATATCATATTTATATTATATTTTATAA
Found at i:1855920 original size:27 final size:26
Alignment explanation
Indices: 1855874--1855948 Score: 75
Period size: 27 Copynumber: 2.8 Consensus size: 26
1855864 ATTTATTTTA
1855874 TATATATATTATTTT-T-ATATTATATT
1 TATA-ATATT-TTTTATAATATTATATT
*
1855900 T-TAAATATTTTTTATAAATATCATATT
1 TAT-AATATTTTTTAT-AATATTATATT
*
1855927 TATATTATTTTTTATAATATTA
1 TATAATATTTTTTATAATATTA
1855949 AAGTAAAATA
Statistics
Matches: 41, Mismatches: 3, Indels: 10
0.76 0.06 0.19
Matches are distributed among these distances:
24 4 0.10
25 7 0.17
26 8 0.20
27 21 0.51
28 1 0.02
ACGTcount: A:0.37, C:0.01, G:0.00, T:0.61
Consensus pattern (26 bp):
TATAATATTTTTTATAATATTATATT
Found at i:1856215 original size:25 final size:25
Alignment explanation
Indices: 1856156--1856216 Score: 68
Period size: 25 Copynumber: 2.4 Consensus size: 25
1856146 TTTTTTCAAC
*
1856156 GAGAGAAAAAGATAGAAAGAAAAAA
1 GAGAGAAAAAGAAAGAAAGAAAAAA
* * * *
1856181 AAGAAAAAAAAAAAGAAAGAAAACTA
1 GAGAGAAAAAGAAAGAAAGAAAA-AA
1856207 GAGAGAAAAA
1 GAGAGAAAAA
1856217 TAATAGGAAA
Statistics
Matches: 28, Mismatches: 7, Indels: 1
0.78 0.19 0.03
Matches are distributed among these distances:
25 19 0.68
26 9 0.32
ACGTcount: A:0.75, C:0.02, G:0.20, T:0.03
Consensus pattern (25 bp):
GAGAGAAAAAGAAAGAAAGAAAAAA
Found at i:1856367 original size:11 final size:12
Alignment explanation
Indices: 1856336--1856385 Score: 66
Period size: 12 Copynumber: 4.2 Consensus size: 12
1856326 CGTGTCATAT
1856336 TTATTTTTTATA
1 TTATTTTTTATA
*
1856348 TTATGTTTTA-A
1 TTATTTTTTATA
1856359 TTATTTTTTATA
1 TTATTTTTTATA
*
1856371 TCATATTTTTATA
1 TTAT-TTTTTATA
1856384 TT
1 TT
1856386 TCGTATATTT
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
11 10 0.31
12 13 0.41
13 9 0.28
ACGTcount: A:0.26, C:0.02, G:0.02, T:0.70
Consensus pattern (12 bp):
TTATTTTTTATA
Found at i:1856379 original size:23 final size:23
Alignment explanation
Indices: 1856336--1856379 Score: 70
Period size: 23 Copynumber: 1.9 Consensus size: 23
1856326 CGTGTCATAT
* *
1856336 TTATTTTTTATATTATGTTTTAA
1 TTATTTTTTATATCATATTTTAA
1856359 TTATTTTTTATATCATATTTT
1 TTATTTTTTATATCATATTTT
1856380 TATATTTCGT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.25, C:0.02, G:0.02, T:0.70
Consensus pattern (23 bp):
TTATTTTTTATATCATATTTTAA
Found at i:1856615 original size:16 final size:17
Alignment explanation
Indices: 1856591--1856623 Score: 59
Period size: 16 Copynumber: 2.0 Consensus size: 17
1856581 ATTTTTCTTA
1856591 AAAATAATTAAAAATAT
1 AAAATAATTAAAAATAT
1856608 AAAA-AATTAAAAATAT
1 AAAATAATTAAAAATAT
1856624 CATTAATTAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 12 0.75
17 4 0.25
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (17 bp):
AAAATAATTAAAAATAT
Found at i:1856761 original size:15 final size:15
Alignment explanation
Indices: 1856725--1856753 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
1856715 AAAATTTAAA
1856725 AATAAAATATTATTT
1 AATAAAATATTATTT
1856740 AATAAAAT-TTATTT
1 AATAAAATATTATTT
1856754 TGATAAAAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 6 0.43
15 8 0.57
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (15 bp):
AATAAAATATTATTT
Found at i:1857343 original size:16 final size:15
Alignment explanation
Indices: 1857303--1857340 Score: 51
Period size: 15 Copynumber: 2.6 Consensus size: 15
1857293 TATTTTAAAA
1857303 TAAAA-TTTATTAAT
1 TAAAATTTTATTAAT
* *
1857317 TATAATTTTATTTAT
1 TAAAATTTTATTAAT
1857332 TAAAATTTT
1 TAAAATTTT
1857341 TATAAATATT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
14 4 0.20
15 16 0.80
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (15 bp):
TAAAATTTTATTAAT
Found at i:1865301 original size:2 final size:2
Alignment explanation
Indices: 1865290--1865327 Score: 69
Period size: 2 Copynumber: 19.5 Consensus size: 2
1865280 TATTTTCCAT
1865290 TA TA -A TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1865328 GAATACACTA
Statistics
Matches: 35, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.03
2 34 0.97
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:1865602 original size:14 final size:14
Alignment explanation
Indices: 1865566--1865606 Score: 55
Period size: 14 Copynumber: 2.9 Consensus size: 14
1865556 TTGTTAATTA
*
1865566 TTAATTATTATTAT
1 TTAATTATTTTTAT
*
1865580 TTTATTATTTTTAT
1 TTAATTATTTTTAT
*
1865594 TTAAATATTTTTA
1 TTAATTATTTTTA
1865607 ATAATGAGAA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 23 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (14 bp):
TTAATTATTTTTAT
Found at i:1868592 original size:79 final size:78
Alignment explanation
Indices: 1868459--1868835 Score: 410
Period size: 79 Copynumber: 4.8 Consensus size: 78
1868449 ACAACGGGGC
* * *
1868459 TGGAGTATCCC-CGATTATGAAAAATCGGTGTTTTGGAAGTAAAATCGGGGTTGGAGTATCCCCT
1 TGGAGTATCCCTCGATTATG-AAAATTGGTATTTT-GAAATAAAATCGGGGTTGGAGTATCCCCT
1868523 CAGAAATAACAGGGT
64 CAGAAATAACAGGGT
* *
1868538 TGGAGTATCCCTC-ATTATAGAAAATTGGTATTTTGAAACTAAAATCGGGATTGGAGTATCTCCT
1 TGGAGTATCCCTCGATTAT-GAAAATTGGTATTTTGAAA-TAAAATCGGGGTTGGAGTATCCCCT
1868602 CAGAAATAACAGGGT
64 CAGAAATAACAGGGT
*
1868617 TGGAGTATCCCT-GATTATAGAAAATTGGTGTTTTGAAAATAAAATCGGGGTTGGAGTATCCCCT
1 TGGAGTATCCCTCGATTAT-GAAAATTGGTATTTTG-AAATAAAATCGGGGTTGGAGTATCCCCT
*
1868681 C-GAAAATAACGGGGT
64 CAG-AAATAACAGGGT
* * * ***
1868696 TGGAGTAT-CCTCGATTGTGAAAAATCG-ATGCTTTAGAAATAAGGCCGGGGTTGGAGTATCCCC
1 TGGAGTATCCCTCGATTATGAAAATTGGTAT--TTT-GAAATAAAATCGGGGTTGGAGTATCCCC
* *
1868759 GTGA-AAATAACGGGGT
63 -TCAGAAATAACAGGGT
* * * *
1868775 TGGAGTATCCC-CAATTGTGAGAAATAGGTATTTTAGAAATAAAATCGGAGTTGGAGTATCC
1 TGGAGTATCCCTCGATTATGA-AAATTGGTATTTT-GAAATAAAATCGGGGTTGGAGTATCC
1868836 TCGATTGTGA
Statistics
Matches: 258, Mismatches: 25, Indels: 30
0.82 0.08 0.10
Matches are distributed among these distances:
77 1 0.00
78 14 0.05
79 228 0.88
80 13 0.05
81 2 0.01
ACGTcount: A:0.32, C:0.14, G:0.26, T:0.28
Consensus pattern (78 bp):
TGGAGTATCCCTCGATTATGAAAATTGGTATTTTGAAATAAAATCGGGGTTGGAGTATCCCCTCA
GAAATAACAGGGT
Found at i:1868843 original size:51 final size:51
Alignment explanation
Indices: 1868773--1868888 Score: 178
Period size: 51 Copynumber: 2.3 Consensus size: 51
1868763 AAATAACGGG
*
1868773 GTTGGAGTATCCCCAATTGTGAGAAATAGGTATTTTAGAAATAAAATCGGA
1 GTTGGAGTATCCCCAATTGTGAAAAATAGGTATTTTAGAAATAAAATCGGA
* * * *
1868824 GTTGGAGTATCCTCGATTGTGAAAAATTGGTATTTTAGAAATAAAATCGGG
1 GTTGGAGTATCCCCAATTGTGAAAAATAGGTATTTTAGAAATAAAATCGGA
*
1868875 GCTGGAGTATCCCC
1 GTTGGAGTATCCCC
1868889 TAAAAAATAA
Statistics
Matches: 58, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
51 58 1.00
ACGTcount: A:0.33, C:0.12, G:0.25, T:0.30
Consensus pattern (51 bp):
GTTGGAGTATCCCCAATTGTGAAAAATAGGTATTTTAGAAATAAAATCGGA
Found at i:1871897 original size:21 final size:21
Alignment explanation
Indices: 1871871--1871928 Score: 107
Period size: 21 Copynumber: 2.8 Consensus size: 21
1871861 AAATTATCCA
1871871 AATGTATCGATACATTTGTAG
1 AATGTATCGATACATTTGTAG
*
1871892 AATGTATCGATACATTTGTGG
1 AATGTATCGATACATTTGTAG
1871913 AATGTATCGATACATT
1 AATGTATCGATACATT
1871929 CTACAAATGT
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 36 1.00
ACGTcount: A:0.33, C:0.10, G:0.19, T:0.38
Consensus pattern (21 bp):
AATGTATCGATACATTTGTAG
Found at i:1871937 original size:21 final size:20
Alignment explanation
Indices: 1871869--1871947 Score: 77
Period size: 21 Copynumber: 3.8 Consensus size: 20
1871859 AAAAATTATC
*
1871869 CAAATGTATCGATACATTTG
1 CAAATGTATCGATACATTTA
* *
1871889 TAGAATGTATCGATACATTTGT
1 CA-AATGTATCGATACATTT-A
**
1871911 GGAATGTATCGATACATTCTA
1 CAAATGTATCGATACATT-TA
*
1871932 CAAATGTAACGATACA
1 CAAATGTATCGATACA
1871948 GGGTCCCAAC
Statistics
Matches: 48, Mismatches: 8, Indels: 5
0.79 0.13 0.08
Matches are distributed among these distances:
20 1 0.02
21 46 0.96
22 1 0.02
ACGTcount: A:0.37, C:0.14, G:0.16, T:0.33
Consensus pattern (20 bp):
CAAATGTATCGATACATTTA
Found at i:1872007 original size:19 final size:19
Alignment explanation
Indices: 1871983--1872050 Score: 76
Period size: 19 Copynumber: 3.9 Consensus size: 19
1871973 AATTCAACAA
1871983 TTTGTATCGATACATAAGT
1 TTTGTATCGATACATAAGT
1872002 TTTGTATCGATAC--AA--
1 TTTGTATCGATACATAAGT
*
1872017 --TGCATCGATACATAAGT
1 TTTGTATCGATACATAAGT
*
1872034 ATTGTATCGATACATAA
1 TTTGTATCGATACATAA
1872051 TTAGCTACTG
Statistics
Matches: 41, Mismatches: 2, Indels: 12
0.75 0.04 0.22
Matches are distributed among these distances:
13 10 0.24
15 2 0.05
17 2 0.05
19 27 0.66
ACGTcount: A:0.35, C:0.13, G:0.15, T:0.37
Consensus pattern (19 bp):
TTTGTATCGATACATAAGT
Found at i:1872108 original size:13 final size:13
Alignment explanation
Indices: 1872090--1872115 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1872080 CATTTTTCTG
1872090 TGTATCGATACAT
1 TGTATCGATACAT
1872103 TGTATCGATACAT
1 TGTATCGATACAT
1872116 GGATCTTTGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1872112 original size:33 final size:33
Alignment explanation
Indices: 1872070--1872136 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
1872060 GCCAAGGAAA
***
1872070 TGTATCGATACATTTTTCTGTGTATCGATACAT
1 TGTATCGATACATGGATCTGTGTATCGATACAT
*
1872103 TGTATCGATACATGGATCTTTGTATCGATACAT
1 TGTATCGATACATGGATCTGTGTATCGATACAT
1872136 T
1 T
1872137 TGGAAATTTT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.25, C:0.15, G:0.16, T:0.43
Consensus pattern (33 bp):
TGTATCGATACATGGATCTGTGTATCGATACAT
Found at i:1874616 original size:28 final size:26
Alignment explanation
Indices: 1874585--1874661 Score: 93
Period size: 28 Copynumber: 2.8 Consensus size: 26
1874575 TTTCTTCACA
1874585 ATCGGGGGATACTCCAACCCCGTTAATC
1 ATCGGGGGATACTCCAACCCCGTT-A-C
*
1874613 ATC-GGGGATACTCCAACCTCGTTAC
1 ATCGGGGGATACTCCAACCCCGTTAC
*
1874638 CTCCGAGGGGATACTCCAACCCCG
1 AT-CG-GGGGATACTCCAACCCCG
1874662 GCTTTATTTC
Statistics
Matches: 43, Mismatches: 3, Indels: 6
0.83 0.06 0.12
Matches are distributed among these distances:
25 2 0.05
26 2 0.05
27 19 0.44
28 20 0.47
ACGTcount: A:0.23, C:0.35, G:0.22, T:0.19
Consensus pattern (26 bp):
ATCGGGGGATACTCCAACCCCGTTAC
Found at i:1874619 original size:27 final size:28
Alignment explanation
Indices: 1874589--1874661 Score: 94
Period size: 27 Copynumber: 2.6 Consensus size: 28
1874579 TTCACAATCG
**
1874589 GGGGATACTCCAACCCCGTTA-ATCATC
1 GGGGATACTCCAACCCCGTTACATCAGA
* * *
1874616 GGGGATACTCCAACCTCGTTACCTCCGA
1 GGGGATACTCCAACCCCGTTACATCAGA
1874644 GGGGATACTCCAACCCCG
1 GGGGATACTCCAACCCCG
1874662 GCTTTATTTC
Statistics
Matches: 39, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
27 20 0.51
28 19 0.49
ACGTcount: A:0.23, C:0.36, G:0.22, T:0.19
Consensus pattern (28 bp):
GGGGATACTCCAACCCCGTTACATCAGA
Found at i:1874712 original size:51 final size:52
Alignment explanation
Indices: 1874644--1874865 Score: 245
Period size: 52 Copynumber: 4.3 Consensus size: 52
1874634 TTACCTCCGA
* * * * *
1874644 GGGGATACTCCAACCCCGGCTTTATTTCTAAAATATTGA-TTTCTCATAATC
1 GGGGATACTCCAACCCCGGTTTTATTTCTAAAACACTAATTTTCTCACAATC
* *
1874695 GGGGATACTCCAACCCCGGTTTTATTGCTAAAACACTAATTTTTTCACAATC
1 GGGGATACTCCAACCCCGGTTTTATTTCTAAAACACTAATTTTCTCACAATC
* **
1874747 GGGGATACTCCAACCCCGGTTTTATTT-TCAAAACACCAATTTTC-CTTTAATC
1 GGGGATACTCCAACCCCGGTTTTATTTCT-AAAACACTAATTTTCTC-ACAATC
* * * * *
1874799 GGGGGTACTCCAACTCCGATTTTATTTCCAAAAACACCAATTTT-TCACAATC
1 GGGGATACTCCAACCCCGGTTTTATTT-CTAAAACACTAATTTTCTCACAATC
*
1874851 GAGGATACTCCAACC
1 GGGGATACTCCAACC
1874866 TCGTTATTTC
Statistics
Matches: 144, Mismatches: 21, Indels: 11
0.82 0.12 0.06
Matches are distributed among these distances:
51 36 0.25
52 93 0.65
53 15 0.10
ACGTcount: A:0.29, C:0.26, G:0.13, T:0.32
Consensus pattern (52 bp):
GGGGATACTCCAACCCCGGTTTTATTTCTAAAACACTAATTTTCTCACAATC
Found at i:1874947 original size:263 final size:266
Alignment explanation
Indices: 1874477--1874975 Score: 790
Period size: 263 Copynumber: 1.9 Consensus size: 266
1874467 AATTCTCCAT
* * *
1874477 AATCGGGGATATTCCAACTCCGATTTTATTTTCAAAACACTAATTTTCTCTTTAATCGAGGATAC
1 AATCGGGGATACTCCAACCCCGATTTTATTTTCAAAACACCAATTTTCTCTTTAATCGAGGATAC
*
1874542 TCCAACTCCGATTTTATTTCCAAAAAACACCAATTTCTTCACAATCGGGGGATACTCCAACCCCG
66 TCCAACTCCGATTTTATTTCCAAAAAACACCAATTTCTTCACAATCGGAGGATACTCCAACCCCG
* * * *
1874607 TTAATCATCGGGGATACTCCAACCTCGTTACCTCCGAGGGGATACTCCAACCCCGGCTTTATTTC
131 TTAATCATCGAGGATACTCCAACCCCGTTACCTCCGAGGGGATACTCCAACCCCGACTTTATTCC
*
1874672 TAAAATATTGATTTCTCATAATCGGGGATACTCCAACCCCGGTTTTATTGCTAAAACACTAATTT
196 CAAAATATTGATTTCTCATAATCGGGGATACTCCAACCCCGGTTTTATTGCTAAAACACTAATTT
1874737 TTTCAC
261 TTTCAC
* * *
1874743 AATCGGGGATACTCCAACCCCGGTTTTATTTTCAAAACACCAATTTTC-CTTTAATCGGGGGTAC
1 AATCGGGGATACTCCAACCCCGATTTTATTTTCAAAACACCAATTTTCTCTTTAATCGAGGATAC
*
1874807 TCCAACTCCGATTTTATTTCC-AAAAACACCAATTT-TTCACAATC-GAGGATACTCCAACCTCG
66 TCCAACTCCGATTTTATTTCCAAAAAACACCAATTTCTTCACAATCGGAGGATACTCCAACCCCG
* * *
1874869 TTATTTCATCGAGGATACTCTAACCCCGTTACCTCCGAGGGGATACTCTAACCCCGACTTTATTC
131 TTA-ATCATCGAGGATACTCCAACCCCGTTACCTCCGAGGGGATACTCCAACCCCGACTTTATTC
* * *
1874934 CCAAAATATTGATTTCTCATGATTGGGGATACTTCAACCCCG
195 CCAAAATATTGATTTCTCATAATCGGGGATACTCCAACCCCG
1874976 TTATTCCAAC
Statistics
Matches: 213, Mismatches: 19, Indels: 5
0.90 0.08 0.02
Matches are distributed among these distances:
262 19 0.09
263 101 0.47
264 14 0.07
265 35 0.16
266 44 0.21
ACGTcount: A:0.28, C:0.27, G:0.14, T:0.31
Consensus pattern (266 bp):
AATCGGGGATACTCCAACCCCGATTTTATTTTCAAAACACCAATTTTCTCTTTAATCGAGGATAC
TCCAACTCCGATTTTATTTCCAAAAAACACCAATTTCTTCACAATCGGAGGATACTCCAACCCCG
TTAATCATCGAGGATACTCCAACCCCGTTACCTCCGAGGGGATACTCCAACCCCGACTTTATTCC
CAAAATATTGATTTCTCATAATCGGGGATACTCCAACCCCGGTTTTATTGCTAAAACACTAATTT
TTTCAC
Found at i:1887344 original size:13 final size:12
Alignment explanation
Indices: 1887326--1887365 Score: 53
Period size: 12 Copynumber: 3.2 Consensus size: 12
1887316 CCTTCTCTTC
*
1887326 AAAAAAAAAGCA
1 AAAAAAAAAACA
1887338 AAAAAAAAAACA
1 AAAAAAAAAACA
*
1887350 AAACAAAGAAACA
1 AAA-AAAAAAACA
1887363 AAA
1 AAA
1887366 CAAAGAAAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
12 14 0.56
13 11 0.44
ACGTcount: A:0.85, C:0.10, G:0.05, T:0.00
Consensus pattern (12 bp):
AAAAAAAAAACA
Found at i:1887352 original size:18 final size:18
Alignment explanation
Indices: 1887326--1887369 Score: 56
Period size: 18 Copynumber: 2.6 Consensus size: 18
1887316 CCTTCTCTTC
*
1887326 AAAAAA-AAAGCAAA-AA
1 AAAAAACAAAACAAAGAA
1887342 AAAAAACAAAACAAAGAA
1 AAAAAACAAAACAAAGAA
*
1887360 ACAAAACAAA
1 AAAAAACAAA
1887370 GAAAAAGGAG
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
16 6 0.25
17 7 0.29
18 11 0.46
ACGTcount: A:0.84, C:0.11, G:0.05, T:0.00
Consensus pattern (18 bp):
AAAAAACAAAACAAAGAA
Found at i:1887366 original size:13 final size:13
Alignment explanation
Indices: 1887336--1887373 Score: 60
Period size: 13 Copynumber: 3.0 Consensus size: 13
1887326 AAAAAAAAAG
*
1887336 CAAAA-AAAAAAA
1 CAAAACAAAGAAA
1887348 CAAAACAAAGAAA
1 CAAAACAAAGAAA
1887361 CAAAACAAAGAAA
1 CAAAACAAAGAAA
1887374 AAGGAGAGAA
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
12 5 0.21
13 19 0.79
ACGTcount: A:0.82, C:0.13, G:0.05, T:0.00
Consensus pattern (13 bp):
CAAAACAAAGAAA
Found at i:1889442 original size:55 final size:54
Alignment explanation
Indices: 1889220--1889987 Score: 1044
Period size: 55 Copynumber: 13.9 Consensus size: 54
1889210 TTTTTTTTTA
* *
1889220 AAAGCCCACACAAGTTGGTGGCACCTTCAGTCCTCAAAGAGCGGGAC-CCTTTTC
1 AAAGCCCACACAAGTTGGTGGCACTTTCAGTCCTCAAAGAGCAGGACACC-TTTC
* *
1889274 TTTTAAAGCCCACACAAGTTGGTGGCACTTTCAGTCCTCAAAGAGCGGGACGCCTTTTC
1 ----AAAGCCCACACAAGTTGGTGGCACTTTCAGTCCTCAAAGAGCAGGACACC-TTTC
*
1889333 TTTTAAAGCCCACACAAGTTGGTGGCACCTTCAGTCCTCAAAGAGCAGGACACCTTTC
1 ----AAAGCCCACACAAGTTGGTGGCACTTTCAGTCCTCAAAGAGCAGGACACCTTTC
* *
1889391 AAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGTAGGACACCTCTT-
1 AAAGCCCACACAAGTTGGTGGCACTTT-CAGTCCTCAAAGAGCAGGACACCT-TTC
*
1889446 AAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCCCAAAGAGCAGGACACCTTTC
1 AAAGCCCACACAAGTTGGTGGCA-CTTTCAGTCCTCAAAGAGCAGGACACCTTTC
* *
1889501 AAAGCCCACCCAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGACACCTCTT-
1 AAAGCCCACACAAGTTGGTGGCACTTT-CAGTCCTCAAAGAGCAGGACACCT-TTC
* *
1889556 AAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCCCAAAGAGCAGGACACCTTTC
1 AAAGCCCACACAAGTTGGTGGCACTTT-CAGTCCTCAAAGAGCAGGACACCTTTC
*
1889611 AAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGACACCTCTT-
1 AAAGCCCACACAAGTTGGTGGCACTTT-CAGTCCTCAAAGAGCAGGACACCT-TTC
*
1889666 AAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCCCAAAGAGCAGGACACCTTTC
1 AAAGCCCACACAAGTTGGTGGCA-CTTTCAGTCCTCAAAGAGCAGGACACCTTTC
* * *
1889721 AAAGCCCACCCAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGACGCCTCTT-
1 AAAGCCCACACAAGTTGGTGGCACTTT-CAGTCCTCAAAGAGCAGGACACCT-TTC
*
1889776 AAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCCCAAAGAGCAGGACACCTTTC
1 AAAGCCCACACAAGTTGGTGGCA-CTTTCAGTCCTCAAAGAGCAGGACACCTTTC
*
1889831 AAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGACACCTCTT-
1 AAAGCCCACACAAGTTGGTGGCACTTT-CAGTCCTCAAAGAGCAGGACACCT-TTC
*
1889886 AAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTCAAAGAGCAGGACGCCTTTC
1 AAAGCCCACACAAGTTGGTGGCA-CTTTCAGTCCTCAAAGAGCAGGACACCTTTC
* * * *
1889941 AAAGCCCACACGAGTTGGTGGCACTTTTTACTCCTCAATGAGCAGGA
1 AAAGCCCACACAAGTTGGTGGCAC-TTTCAGTCCTCAAAGAGCAGGA
1889988 TACACTTTAT
Statistics
Matches: 656, Mismatches: 34, Indels: 43
0.89 0.05 0.06
Matches are distributed among these distances:
54 45 0.07
55 481 0.73
56 22 0.03
58 50 0.08
59 58 0.09
ACGTcount: A:0.28, C:0.30, G:0.21, T:0.21
Consensus pattern (54 bp):
AAAGCCCACACAAGTTGGTGGCACTTTCAGTCCTCAAAGAGCAGGACACCTTTC
Found at i:1889501 original size:110 final size:110
Alignment explanation
Indices: 1889220--1889987 Score: 1233
Period size: 110 Copynumber: 6.9 Consensus size: 110
1889210 TTTTTTTTTA
* *
1889220 AAAGCCCACACAAGTTGGTGGCACC-TTCAGTCCTCAAAGAGCGGGAC-CCTTTTCTTTTAAAGC
1 AAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCCCAAAGAGCAGGACACC-TTTC----AAAGC
* * *
1889283 CCACACAAGTTGGTGGCACTTT-CAGTCCTCAAAGAGCGGGACGCCTTTTCTTTT
61 CCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGACACC---TC--TT
*
1889337 AAAGCCCACACAAGTTGGTGGCACC-TTCAGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACA
1 AAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCCCAAAGAGCAGGACACCTTTCAAAGCCCACA
*
1889401 CAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGTAGGACACCTCTT
66 CAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGACACCTCTT
*
1889446 AAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCCCAAAGAGCAGGACACCTTTCAAAGCCCACC
1 AAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCCCAAAGAGCAGGACACCTTTCAAAGCCCACA
1889511 CAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGACACCTCTT
66 CAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGACACCTCTT
*
1889556 AAAGCCCACACAAGTTGGTGGCA-TTTTCCAGTCCCCAAAGAGCAGGACACCTTTCAAAGCCCAC
1 AAAGCCCACACAAGTTGGTGGCACCTTT-CAGTCCCCAAAGAGCAGGACACCTTTCAAAGCCCAC
1889620 ACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGACACCTCTT
65 ACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGACACCTCTT
*
1889666 AAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCCCAAAGAGCAGGACACCTTTCAAAGCCCACC
1 AAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCCCAAAGAGCAGGACACCTTTCAAAGCCCACA
*
1889731 CAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGACGCCTCTT
66 CAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGACACCTCTT
1889776 AAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCCCAAAGAGCAGGACACCTTTCAAAGCCCACA
1 AAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCCCAAAGAGCAGGACACCTTTCAAAGCCCACA
1889841 CAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGACACCTCTT
66 CAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGACACCTCTT
* *
1889886 AAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACA
1 AAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCCCAAAGAGCAGGACACCTTTCAAAGCCCACA
* * * *
1889951 CGAGTTGGTGGCACTTTT-TACTCCTCAATGAGCAGGA
66 CAAGTTGGTGGCA-TTTTCCAGTCCTCAAAGAGCAGGA
1889988 TACACTTTAT
Statistics
Matches: 624, Mismatches: 21, Indels: 19
0.94 0.03 0.03
Matches are distributed among these distances:
109 30 0.05
110 487 0.78
111 9 0.01
113 26 0.04
114 20 0.03
117 50 0.08
118 2 0.00
ACGTcount: A:0.28, C:0.30, G:0.21, T:0.21
Consensus pattern (110 bp):
AAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCCCAAAGAGCAGGACACCTTTCAAAGCCCACA
CAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGACACCTCTT
Found at i:1889610 original size:27 final size:27
Alignment explanation
Indices: 1889580--1889720 Score: 69
Period size: 28 Copynumber: 5.1 Consensus size: 27
1889570 TTGGTGGCAT
1889580 TTTCCAGTCCCCAAAGAGCAGGACACC
1 TTTCCAGTCCCCAAAGAGCAGGACACC
* * ** *
1889607 TTTCAAAG-CCCACACAAGTTGGTGG-CA-T
1 TTTC-CAGTCCC-CA-AAG-AGCAGGACACC
*
1889635 TTTCCAGTCCTCAAAGAGCAGGACACC
1 TTTCCAGTCCCCAAAGAGCAGGACACC
** * **
1889662 TCTTAAAG-CCCACACAAGTTGGTGG-CACC
1 T-TTCCAGTCCC-CA-AAG-AGCAGGACACC
1889691 TTT-CAGTCCCCAAAGAGCAGGACACC
1 TTTCCAGTCCCCAAAGAGCAGGACACC
1889717 TTTC
1 TTTC
1889721 AAAGCCCACC
Statistics
Matches: 79, Mismatches: 21, Indels: 28
0.62 0.16 0.22
Matches are distributed among these distances:
25 6 0.08
26 15 0.19
27 18 0.23
28 21 0.27
29 13 0.16
30 6 0.08
ACGTcount: A:0.28, C:0.32, G:0.19, T:0.21
Consensus pattern (27 bp):
TTTCCAGTCCCCAAAGAGCAGGACACC
Found at i:1890691 original size:21 final size:21
Alignment explanation
Indices: 1890665--1890741 Score: 102
Period size: 21 Copynumber: 3.7 Consensus size: 21
1890655 AAATTATCCA
*
1890665 AATGTATCAATACATTTGTAG
1 AATGTATCGATACATTTGTAG
*
1890686 AATGTATCGATACATTTGTGG
1 AATGTATCGATACATTTGTAG
* *
1890707 AATGTATCGATACA-TTCTACA
1 AATGTATCGATACATTTGTA-G
1890728 AATGTATCGATACA
1 AATGTATCGATACA
1890742 GGGTCCCAAC
Statistics
Matches: 50, Mismatches: 5, Indels: 2
0.88 0.09 0.04
Matches are distributed among these distances:
20 3 0.06
21 47 0.94
ACGTcount: A:0.36, C:0.13, G:0.16, T:0.35
Consensus pattern (21 bp):
AATGTATCGATACATTTGTAG
Found at i:1890883 original size:13 final size:13
Alignment explanation
Indices: 1890865--1890890 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1890855 CATTTTTCTG
1890865 TGTATCGATACAT
1 TGTATCGATACAT
1890878 TGTATCGATACAT
1 TGTATCGATACAT
1890891 GGATCTTTGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1890884 original size:33 final size:33
Alignment explanation
Indices: 1890845--1890911 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
1890835 GCCAAGGAAA
***
1890845 TGTATCGATACATTTTTCTGTGTATCGATACAT
1 TGTATCGATACATGGATCTGTGTATCGATACAT
*
1890878 TGTATCGATACATGGATCTTTGTATCGATACAT
1 TGTATCGATACATGGATCTGTGTATCGATACAT
1890911 T
1 T
1890912 TGGAAATTTT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.25, C:0.15, G:0.16, T:0.43
Consensus pattern (33 bp):
TGTATCGATACATGGATCTGTGTATCGATACAT
Found at i:1893375 original size:55 final size:53
Alignment explanation
Indices: 1893241--1893636 Score: 196
Period size: 52 Copynumber: 7.5 Consensus size: 53
1893231 TGTTGAGTTT
* * * *
1893241 CTCAA-TTCTCCACAATCGGGAATATTCCAACTCCGATTTTATTTTCAAAACA
1 CTCAATTTCTTCACAATCGGGGATACTCCAACTCCGATTTTATTTCCAAAACA
* **
1893293 CTCATTTTC-TCTTTAATCGGGGATACTCCAACTCCGATTTTATTTCCAAAAAACA
1 CTCAATTTCTTC-ACAATCGGGGATACTCCAACTCCGATTTTATTTCC--AAAACA
* * * **** *
1893348 C-CAATTTCTTCACAATCGGGGGATACTCCAACCCCG--TTAATAATCGGGGATA
1 CTCAATTTCTTCACAATC-GGGGATACTCCAACTCCGATTTTAT-TTCCAAAACA
** * * ** *
1893400 CTCCAACCTCGTT-AC-CTCCGAGGGGATACTCCAACCCCGGCTTTATTTCCAAAATA
1 CT-CAATTTC-TTCACAAT-C--GGGGATACTCCAACTCCGATTTTATTTCCAAAACA
** * * * * * *
1893456 -TTGATTTC-TCATAATCGAGGATACTCCAACCCCGGTTTTATTGCTAAAACA
1 CTCAATTTCTTCACAATCGGGGATACTCCAACTCCGATTTTATTTCCAAAACA
** * * *
1893507 CT-AATTT-TTCCACAATCGGGGATACTTTAACCCCGGTTTTATTTTCAAAACA
1 CTCAATTTCTT-CACAATCGGGGATACTCCAACTCCGATTTTATTTCCAAAACA
* * *
1893559 C-CAATTTTCCTT--TAATCGGGGGTACTCCAACTCTGA-TTTATTTCCAAAAACA
1 CTCAA-TTT-CTTCACAATCGGGGATACTCCAACTCCGATTTTATTTCC-AAAACA
*
1893611 C-CAATTT-TTCACAATCGAGGATACTC
1 CTCAATTTCTTCACAATCGGGGATACTC
1893637 TAACCTCTTT
Statistics
Matches: 260, Mismatches: 58, Indels: 53
0.70 0.16 0.14
Matches are distributed among these distances:
49 2 0.01
51 58 0.22
52 75 0.29
53 43 0.17
54 24 0.09
55 49 0.19
56 5 0.02
57 4 0.02
ACGTcount: A:0.29, C:0.27, G:0.12, T:0.32
Consensus pattern (53 bp):
CTCAATTTCTTCACAATCGGGGATACTCCAACTCCGATTTTATTTCCAAAACA
Found at i:1893393 original size:28 final size:29
Alignment explanation
Indices: 1893361--1893438 Score: 92
Period size: 28 Copynumber: 2.8 Consensus size: 29
1893351 ATTTCTTCAC
1893361 AATCGGGGGATACTCCAACCCCGTTA-AT
1 AATCGGGGGATACTCCAACCCCGTTACAT
* *
1893389 AATC-GGGGATACTCCAACCTCGTTACCT
1 AATCGGGGGATACTCCAACCCCGTTACAT
*
1893417 --CCGAGGGGATACTCCAACCCCG
1 AATCG-GGGGATACTCCAACCCCG
1893439 GCTTTATTTC
Statistics
Matches: 43, Mismatches: 4, Indels: 6
0.81 0.08 0.11
Matches are distributed among these distances:
26 1 0.02
27 20 0.47
28 22 0.51
ACGTcount: A:0.26, C:0.33, G:0.22, T:0.19
Consensus pattern (29 bp):
AATCGGGGGATACTCCAACCCCGTTACAT
Found at i:1893541 original size:52 final size:52
Alignment explanation
Indices: 1893423--1893641 Score: 164
Period size: 51 Copynumber: 4.2 Consensus size: 52
1893413 ACCTCCGAGG
* * *** * *
1893423 GGATACTCCAACCCCGGCTTTATT-TCCAAAATATTGATTTCT-CATAATCGA
1 GGATACTCCAACCCCGGTTTTATTCT-CAAAACACCAATTTTTCCACAATCGA
* *
1893474 GGATACTCCAACCCCGGTTTTATTGCT-AAAACACTAATTTTTCCACAATCGG
1 GGATACTCCAACCCCGGTTTTATT-CTCAAAACACCAATTTTTCCACAATCGA
** * ** *
1893526 GGATACTTTAACCCCGGTTTTATTTTCAAAACACCAA-TTTTCCTTTAATCGG
1 GGATACTCCAACCCCGGTTTTATTCTCAAAACACCAATTTTTCC-ACAATCGA
* * * *
1893578 GGGTACTCCAA-CTCTGATTTATT-TCCAAAAACACCAATTTTT-CACAATCGA
1 GGATACTCCAACCCCGGTTTTATTCT-C-AAAACACCAATTTTTCCACAATCGA
*
1893629 GGATACTCTAACC
1 GGATACTCCAACC
1893642 TCTTTATTTC
Statistics
Matches: 135, Mismatches: 24, Indels: 17
0.77 0.14 0.10
Matches are distributed among these distances:
50 1 0.01
51 65 0.48
52 64 0.47
53 5 0.04
ACGTcount: A:0.30, C:0.26, G:0.12, T:0.33
Consensus pattern (52 bp):
GGATACTCCAACCCCGGTTTTATTCTCAAAACACCAATTTTTCCACAATCGA
Found at i:1893718 original size:261 final size:266
Alignment explanation
Indices: 1893249--1893750 Score: 750
Period size: 261 Copynumber: 1.9 Consensus size: 266
1893239 TTCTCAATTC
*
1893249 TCCACAATCGGGAATATTCCAACTCCGATTTTATTTTCAAAACACTCATTTTCTCTTTAATCGGG
1 TCCACAATCGGGAATATTCCAACCCCGATTTTATTTTCAAAACACTCATTTTCTCTTTAATCGGG
*
1893314 GATACTCCAACTCCGATTTTATTTCCAAAAAACACCAATTTCTTCACAATCGGGGGATACTCCAA
66 GATACTCCAACTCCGATTTTATTTCCAAAAAACACCAATTTCTTCACAATCGGAGGATACTCCAA
* *
1893379 CCCCGTTAATAATCGGGGATACTCCAACCTCGTTACCTCCGAGGGGATACTCCAACCCCGGCTTT
131 CCCCGTTAATAATCGAGGATACTCCAACCCCGTTACCTCCGAGGGGATACTCCAACCCCGGCTTT
*
1893444 ATTTCCAAAATATTGATTTCTCATAATCGAGGATACTCCAACCCCGGTTTTATTGCTAAAACACT
196 ATTCCCAAAATATTGATTTCTCATAATCGAGGATACTCCAACCCCGGTTTTATTGCTAAAACACT
1893509 AATTTT
261 AATTTT
* * *
1893515 TCCACAATCGGGGATACTT-TAACCCCGGTTTTATTTTCAAAACAC-CAATTTTC-CTTTAATCG
1 TCCACAATCGGGAATA-TTCCAACCCCGATTTTATTTTCAAAACACTC-ATTTTCTCTTTAATCG
* * *
1893577 GGGGTACTCCAACTCTGA-TTTATTTCC-AAAAACACCAATTT-TTCACAATC-GAGGATACTCT
64 GGGATACTCCAACTCCGATTTTATTTCCAAAAAACACCAATTTCTTCACAATCGGAGGATACTCC
* * * *
1893638 AACCTCTTTATTTCATCGAGGATACTCCAACCCCGTTACCTCCGA-GGGATACTCCAACCCCGGC
129 AACCCCGTTA-ATAATCGAGGATACTCCAACCCCGTTACCTCCGAGGGGATACTCCAACCCCGGC
* * * *
1893702 TTTATTCCCAAAATATTGATTTCTCATGATTGGGGATACTTCAACCCCG
193 TTTATTCCCAAAATATTGATTTCTCATAATCGAGGATACTCCAACCCCG
1893751 TTATTCCAAC
Statistics
Matches: 214, Mismatches: 19, Indels: 11
0.88 0.08 0.05
Matches are distributed among these distances:
261 80 0.37
262 39 0.18
263 14 0.07
264 9 0.04
265 26 0.12
266 44 0.21
267 2 0.01
ACGTcount: A:0.28, C:0.27, G:0.13, T:0.31
Consensus pattern (266 bp):
TCCACAATCGGGAATATTCCAACCCCGATTTTATTTTCAAAACACTCATTTTCTCTTTAATCGGG
GATACTCCAACTCCGATTTTATTTCCAAAAAACACCAATTTCTTCACAATCGGAGGATACTCCAA
CCCCGTTAATAATCGAGGATACTCCAACCCCGTTACCTCCGAGGGGATACTCCAACCCCGGCTTT
ATTCCCAAAATATTGATTTCTCATAATCGAGGATACTCCAACCCCGGTTTTATTGCTAAAACACT
AATTTT
Found at i:1897788 original size:13 final size:13
Alignment explanation
Indices: 1897769--1897833 Score: 85
Period size: 13 Copynumber: 5.0 Consensus size: 13
1897759 ACAGCATTCT
1897769 CTGTATCGATACA
1 CTGTATCGATACA
* *
1897782 TTGTATCTATACA
1 CTGTATCGATACA
*
1897795 CTGTATCGATGCA
1 CTGTATCGATACA
* *
1897808 TTGTATTGATACA
1 CTGTATCGATACA
1897821 CTGTATCGATACA
1 CTGTATCGATACA
1897834 AGGGGTTTAT
Statistics
Matches: 42, Mismatches: 10, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
13 42 1.00
ACGTcount: A:0.29, C:0.18, G:0.15, T:0.37
Consensus pattern (13 bp):
CTGTATCGATACA
Found at i:1897809 original size:26 final size:26
Alignment explanation
Indices: 1897769--1897833 Score: 105
Period size: 26 Copynumber: 2.5 Consensus size: 26
1897759 ACAGCATTCT
1897769 CTGTATCGATACATTGTATCT-ATACA
1 CTGTATCGATACATTGTAT-TGATACA
*
1897795 CTGTATCGATGCATTGTATTGATACA
1 CTGTATCGATACATTGTATTGATACA
1897821 CTGTATCGATACA
1 CTGTATCGATACA
1897834 AGGGGTTTAT
Statistics
Matches: 36, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
25 1 0.03
26 35 0.97
ACGTcount: A:0.29, C:0.18, G:0.15, T:0.37
Consensus pattern (26 bp):
CTGTATCGATACATTGTATTGATACA
Found at i:1898000 original size:20 final size:20
Alignment explanation
Indices: 1897965--1898005 Score: 57
Period size: 22 Copynumber: 2.0 Consensus size: 20
1897955 CAAATTTCTT
1897965 GTTTTTCACTTCAAAATACATC
1 GTTTTTCAC-TCAAAAT-CATC
1897987 GTTTTTCA-TCAAAATCATC
1 GTTTTTCACTCAAAATCATC
1898006 AACAAAAATA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 4 0.21
20 7 0.37
22 8 0.42
ACGTcount: A:0.32, C:0.22, G:0.05, T:0.41
Consensus pattern (20 bp):
GTTTTTCACTCAAAATCATC
Found at i:1898307 original size:20 final size:21
Alignment explanation
Indices: 1898266--1898318 Score: 63
Period size: 20 Copynumber: 2.5 Consensus size: 21
1898256 TTCCCTAGGC
* *
1898266 AGCACCCACCAGGTCGCGACCG
1 AGCACCC-CCAGGTCACAACCG
1898288 -GCACCCCCAGGTCACAACCG
1 AGCACCCCCAGGTCACAACCG
1898308 AGCAGCCCCCA
1 AGCA-CCCCCA
1898319 CACTAGCAGC
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
20 12 0.44
21 9 0.33
22 6 0.22
ACGTcount: A:0.25, C:0.49, G:0.23, T:0.04
Consensus pattern (21 bp):
AGCACCCCCAGGTCACAACCG
Found at i:1899488 original size:20 final size:20
Alignment explanation
Indices: 1899463--1899516 Score: 81
Period size: 20 Copynumber: 2.7 Consensus size: 20
1899453 GTATCGATAC
**
1899463 AATGTATCGATACATGACTA
1 AATGTATCGATACATGAAAA
*
1899483 AATGTATCGATACTTGAAAA
1 AATGTATCGATACATGAAAA
1899503 AATGTATCGATACA
1 AATGTATCGATACA
1899517 AGTCATTGGC
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.43, C:0.13, G:0.15, T:0.30
Consensus pattern (20 bp):
AATGTATCGATACATGAAAA
Found at i:1899604 original size:33 final size:32
Alignment explanation
Indices: 1899548--1899615 Score: 109
Period size: 33 Copynumber: 2.1 Consensus size: 32
1899538 GTAGCTAAAT
* *
1899548 TTGTATCGATACACACAATATGTATCGATACA
1 TTGTATCAATACACACAAAATGTATCGATACA
1899580 TTGTATCAATACATCACAAAATGTATCGATACA
1 TTGTATCAATACA-CACAAAATGTATCGATACA
1899613 TTG
1 TTG
1899616 GCTTGTAACG
Statistics
Matches: 33, Mismatches: 2, Indels: 1
0.92 0.06 0.03
Matches are distributed among these distances:
32 12 0.36
33 21 0.64
ACGTcount: A:0.38, C:0.18, G:0.12, T:0.32
Consensus pattern (32 bp):
TTGTATCAATACACACAAAATGTATCGATACA
Found at i:1901082 original size:5 final size:5
Alignment explanation
Indices: 1901072--1901117 Score: 92
Period size: 5 Copynumber: 9.2 Consensus size: 5
1901062 TTGGAAAAAA
1901072 TAAAT TAAAT TAAAT TAAAT TAAAT TAAAT TAAAT TAAAT TAAAT T
1 TAAAT TAAAT TAAAT TAAAT TAAAT TAAAT TAAAT TAAAT TAAAT T
1901118 TTCAAAAATC
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 41 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (5 bp):
TAAAT
Found at i:1901557 original size:159 final size:165
Alignment explanation
Indices: 1901293--1901668 Score: 405
Period size: 159 Copynumber: 2.3 Consensus size: 165
1901283 AAATAATTTA
* * ** * * *
1901293 AATTTTTTAAAACTGATTTGA-TGTGAATTTAATGACAATA-TAGATGAATTTTAAAAATTTTAA
1 AATTTTTTAAAACTGATTT-ACTATGAATTAAATGATGATATTTGATAAATTTTAAAAATTATAA
* * * **
1901356 ACCAATAAAAATTCTCCCAAAAATATTTATAGAATAGAAAAC-TCG-ATTTTTTAAA-A-AA-AA
65 ACCAAGAAAAATCCTCCCAAAAAAATTTATAGAATAGAAAACTTCGTATTTTGAAAATAGAAGAA
*
1901416 -TTCAA-AGAAAAATGAAAAACTTATGAAAATAAATG
130 TTTCAAGA-AAAAAAGAAAAACTTATGAAAATAAATG
1901451 AATTTTTTTAAAACTGATTT-CTATGAATTAAATGATGATATTTGATAAATTTTAAAAATTATAA
1 AA-TTTTTTAAAACTGATTTACTATGAATTAAATGATGATATTTGATAAATTTTAAAAATTATAA
* * * * * *
1901515 ACCAAGAAAAATCCTTCCAAAAAAATTTATGGAGTTGGAAACTTTGTATTTTGAAAATAGAAGAA
65 ACCAAGAAAAATCCTCCCAAAAAAATTTATAGAATAGAAAACTTCGTATTTTGAAAATAGAAGAA
* *
1901580 TTTCAAGAAAAAAAGGAAAATTTATGAAAATAAATG
130 TTTCAAGAAAAAAAGAAAAACTTATGAAAATAAATG
* * ** *
1901616 CATTTTTCAAAACAAATTTACTATAAATTAAATGATGATATTTGA-AGAATTTT
1 AATTTTTTAAAACTGATTTACTATGAATTAAATGATGATATTTGATA-AATTTT
1901669 GGTGTTCAAA
Statistics
Matches: 180, Mismatches: 26, Indels: 17
0.81 0.12 0.08
Matches are distributed among these distances:
158 17 0.09
159 71 0.39
160 2 0.01
161 8 0.04
162 1 0.01
163 2 0.01
164 17 0.09
165 61 0.34
166 1 0.01
ACGTcount: A:0.48, C:0.07, G:0.10, T:0.35
Consensus pattern (165 bp):
AATTTTTTAAAACTGATTTACTATGAATTAAATGATGATATTTGATAAATTTTAAAAATTATAAA
CCAAGAAAAATCCTCCCAAAAAAATTTATAGAATAGAAAACTTCGTATTTTGAAAATAGAAGAAT
TTCAAGAAAAAAAGAAAAACTTATGAAAATAAATG
Found at i:1902870 original size:51 final size:51
Alignment explanation
Indices: 1902794--1902890 Score: 140
Period size: 51 Copynumber: 1.9 Consensus size: 51
1902784 AAAAAGTCAC
* * * * *
1902794 ATTTTTACCTAGATGTATCGATACATTTTTCAATGTATCGATACATTCTAT
1 ATTTTTACCCAAATGTATCGATACATTTTGCAATATATCAATACATTCTAT
*
1902845 ATTTTTACCCAAATGTATTGATACATTTTGCAATATATCAATACAT
1 ATTTTTACCCAAATGTATCGATACATTTTGCAATATATCAATACAT
1902891 CTAGTTAAAA
Statistics
Matches: 40, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
51 40 1.00
ACGTcount: A:0.33, C:0.15, G:0.08, T:0.43
Consensus pattern (51 bp):
ATTTTTACCCAAATGTATCGATACATTTTGCAATATATCAATACATTCTAT
Found at i:1919146 original size:13 final size:13
Alignment explanation
Indices: 1919128--1919152 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1919118 CAAAGATCAG
1919128 TGTATCGATACAA
1 TGTATCGATACAA
1919141 TGTATCGATACA
1 TGTATCGATACA
1919153 TTTGAGTAAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:1919230 original size:33 final size:33
Alignment explanation
Indices: 1919193--1919259 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
1919183 AGTAGCTTAA
1919193 ATTGTATCGATACAAAAAAATATGTATCGATAC
1 ATTGTATCGATACAAAAAAATATGTATCGATAC
* ***
1919226 ATTGTATCGATACAACACTTTATGTATCGATAC
1 ATTGTATCGATACAAAAAAATATGTATCGATAC
1919259 A
1 A
1919260 AATCGTTGAA
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.40, C:0.15, G:0.12, T:0.33
Consensus pattern (33 bp):
ATTGTATCGATACAAAAAAATATGTATCGATAC
Found at i:1919233 original size:13 final size:13
Alignment explanation
Indices: 1919215--1919239 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1919205 CAAAAAAATA
1919215 TGTATCGATACAT
1 TGTATCGATACAT
1919228 TGTATCGATACA
1 TGTATCGATACA
1919240 ACACTTTATG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1920391 original size:49 final size:49
Alignment explanation
Indices: 1920182--1920957 Score: 1053
Period size: 49 Copynumber: 15.9 Consensus size: 49
1920172 AAAAAGATGT
* *
1920182 CAATGTGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGGAAAATGTGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAT-G--AAGGTGC
* *
1920234 CAATATGCTGATTCAAGGCCAGCTATATTGGACTT----A--AAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
*
1920277 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGGTG-AGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
1920325 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
* * *
1920374 CAATGTGCTGAGTCAAGGCCAGCTACATTGGTCTTAAAGATAAAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
* * * *
1920423 CAATATGCTGATTCAAGGCCAGCTATATTGGACTTAATGGTGAAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
* * *
1920472 CAATGTGCTGAGTCAAGGCCAGCTACATTGGTCTTAAAGATAAAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
* * * *
1920521 CAATATGCTGATTCAAGGCCAGCTATATTGGACTTAATGGTGAAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
* * * *
1920570 CAATGTGCTGAGTCAAGGCTAGCTACATTGGTCTTAAAGATAAAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
* * * *
1920619 CAATATGCTGATTCAAGGCCAGCTATATTGGACTTAATGGTGAAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
* * *
1920668 CAATGTGCTGAGTCAAGGCCAGCTACATTGGTCTTAAAGATAAAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
* * * *
1920717 CAATATGCTGATTCAAGGCCAGCTATATTGGACTTAATGGTGAAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
* * *
1920766 CAATGTGCTGAGTCAAGGCCAGCTACATTGGTCTTAAAGATAAAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
* * * * *
1920815 TAATATGCTGATTCAAGGCCAGCTATATTGGACTTAATGGTGAAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
* * *
1920864 TAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
* *
1920913 CAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAG
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAG
1920958 ATGAGAAAAG
Statistics
Matches: 629, Mismatches: 88, Indels: 17
0.86 0.12 0.02
Matches are distributed among these distances:
43 39 0.06
48 48 0.08
49 510 0.81
52 32 0.05
ACGTcount: A:0.30, C:0.17, G:0.26, T:0.26
Consensus pattern (49 bp):
CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
Found at i:1920957 original size:98 final size:98
Alignment explanation
Indices: 1920182--1920949 Score: 1316
Period size: 98 Copynumber: 7.9 Consensus size: 98
1920172 AAAAAGATGT
* ** *
1920182 CAATGTGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGGAAAATGTGCCAATATGCTGATT
1 CAATGTGCTGAGTCAAGGCCAGCTACATTGGTCTTAAAGAT---AAAGGTGCCAATATGCTGATT
1920247 CAAGGCCAGCTATATTGGACTT-A-----AAGGTGC
63 CAAGGCCAGCTATATTGGACTTAATGGTGAAGGTGC
* * * * *
1920277 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGGT-GAGGTGCCAATGTGCTGATTCAA
1 CAATGTGCTGAGTCAAGGCCAGCTACATTGGTCTTAAAGATAAAGGTGCCAATATGCTGATTCAA
* * *
1920341 GGCCAGCTACATTGGACTTAAAGATGAAGGTGC
66 GGCCAGCTATATTGGACTTAATGGTGAAGGTGC
1920374 CAATGTGCTGAGTCAAGGCCAGCTACATTGGTCTTAAAGATAAAGGTGCCAATATGCTGATTCAA
1 CAATGTGCTGAGTCAAGGCCAGCTACATTGGTCTTAAAGATAAAGGTGCCAATATGCTGATTCAA
1920439 GGCCAGCTATATTGGACTTAATGGTGAAGGTGC
66 GGCCAGCTATATTGGACTTAATGGTGAAGGTGC
1920472 CAATGTGCTGAGTCAAGGCCAGCTACATTGGTCTTAAAGATAAAGGTGCCAATATGCTGATTCAA
1 CAATGTGCTGAGTCAAGGCCAGCTACATTGGTCTTAAAGATAAAGGTGCCAATATGCTGATTCAA
1920537 GGCCAGCTATATTGGACTTAATGGTGAAGGTGC
66 GGCCAGCTATATTGGACTTAATGGTGAAGGTGC
*
1920570 CAATGTGCTGAGTCAAGGCTAGCTACATTGGTCTTAAAGATAAAGGTGCCAATATGCTGATTCAA
1 CAATGTGCTGAGTCAAGGCCAGCTACATTGGTCTTAAAGATAAAGGTGCCAATATGCTGATTCAA
1920635 GGCCAGCTATATTGGACTTAATGGTGAAGGTGC
66 GGCCAGCTATATTGGACTTAATGGTGAAGGTGC
1920668 CAATGTGCTGAGTCAAGGCCAGCTACATTGGTCTTAAAGATAAAGGTGCCAATATGCTGATTCAA
1 CAATGTGCTGAGTCAAGGCCAGCTACATTGGTCTTAAAGATAAAGGTGCCAATATGCTGATTCAA
1920733 GGCCAGCTATATTGGACTTAATGGTGAAGGTGC
66 GGCCAGCTATATTGGACTTAATGGTGAAGGTGC
*
1920766 CAATGTGCTGAGTCAAGGCCAGCTACATTGGTCTTAAAGATAAAGGTGCTAATATGCTGATTCAA
1 CAATGTGCTGAGTCAAGGCCAGCTACATTGGTCTTAAAGATAAAGGTGCCAATATGCTGATTCAA
1920831 GGCCAGCTATATTGGACTTAATGGTGAAGGTGC
66 GGCCAGCTATATTGGACTTAATGGTGAAGGTGC
* *
1920864 TAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGCCAATATGCTGATTCAA
1 CAATGTGCTGAGTCAAGGCCAGCTACATTGGTCTTAAAGATAAAGGTGCCAATATGCTGATTCAA
1920929 GGCCAGCTATATTGGACTTAA
66 GGCCAGCTATATTGGACTTAA
1920950 AGATGAAGAT
Statistics
Matches: 646, Mismatches: 20, Indels: 11
0.95 0.03 0.02
Matches are distributed among these distances:
91 38 0.06
92 1 0.00
95 39 0.06
97 45 0.07
98 523 0.81
ACGTcount: A:0.30, C:0.17, G:0.26, T:0.27
Consensus pattern (98 bp):
CAATGTGCTGAGTCAAGGCCAGCTACATTGGTCTTAAAGATAAAGGTGCCAATATGCTGATTCAA
GGCCAGCTATATTGGACTTAATGGTGAAGGTGC
Found at i:1921059 original size:33 final size:33
Alignment explanation
Indices: 1921020--1921093 Score: 141
Period size: 33 Copynumber: 2.3 Consensus size: 33
1921010 GGCTTAAAAG
1921020 GGTTGCCACCGACTTGTGTGGGCTTTAGAAGAA
1 GGTTGCCACCGACTTGTGTGGGCTTTAGAAGAA
1921053 GGTTGCCACCGACTTGTGTGGGCTTTAGAAGAA
1 GGTTGCCACCGACTTGTGTGGGCTTTAGAAGAA
1921086 GG-TGCCAC
1 GGTTGCCAC
1921094 GAAGTCATGG
Statistics
Matches: 41, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
32 6 0.15
33 35 0.85
ACGTcount: A:0.20, C:0.20, G:0.34, T:0.26
Consensus pattern (33 bp):
GGTTGCCACCGACTTGTGTGGGCTTTAGAAGAA
Found at i:1921146 original size:33 final size:33
Alignment explanation
Indices: 1921109--1921243 Score: 151
Period size: 33 Copynumber: 4.3 Consensus size: 33
1921099 CATGGACTTA
1921109 AAAGGAAAAGAGTGCCACGTAGTTGTGGGCTTT
1 AAAGGAAAAGAGTGCCACGTAGTTGTGGGCTTT
*
1921142 AAAGGAAAA-AGATGCCACGGAGTTGTGGGC-TT
1 AAAGGAAAAGAG-TGCCACGTAGTTGTGGGCTTT
* * *
1921174 --A--AAATG-GTGCCACAG-AGTTGTGGACTTA
1 AAAGGAAAAGAGTGCCAC-GTAGTTGTGGGCTTT
*
1921202 AAAGGAAAAGAGCGCCACGTAGTTGTGGGCTTT
1 AAAGGAAAAGAGTGCCACGTAGTTGTGGGCTTT
1921235 AAAGGAAAA
1 AAAGGAAAA
1921244 AAGGGTGCCA
Statistics
Matches: 84, Mismatches: 8, Indels: 20
0.75 0.07 0.18
Matches are distributed among these distances:
27 15 0.18
28 6 0.07
30 2 0.02
32 9 0.11
33 52 0.62
ACGTcount: A:0.35, C:0.13, G:0.32, T:0.21
Consensus pattern (33 bp):
AAAGGAAAAGAGTGCCACGTAGTTGTGGGCTTT
Found at i:1921193 original size:60 final size:60
Alignment explanation
Indices: 1921120--1921233 Score: 160
Period size: 60 Copynumber: 1.9 Consensus size: 60
1921110 AAGGAAAAGA
* * *
1921120 GTGCCACGTAGTTGTGGGCTTTAAAGGAAAA-AGATGCCACGGAGTTGTGGGCTTAAAATG
1 GTGCCACGTAGTTGTGGACTTAAAAGGAAAAGAG-CGCCACGGAGTTGTGGGCTTAAAATG
*
1921180 GTGCCACAG-AGTTGTGGACTTAAAAGGAAAAGAGCGCCACGTAGTTGTGGGCTT
1 GTGCCAC-GTAGTTGTGGACTTAAAAGGAAAAGAGCGCCACGGAGTTGTGGGCTT
1921234 TAAAGGAAAA
Statistics
Matches: 48, Mismatches: 4, Indels: 4
0.86 0.07 0.07
Matches are distributed among these distances:
60 45 0.94
61 3 0.06
ACGTcount: A:0.28, C:0.15, G:0.33, T:0.24
Consensus pattern (60 bp):
GTGCCACGTAGTTGTGGACTTAAAAGGAAAAGAGCGCCACGGAGTTGTGGGCTTAAAATG
Found at i:1921198 original size:93 final size:95
Alignment explanation
Indices: 1921101--1921291 Score: 314
Period size: 93 Copynumber: 2.0 Consensus size: 95
1921091 CACGAAGTCA
*
1921101 TGGACTTAAAAGGAAAAGAGTGCCACGTAGTTGTGGGCTTTAAAGG-AAAAA-GATGCCACGGAG
1 TGGACTTAAAAGGAAAAGAGCGCCACGTAGTTGTGGGCTTTAAAGGAAAAAAGGATGCCACGGAG
* * *
1921164 TTGTGGGCTTAAAATGGTGCCACAGAGTTG
66 TCGTGGACTTAAAAGGGTGCCACAGAGTTG
*
1921194 TGGACTTAAAAGGAAAAGAGCGCCACGTAGTTGTGGGCTTTAAAGGAAAAAAGGGTGCCACGGAG
1 TGGACTTAAAAGGAAAAGAGCGCCACGTAGTTGTGGGCTTTAAAGGAAAAAAGGATGCCACGGAG
*
1921259 TCGTGGACTTAAAAGGGTGCCACGGAGTTG
66 TCGTGGACTTAAAAGGGTGCCACAGAGTTG
1921289 TGG
1 TGG
1921292 GCTTTTAGGA
Statistics
Matches: 90, Mismatches: 6, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
93 45 0.50
94 5 0.06
95 40 0.44
ACGTcount: A:0.31, C:0.14, G:0.34, T:0.21
Consensus pattern (95 bp):
TGGACTTAAAAGGAAAAGAGCGCCACGTAGTTGTGGGCTTTAAAGGAAAAAAGGATGCCACGGAG
TCGTGGACTTAAAAGGGTGCCACAGAGTTG
Found at i:1921254 original size:35 final size:32
Alignment explanation
Indices: 1921086--1921274 Score: 138
Period size: 33 Copynumber: 5.8 Consensus size: 32
1921076 TTTAGAAGAA
**
1921086 GGTGCCACGAAGTCATGGACTTAAAAGGAAAAG
1 GGTGCCACG-AGTTGTGGACTTAAAAGGAAAAG
* * * *
1921119 AGTGCCACGTAGTTGTGGGCTTTAAAGGAAAAA
1 GGTGCCACG-AGTTGTGGACTTAAAAGGAAAAG
* * *
1921152 GATGCCACGGAGTTGTGGGCTT------AAAAT
1 GGTGCCAC-GAGTTGTGGACTTAAAAGGAAAAG
1921179 GGTGCCACAGAGTTGTGGACTTAAAAGGAAAAG
1 GGTGCCAC-GAGTTGTGGACTTAAAAGGAAAAG
* * * *
1921212 AGCGCCACGTAGTTGTGGGCTTTAAAGGAAAAAAG
1 GGTGCCACG-AGTTGTGGACTTAAAAGG--AAAAG
*
1921247 GGTGCCACGGAGTCGTGGACTTAAAAGG
1 GGTGCCAC-GAGTTGTGGACTTAAAAGG
1921275 GTGCCACGGA
Statistics
Matches: 122, Mismatches: 23, Indels: 20
0.74 0.14 0.12
Matches are distributed among these distances:
27 23 0.19
32 1 0.01
33 70 0.57
34 1 0.01
35 26 0.21
36 1 0.01
ACGTcount: A:0.33, C:0.14, G:0.33, T:0.20
Consensus pattern (32 bp):
GGTGCCACGAGTTGTGGACTTAAAAGGAAAAG
Found at i:1921312 original size:93 final size:93
Alignment explanation
Indices: 1921121--1921403 Score: 280
Period size: 93 Copynumber: 3.1 Consensus size: 93
1921111 AGGAAAAGAG
* * *
1921121 TGCCACGTAGTTGTGGGCTTTAAAGG-AAAAA-GATGCCACGGAGTTGTGGGCTTAAAATGGTGC
1 TGCCACGTAGTTGTGGGCTTTAAAGGAAAAAAGGATGCCACGGAGTCGTGGACTTAAAAGGGTGC
**
1921184 CACAGAGTTGTGGACTTAAAAGGA-AAAGA
66 CACAGAGTTGTGGACTT-TTAGGACAAA-A
* *
1921213 GCGCCACGTAGTTGTGGGCTTTAAAGGAAAAAAGGGTGCCACGGAGTCGTGGACTTAAAAGGGTG
1 -TGCCACGTAGTTGTGGGCTTTAAAGGAAAAAAGGATGCCACGGAGTCGTGGACTTAAAAGGGTG
* *
1921278 CCACGGAGTTGTGGGCTTTTAGGACAAAA
65 CCACAGAGTTGTGGACTTTTAGGACAAAA
* * * *
1921307 TGCCAC-TGAGTCGTGGGCTTT----GAGAAGA-GATTGCCACTGAGTCGTGGACTTTAAGAAGG
1 TGCCACGT-AGTTGTGGGCTTTAAAGGAAAAAAGGA-TGCCACGGAGTCGTGGAC-TTAA-AAGG
* *
1921366 AGATGCCACTGAATTGTGGAC-TTTAGGACAAAA
62 -G-TGCCACAGAGTTGTGGACTTTTAGGACAAAA
1921399 TGCCA
1 TGCCA
1921404 TTGAGTCACG
Statistics
Matches: 163, Mismatches: 18, Indels: 19
0.81 0.09 0.09
Matches are distributed among these distances:
88 1 0.01
89 22 0.13
90 4 0.02
91 4 0.02
92 19 0.12
93 57 0.35
94 10 0.06
95 46 0.28
ACGTcount: A:0.29, C:0.16, G:0.32, T:0.23
Consensus pattern (93 bp):
TGCCACGTAGTTGTGGGCTTTAAAGGAAAAAAGGATGCCACGGAGTCGTGGACTTAAAAGGGTGC
CACAGAGTTGTGGACTTTTAGGACAAAA
Found at i:1921323 original size:31 final size:31
Alignment explanation
Indices: 1921276--1921512 Score: 174
Period size: 31 Copynumber: 7.7 Consensus size: 31
1921266 CTTAAAAGGG
* * * *
1921276 TGCCACGGAGTTGTGGGCTTTTAGGACAAAA
1 TGCCACTGAGTCGTGGACTTTGAGGACAAAA
* * * * *
1921307 TGCCACTGAGTCGTGGGCTTTGAGAAGAGAT
1 TGCCACTGAGTCGTGGACTTTGAGGACAAAA
* * ** *
1921338 TGCCACTGAGTCGTGGACTTTAAGAAGGAGA
1 TGCCACTGAGTCGTGGACTTTGAGGACAAAA
* *
1921369 TGCCACTGAATTGTGGACTTT-AGGACAAAA
1 TGCCACTGAGTCGTGGACTTTGAGGACAAAA
* ** * *
1921399 TGCCATTGAGTCACGGGCTTTGAAGA-AAAGGA
1 TGCCACTGAGTCGTGGACTTTGAGGACAAA--A
* *
1921431 TGCCACTAAGTCATGGACTTTGA-GACAAAA
1 TGCCACTGAGTCGTGGACTTTGAGGACAAAA
* * * * *
1921461 TGCCACTAAGTCGTGGACTTTGAGAAGAGAT
1 TGCCACTGAGTCGTGGACTTTGAGGACAAAA
*
1921492 TACCACTGAGTCGTGGACTTT
1 TGCCACTGAGTCGTGGACTTT
1921513 AAAAAGGTAT
Statistics
Matches: 164, Mismatches: 37, Indels: 10
0.78 0.18 0.05
Matches are distributed among these distances:
30 46 0.28
31 95 0.58
32 23 0.14
ACGTcount: A:0.29, C:0.17, G:0.29, T:0.25
Consensus pattern (31 bp):
TGCCACTGAGTCGTGGACTTTGAGGACAAAA
Found at i:1921372 original size:62 final size:59
Alignment explanation
Indices: 1921306--1921512 Score: 200
Period size: 62 Copynumber: 3.4 Consensus size: 59
1921296 TTAGGACAAA
* *
1921306 ATGCCACTGAGTCGTGGGCTTTGAGAAGAGATTGCCACTGAGTCGTGGACTTTAAGAAGGAG
1 ATGCCACTGAGTCGTGGACTTTGAGAA-A-AATGCCACTGAGTCGTGGACTTTAAGAA-GAG
* * * ** * *
1921368 ATGCCACTGAATTGTGGACTTT-AGGACAAAATGCCATTGAGTCACGGGCTTTGAAGAAAAGG
1 ATGCCACTGAGTCGTGGACTTTGA-GA-AAAATGCCACTGAGTCGTGGACTTT-AAGAAGA-G
* * * *
1921430 ATGCCACTAAGTCATGGACTTTGAGACAAAATGCCACTAAGTCGTGGACTTTGAGAAGAG
1 ATGCCACTGAGTCGTGGACTTTGAGA-AAAATGCCACTGAGTCGTGGACTTTAAGAAGAG
*
1921490 ATTACCACTGAGTCGTGGACTTT
1 A-TGCCACTGAGTCGTGGACTTT
1921513 AAAAAGGTAT
Statistics
Matches: 116, Mismatches: 23, Indels: 13
0.76 0.15 0.09
Matches are distributed among these distances:
60 2 0.02
61 43 0.37
62 69 0.59
63 2 0.02
ACGTcount: A:0.29, C:0.17, G:0.28, T:0.25
Consensus pattern (59 bp):
ATGCCACTGAGTCGTGGACTTTGAGAAAAATGCCACTGAGTCGTGGACTTTAAGAAGAG
Found at i:1921464 original size:92 final size:91
Alignment explanation
Indices: 1921276--1921481 Score: 229
Period size: 92 Copynumber: 2.2 Consensus size: 91
1921266 CTTAAAAGGG
* * * ** *
1921276 TGCCACGGAGTTGTGGGCTTTTAGGACAAAATGCCACTGAGTCGTGGGCTTTGAGAAGAGATTGC
1 TGCCACTGAATTGTGGAC-TTTAGGACAAAATGCCACTGAGTCACGGGCTTTGAGAAAAGATTGC
* * *
1921341 CACTGAGTCGTGGACTTTAAGAAGGAGA
65 CACTAAGTCATGGACTTTAAGAA-GAAA
*
1921369 TGCCACTGAATTGTGGACTTTAGGACAAAATGCCATTGAGTCACGGGCTTTGAAGAAAAGGA-TG
1 TGCCACTGAATTGTGGACTTTAGGACAAAATGCCACTGAGTCACGGGCTTTG-AGAAAA-GATTG
*
1921433 CCACTAAGTCATGGACTTTGAGACA-AAA
64 CCACTAAGTCATGGACTTTAAGA-AGAAA
*
1921461 TGCCACT-AAGTCGTGGACTTT
1 TGCCACTGAA-TTGTGGACTTT
1921482 GAGAAGAGAT
Statistics
Matches: 97, Mismatches: 12, Indels: 9
0.82 0.10 0.08
Matches are distributed among these distances:
91 2 0.02
92 50 0.52
93 42 0.43
94 3 0.03
ACGTcount: A:0.29, C:0.17, G:0.29, T:0.25
Consensus pattern (91 bp):
TGCCACTGAATTGTGGACTTTAGGACAAAATGCCACTGAGTCACGGGCTTTGAGAAAAGATTGCC
ACTAAGTCATGGACTTTAAGAAGAAA
Found at i:1924025 original size:28 final size:28
Alignment explanation
Indices: 1923993--1924581 Score: 681
Period size: 28 Copynumber: 20.9 Consensus size: 28
1923983 CTTTCATCTC
* * *
1923993 TTCAAAGCCCACAAGTAAGTGGTATCAT
1 TTCAAAGCCCACAAGTCAGTGGCATCCT
1924021 TTCAAAGCCCACAAGTCAGTGGCATCCT
1 TTCAAAGCCCACAAGTCAGTGGCATCCT
1924049 TTCAAAGCCCACAAGTCAGTGGCAT-CT
1 TTCAAAGCCCACAAGTCAGTGGCATCCT
*
1924076 CTTCAAAGCTCACAAGTCAGTGGCATCCT
1 -TTCAAAGCCCACAAGTCAGTGGCATCCT
* * * *
1924105 TTCAAAGTCCAAAAGTTAGTGGCACCCTT
1 TTCAAAGCCCACAAGTCAGTGGCATCC-T
* *
1924134 TTCAAAGCCCACATA-TTAGTGGCATCTT
1 TTCAAAGCCCACA-AGTCAGTGGCATCCT
* *
1924162 TTCAAAGCCCACAAGTCAATGGCACCCT
1 TTCAAAGCCCACAAGTCAGTGGCATCCT
*
1924190 TTCAAAGCCCACAAATCAGTGGCAT-CT
1 TTCAAAGCCCACAAGTCAGTGGCATCCT
1924217 CTTCAAAGCCCACAAGTCAGTGGCATCCT
1 -TTCAAAGCCCACAAGTCAGTGGCATCCT
1924246 TTCAAAGCCCACAAGTCAGTGGCATCCT
1 TTCAAAGCCCACAAGTCAGTGGCATCCT
*
1924274 TTCAAAGCCCACAAGTCAGTGGCATCTTT
1 TTCAAAGCCCACAAGTCAGTGGCATC-CT
*
1924303 TTCAAAGCCCACAAGTGAGTGGCA-CCAT
1 TTCAAAGCCCACAAGTCAGTGGCATCC-T
* *
1924331 TTCAAAGCCTACAAGTCAGTGGCATCTT
1 TTCAAAGCCCACAAGTCAGTGGCATCCT
* * *
1924359 TTCCAAGCTCACAAGTCAGTGGCATCTT
1 TTCAAAGCCCACAAGTCAGTGGCATCCT
* * *
1924387 TTCAAAACCCATAAGTCAGTGGCATCTT
1 TTCAAAGCCCACAAGTCAGTGGCATCCT
1924415 TTCAAAGCCCACAAGTCAGTGGCATCCGT
1 TTCAAAGCCCACAAGTCAGTGGCATCC-T
*
1924444 TT-AACA-CCCACAAGTCAGTGGAATCCT
1 TTCAA-AGCCCACAAGTCAGTGGCATCCT
* *
1924471 CTTAAAAGCCCACAAGTCAGTGGCA-CAT
1 -TTCAAAGCCCACAAGTCAGTGGCATCCT
* * * * *
1924499 GTTCAAAGCACACAATTTAATGG-AACCAT
1 -TTCAAAGCCCACAAGTCAGTGGCATCC-T
* * *
1924528 TTCAAAGCCCATAAGTTAGTGGCATCGT
1 TTCAAAGCCCACAAGTCAGTGGCATCCT
* *
1924556 TTCAAGGCTCACACAAGTCGGTGGCA
1 TTCAAAGC-C-CACAAGTCAGTGGCA
1924582 ATTTTCTCTA
Statistics
Matches: 484, Mismatches: 57, Indels: 38
0.84 0.10 0.07
Matches are distributed among these distances:
27 7 0.01
28 387 0.80
29 77 0.16
30 13 0.03
ACGTcount: A:0.31, C:0.28, G:0.18, T:0.24
Consensus pattern (28 bp):
TTCAAAGCCCACAAGTCAGTGGCATCCT
Found at i:1924247 original size:141 final size:140
Alignment explanation
Indices: 1923993--1924598 Score: 722
Period size: 141 Copynumber: 4.3 Consensus size: 140
1923983 CTTTCATCTC
* * * *
1923993 TTCAAAGCCCACAAGTAAGTGGTATCATTTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCC
1 TTCAAAGCCCACAAGTCAGTGGCATCTTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCC
* * *
1924058 CACAAGTCAGTGGCATCTCTTCAAAGCTCACAAGTCAGTGGCATCCTTTCAAAGTCCAAAAGTTA
66 CACAAGTCAGTGGCATCTCTTCAAAGCTCACAAGTCAGTGGCATCCTTTCAAAGCCCATAAGTCA
1924123 GTGGCACCCTT
131 GTGGCA-CCTT
* *
1924134 TTCAAAGCCCACATA-TTAGTGGCATCTTTTCAAAGCCCACAAGTCAATGGCACCCTTTCAAAGC
1 TTCAAAGCCCACA-AGTCAGTGGCATCTTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGC
* * *
1924198 CCACAAATCAGTGGCATCTCTTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTC
65 CCACAAGTCAGTGGCATCTCTTCAAAGCTCACAAGTCAGTGGCATCCTTTCAAAGCCCATAAGTC
1924263 AGTGGCATCC-T
130 AGTGGCA-CCTT
* *
1924274 TTCAAAGCCCACAAGTCAGTGGCATCTTTTTCAAAGCCCACAAGTGAGTGGCACCATTTCAAAGC
1 TTCAAAGCCCACAAGTCAGTGGCATC-TTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGC
* * * * *
1924339 CTACAAGTCAGTGGCATCTTTTCCAAGCTCACAAGTCAGTGGCATCTTTTCAAAACCCATAAGTC
65 CCACAAGTCAGTGGCATCTCTTCAAAGCTCACAAGTCAGTGGCATCCTTTCAAAGCCCATAAGTC
*
1924404 AGTGGCATCTT
130 AGTGGCACCTT
* * * *
1924415 TTCAAAGCCCACAAGTCAGTGGCATCCGTTT-AACA-CCCACAAGTCAGTGGAATCCTCTTAAAA
1 TTCAAAGCCCACAAGTCAGTGGCAT-CTTTTCAA-AGCCCACAAGTCAGTGGCACCCT-TTCAAA
* * * * * *
1924478 GCCCACAAGTCAGTGGCA-CATGTTCAAAGCACACAATTTAATGG-AACCATTTCAAAGCCCATA
63 GCCCACAAGTCAGTGGCATC-TCTTCAAAGCTCACAAGTCAGTGGCATCC-TTTCAAAGCCCATA
* * *
1924541 AGTTAGTGGCATCGT
126 AGTCAGTGGCACCTT
* *
1924556 TTCAAGGCTCACACAAGTCGGTGGCAAT-TTTCTCTAAAGCCCA
1 TTCAAAGC-C-CACAAGTCAGTGGC-ATCTTT-TC-AAAGCCCA
1924599 TACAAGTTGG
Statistics
Matches: 404, Mismatches: 45, Indels: 28
0.85 0.09 0.06
Matches are distributed among these distances:
139 1 0.00
140 47 0.12
141 328 0.81
142 5 0.01
143 14 0.03
144 3 0.01
145 6 0.01
ACGTcount: A:0.31, C:0.28, G:0.17, T:0.24
Consensus pattern (140 bp):
TTCAAAGCCCACAAGTCAGTGGCATCTTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCC
CACAAGTCAGTGGCATCTCTTCAAAGCTCACAAGTCAGTGGCATCCTTTCAAAGCCCATAAGTCA
GTGGCACCTT
Found at i:1924272 original size:169 final size:169
Alignment explanation
Indices: 1923987--1924581 Score: 711
Period size: 169 Copynumber: 3.5 Consensus size: 169
1923977 CTAGAACTTT
* * *
1923987 CATCTCTTCAAAGCCCACAAGT-AAGTGGTATCATTTCAAAGCCCACAAGTCAGTGGCATC-CTT
1 CATCTTTTCAAAGCCCACAAGTCAA-TGGCACCATTTCAAAGCCCACAAGTCAGTGGCATCTC-T
* *
1924050 TCAAAGCCCACAAGTCAGTGGCAT-CTCTTCAAAGCTCACAAGTCAGTGGCATCCTTTCAAAGTC
64 TCAAAGCCCACAAGTCAGTGGCATCCT-TTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCC
* * * *
1924114 CAAAAGTTAGTGGCACCCTTTTCAAAGCCCACATA-TTAGTGG
128 CACAAGTCAGTGGCATCCTTTTCAAAGCCCACA-AGTCAGTGG
* *
1924156 CATCTTTTCAAAGCCCACAAGTCAATGGCACCCTTTCAAAGCCCACAAATCAGTGGCATCTCTTC
1 CATCTTTTCAAAGCCCACAAGTCAATGGCACCATTTCAAAGCCCACAAGTCAGTGGCATCTCTTC
1924221 AAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCAC
66 AAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCAC
* *
1924286 AAGTCAGTGGCATCTTTTTCAAAGCCCACAAGTGAGTGG
131 AAGTCAGTGGCATCCTTTTCAAAGCCCACAAGTCAGTGG
* * * * * * * * *
1924325 CACCATTTCAAAGCCTACAAGTCAGTGGCATCTTTTCCAAGCTCACAAGTCAGTGGCATCTTTTC
1 CATCTTTTCAAAGCCCACAAGTCAATGGCACCATTTCAAAGCCCACAAGTCAGTGGCATCTCTTC
* * *
1924390 AAAACCCATAAGTCAGTGGCATCTTTTCAAAGCCCACAAGTCAGTGGCATCCGTTT-AACA-CCC
66 AAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTCAGTGGCATCC-TTTCAA-AGCCC
* * *
1924453 ACAAGTCAGTGGAATCCTCTTAAAAGCCCACAAGTCAGTGG
129 ACAAGTCAGTGGCATCCTTTTCAAAGCCCACAAGTCAGTGG
* * * * * * *
1924494 CA-CATGTTCAAAGCACACAATTTAATGGAACCATTTCAAAGCCCATAAGTTAGTGGCATCGT-T
1 CATC-TTTTCAAAGCCCACAAGTCAATGGCACCATTTCAAAGCCCACAAGTCAGTGGCATC-TCT
* *
1924557 TCAAGGCTCACACAAGTCGGTGGCA
64 TCAAAGC-C-CACAAGTCAGTGGCA
1924582 ATTTTCTCTA
Statistics
Matches: 368, Mismatches: 48, Indels: 18
0.85 0.11 0.04
Matches are distributed among these distances:
168 2 0.01
169 342 0.93
170 11 0.03
171 13 0.04
ACGTcount: A:0.30, C:0.28, G:0.17, T:0.24
Consensus pattern (169 bp):
CATCTTTTCAAAGCCCACAAGTCAATGGCACCATTTCAAAGCCCACAAGTCAGTGGCATCTCTTC
AAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCAC
AAGTCAGTGGCATCCTTTTCAAAGCCCACAAGTCAGTGG
Found at i:1926533 original size:33 final size:32
Alignment explanation
Indices: 1926472--1926539 Score: 102
Period size: 33 Copynumber: 2.1 Consensus size: 32
1926462 CCTTAACTGT
*
1926472 TTGTATCGATACATACAAGATGTATCGATACA
1 TTGTACCGATACATACAAGATGTATCGATACA
1926504 TTGTACCGATACATGACCAA-ATGTATCGATACA
1 TTGTACCGATACAT-A-CAAGATGTATCGATACA
1926537 TTG
1 TTG
1926540 GCTTGTAACT
Statistics
Matches: 33, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
32 13 0.39
33 17 0.52
34 3 0.09
ACGTcount: A:0.35, C:0.18, G:0.16, T:0.31
Consensus pattern (32 bp):
TTGTACCGATACATACAAGATGTATCGATACA
Found at i:1934853 original size:20 final size:20
Alignment explanation
Indices: 1934828--1934880 Score: 106
Period size: 20 Copynumber: 2.6 Consensus size: 20
1934818 AAACCCTTAA
1934828 ATGTATCGATACACCTTCAG
1 ATGTATCGATACACCTTCAG
1934848 ATGTATCGATACACCTTCAG
1 ATGTATCGATACACCTTCAG
1934868 ATGTATCGATACA
1 ATGTATCGATACA
1934881 TAATGCACAG
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 33 1.00
ACGTcount: A:0.32, C:0.23, G:0.15, T:0.30
Consensus pattern (20 bp):
ATGTATCGATACACCTTCAG
Found at i:1934914 original size:19 final size:19
Alignment explanation
Indices: 1934869--1934937 Score: 93
Period size: 19 Copynumber: 3.6 Consensus size: 19
1934859 CACCTTCAGA
* *
1934869 TGTATCGATACATAATGCAC
1 TGTATCGATACATGA-CCAC
* *
1934889 AGTATCGATACATGACCAT
1 TGTATCGATACATGACCAC
1934908 TGTATCGATACATGACCAC
1 TGTATCGATACATGACCAC
1934927 TGTATCGATAC
1 TGTATCGATAC
1934938 TTGCAAAGAT
Statistics
Matches: 43, Mismatches: 6, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
19 30 0.70
20 13 0.30
ACGTcount: A:0.33, C:0.22, G:0.16, T:0.29
Consensus pattern (19 bp):
TGTATCGATACATGACCAC
Found at i:1935014 original size:19 final size:20
Alignment explanation
Indices: 1934990--1935041 Score: 81
Period size: 20 Copynumber: 2.6 Consensus size: 20
1934980 CTTAACTGTT
1934990 TGTATCGATACAT-A-CAAGA
1 TGTATCGATACATGACCAA-A
1935009 TGTATCGATACATGACCAAA
1 TGTATCGATACATGACCAAA
1935029 TGTATCGATACAT
1 TGTATCGATACAT
1935042 TGGCTTGTAA
Statistics
Matches: 31, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
19 13 0.42
20 15 0.48
21 3 0.10
ACGTcount: A:0.38, C:0.17, G:0.15, T:0.29
Consensus pattern (20 bp):
TGTATCGATACATGACCAAA
Found at i:1939199 original size:82 final size:82
Alignment explanation
Indices: 1939070--1939465 Score: 384
Period size: 82 Copynumber: 5.0 Consensus size: 82
1939060 TCGAATGAAG
* * *
1939070 ATGAAAAAG-GTTTGACTAGATATAGTCAAACGAGGATGAAAAGATGTTTGACTAGGGCGAGAAC
1 ATGAAAAAGAGTTTGACCAGATACAGTCAAACGATGATGAAAAGATGTTTGACTAGGGCGAGAAC
**
1939134 CATCGTGTCAAATAGTA
66 CATTATGTCAAATAGTA
* * *
1939151 AT-AAAAAGGAGTTTGACCAGATATAGTCAAACGATGATG-AAAGAATGTTTGATTAGGGCAAGA
1 ATGAAAAA-GAGTTTGACCAGATACAGTCAAACGATGATGAAAAG-ATGTTTGACTAGGGCGAGA
*
1939214 ACCATTACGTCAAATAGTA
64 ACCATTATGTCAAATAGTA
* * * *
1939233 ATGAAAAAGAGTTTGACCAGATACAGTCAAATGATAATGAAAATATGTTTGACCAGGGCGAGAAC
1 ATGAAAAAGAGTTTGACCAGATACAGTCAAACGATGATGAAAAGATGTTTGACTAGGGCGAGAAC
* *
1939298 TATTATGTCAAACAGTA
66 CATTATGTCAAATAGTA
* * * * *
1939315 ATGAAAAAGAGTTTGACCAGATACAGT----C-A--ATGAAAAGATATTTGACCAAGGCAAAAAC
1 ATGAAAAAGAGTTTGACCAGATACAGTCAAACGATGATGAAAAGATGTTTGACTAGGGCGAGAAC
* * * * *
1939373 CATCACGTTAAACAATA
66 CATTATGTCAAATAGTA
* * * * * * *
1939390 ACG-AAAAGATTTTGACCAGAT-TAGTCAAATGATAATGAAAAGATGTTTGATTAGGGCAAGAAC
1 ATGAAAAAGAGTTTGACCAGATACAGTCAAACGATGATGAAAAGATGTTTGACTAGGGCGAGAAC
**
1939453 CACCATGTCAAAT
66 CATTATGTCAAAT
1939466 GGGGTGAAAT
Statistics
Matches: 262, Mismatches: 41, Indels: 25
0.80 0.12 0.08
Matches are distributed among these distances:
73 3 0.01
74 17 0.06
75 38 0.15
77 1 0.00
78 1 0.00
80 38 0.15
81 7 0.03
82 149 0.57
83 8 0.03
ACGTcount: A:0.43, C:0.13, G:0.21, T:0.23
Consensus pattern (82 bp):
ATGAAAAAGAGTTTGACCAGATACAGTCAAACGATGATGAAAAGATGTTTGACTAGGGCGAGAAC
CATTATGTCAAATAGTA
Found at i:1939580 original size:47 final size:46
Alignment explanation
Indices: 1939511--1939854 Score: 237
Period size: 47 Copynumber: 7.4 Consensus size: 46
1939501 CGTCATACGG
* * * * *
1939511 AGTTTGACCAGGTCTTATTGCCAATACAGTTAGACAAGGGGAAAAAA
1 AGTTTGACCAAGTCCTAATGCCAATACAGTCAAACAAGGGG-AAAAA
* * **
1939558 AGTTTGACCAAGTCCTAATGCCAATATAGTGAAACAAAGATGAAAAA
1 AGTTTGACCAAGTCCTAATGCCAATACAGTCAAAC-AAGGGGAAAAA
* * * ** *
1939605 AGTTTGACCATGACC-AATGCCAATACAGTCAAATGAAGATGAAAAG
1 AGTTTGACCAAGTCCTAATGCCAATACAGTCAAA-CAAGGGGAAAAA
** * * ** *
1939651 AGTTTGACC-AGGACTAATGCCAATATAGCCAAATGAGGGTAAAAA
1 AGTTTGACCAAGTCCTAATGCCAATACAGTCAAACAAGGGGAAAAA
* *
1939696 GAGTTTGACCAGGTCCTAATGCCAATACAG-CAAATAAGGGTGAAAAA
1 -AGTTTGACCAAGTCCTAATGCCAATACAGTCAAACAAGGG-GAAAAA
** * * * ** *
1939743 AGTTTGACCAAGTCCTAACACCAATATAGTCAAATGATGATGAAAAG
1 AGTTTGACCAAGTCCTAATGCCAATACAGTCAAA-CAAGGGGAAAAA
* * * * * *
1939790 AGTTTAACCATGTTCTAATGCCAATACAGCCAAATAATGGTGG-AAAG
1 AGTTTGACCAAGTCCTAATGCCAATACAGTCAAACAA-GG-GGAAAAA
*
1939837 AGTTTGACCAGGTCCTAA
1 AGTTTGACCAAGTCCTAA
1939855 CACTAATACA
Statistics
Matches: 233, Mismatches: 54, Indels: 20
0.76 0.18 0.07
Matches are distributed among these distances:
45 8 0.03
46 95 0.41
47 123 0.53
48 7 0.03
ACGTcount: A:0.41, C:0.17, G:0.20, T:0.22
Consensus pattern (46 bp):
AGTTTGACCAAGTCCTAATGCCAATACAGTCAAACAAGGGGAAAAA
Found at i:1939627 original size:46 final size:46
Alignment explanation
Indices: 1939553--1939799 Score: 192
Period size: 46 Copynumber: 5.3 Consensus size: 46
1939543 GACAAGGGGA
* *
1939553 AAAAAAGTTTGACCAAGTCCTAATGCCAATATAGTGAAACAAAGATG
1 AAAAAAGTTTGACCAAGACC-AATGCCAATATAGTCAAACAAAGATG
* * **
1939600 AAAAAAGTTTGACCATGACCAATGCCAATACAGTCAAATGAAGATG
1 AAAAAAGTTTGACCAAGACCAATGCCAATATAGTCAAACAAAGATG
* * * * ** * *
1939646 AAAAGAGTTTGACCAGGACTAATGCCAATATAGCCAAATGAGGGT-
1 AAAAAAGTTTGACCAAGACCAATGCCAATATAGTCAAACAAAGATG
* * * * * *
1939691 AAAAAGAGTTTGACCAGGTCCTAATGCCAATACAG-CAAATAAGGGTG
1 AAAAA-AGTTTGACCAAGACC-AATGCCAATATAGTCAAACAAAGATG
* ** ** *
1939738 AAAAAAGTTTGACCAAGTCCTAACACCAATATAGTCAAATGATGATG
1 AAAAAAGTTTGACCAAGACC-AATGCCAATATAGTCAAACAAAGATG
* *
1939785 AAAAGAGTTTAACCA
1 AAAAAAGTTTGACCA
1939800 TGTTCTAATG
Statistics
Matches: 169, Mismatches: 27, Indels: 8
0.83 0.13 0.04
Matches are distributed among these distances:
45 4 0.02
46 108 0.64
47 57 0.34
ACGTcount: A:0.44, C:0.16, G:0.19, T:0.21
Consensus pattern (46 bp):
AAAAAAGTTTGACCAAGACCAATGCCAATATAGTCAAACAAAGATG
Found at i:1939717 original size:93 final size:94
Alignment explanation
Indices: 1939510--1940033 Score: 379
Period size: 93 Copynumber: 5.6 Consensus size: 94
1939500 ACGTCATACG
* * * * * *
1939510 GAGTTTGACCAGGTCTTATTGCCAATACAGTTAGACAAGGG-GAAAAAAAGTTTGACCAAGTCCT
1 GAGTTTGACCAGGTCCTAATGCCAATACAGTCAAATAAGGGTG-AAAAAAGTTTGACCAAGGCCT
* **
1939574 AATGCCAATATAGTGAAACAAAGATGAAAAA
65 AATGCCAATATAGTCAAATGAAGAT-AAAAA
* * * * *
1939605 -AGTTTGACCATGACC-AATGCCAATACAGTCAAATGAA-GATGAAAAGAGTTTGACC-AGGACT
1 GAGTTTGACCAGGTCCTAATGCCAATACAGTCAAAT-AAGGGTGAAAAAAGTTTGACCAAGGCCT
* * *
1939666 AATGCCAATATAGCCAAATGAGGGTAAAAA
65 AATGCCAATATAGTCAAATGAAGATAAAAA
*
1939696 GAGTTTGACCAGGTCCTAATGCCAATACAG-CAAATAAGGGTGAAAAAAGTTTGACCAAGTCCTA
1 GAGTTTGACCAGGTCCTAATGCCAATACAGTCAAATAAGGGTGAAAAAAGTTTGACCAAGGCCTA
** * *
1939760 ACACCAATATAGTCAAATGATGATGAAAA
66 ATGCCAATATAGTCAAATGAAGATAAAAA
* * * * * * *
1939789 GAGTTTAACCATGTTCTAATGCCAATACAGCCAAATAATGGTGGAAAGAGTTTGACC-AGGTCCT
1 GAGTTTGACCAGGTCCTAATGCCAATACAGTCAAATAAGGGTGAAAAAAGTTTGACCAAGG-CCT
** * * * * **
1939853 AACACTAATACAGTTAAACGACA-ATGTAAA
65 AATGCCAATATAGTCAAATGA-AGATAAAAA
* * * * * ** * *
1939883 GAGTTTAACTAGG-ACTAACGCCAATACAGCCAAAGGAGAGT-AAAAAGAGTTTGACC-AGGTCT
1 GAGTTTGACCAGGTCCTAATGCCAATACAGTCAAATAAGGGTGAAAAA-AGTTTGACCAAGGCCT
* *
1939945 AAACGCCAATATAGTCAAATGATGATGAAAAA
65 -AATGCCAATATAGTCAAATGAAGAT-AAAAA
** * * ** * * *
1939977 -AGTTTGACTTGGTCCTAACGCTAATGTAGCCAAACAATGGTGAAAAAAGTTTGACCA
1 GAGTTTGACCAGGTCCTAATGCCAATACAGTCAAATAAGGGTGAAAAAAGTTTGACCA
1940034 GGTTTTAATG
Statistics
Matches: 342, Mismatches: 71, Indels: 32
0.77 0.16 0.07
Matches are distributed among these distances:
91 7 0.02
92 62 0.18
93 161 0.47
94 107 0.31
95 5 0.01
ACGTcount: A:0.41, C:0.17, G:0.20, T:0.22
Consensus pattern (94 bp):
GAGTTTGACCAGGTCCTAATGCCAATACAGTCAAATAAGGGTGAAAAAAGTTTGACCAAGGCCTA
ATGCCAATATAGTCAAATGAAGATAAAAA
Found at i:1939863 original size:47 final size:47
Alignment explanation
Indices: 1939553--1940036 Score: 341
Period size: 47 Copynumber: 10.4 Consensus size: 47
1939543 GACAAGGGGA
* * * * ** ** * *
1939553 AAAAAAGTTTGACCAAGTCCTAATGCCAATATAGTGAAACAAAGATG
1 AAAAGAGTTTGACCAGGTCCTAACGCCAATACAGCCAAATGATGGTG
* * * * * * *
1939600 AAAAAAGTTTGACCATGACC-AATGCCAATACAGTCAAATGAAGATG
1 AAAAGAGTTTGACCAGGTCCTAACGCCAATACAGCCAAATGATGGTG
* * * * *
1939646 AAAAGAGTTTGACCAGG-ACTAATGCCAATATAGCCAAATGAGGGTA
1 AAAAGAGTTTGACCAGGTCCTAACGCCAATACAGCCAAATGATGGTG
* * *
1939692 AAAAGAGTTTGACCAGGTCCTAATGCCAATACAG-CAAATAAGGGTG
1 AAAAGAGTTTGACCAGGTCCTAACGCCAATACAGCCAAATGATGGTG
* * * * * *
1939738 AAAAAAGTTTGACCAAGTCCTAACACCAATATAGTCAAATGATGATG
1 AAAAGAGTTTGACCAGGTCCTAACGCCAATACAGCCAAATGATGGTG
* * * * *
1939785 AAAAGAGTTTAACCATGTTCTAATGCCAATACAGCCAAATAATGGTG
1 AAAAGAGTTTGACCAGGTCCTAACGCCAATACAGCCAAATGATGGTG
* * * ** * ***
1939832 GAAAGAGTTTGACCAGGTCCTAACACTAATACAGTTAAACGACAATG
1 AAAAGAGTTTGACCAGGTCCTAACGCCAATACAGCCAAATGATGGTG
* * * * * *
1939879 TAAAGAGTTTAACTAGG-ACTAACGCCAATACAGCCAAAGGA-GAGTA
1 AAAAGAGTTTGACCAGGTCCTAACGCCAATACAGCCAAATGATG-GTG
* * *
1939925 AAAAGAGTTTGACCAGGT-CTAAACGCCAATATAGTCAAATGATGATG
1 AAAAGAGTTTGACCAGGTCCT-AACGCCAATACAGCCAAATGATGGTG
* ** * ** **
1939972 AAAAAAGTTTGACTTGGTCCTAACGCTAATGTAGCCAAACAATGGTG
1 AAAAGAGTTTGACCAGGTCCTAACGCCAATACAGCCAAATGATGGTG
*
1940019 AAAAAAGTTTGACCAGGT
1 AAAAGAGTTTGACCAGGT
1940037 TTTAATGCTA
Statistics
Matches: 348, Mismatches: 81, Indels: 16
0.78 0.18 0.04
Matches are distributed among these distances:
45 1 0.00
46 149 0.43
47 195 0.56
48 3 0.01
ACGTcount: A:0.42, C:0.17, G:0.20, T:0.22
Consensus pattern (47 bp):
AAAAGAGTTTGACCAGGTCCTAACGCCAATACAGCCAAATGATGGTG
Found at i:1939901 original size:140 final size:138
Alignment explanation
Indices: 1939553--1940030 Score: 404
Period size: 140 Copynumber: 3.4 Consensus size: 138
1939543 GACAAGGGGA
* * * * * * * *
1939553 AAAAAAGTTTGACCAAGTCCTAATGCCAATATAGTGAAACAA-AGATGAAAAAAGTTTG-ACCAT
1 AAAAGAGTTTGACCAGGTCCTAACGCTAATACAG-CAAACAACA-ATGAAAAAAGTTTGAACAAG
* ** *
1939616 GACCAATGCCAATACAGTCAAATGAAGATGAAAAGAGTTTGACCAGGACTAATGCCAATATAGCC
64 GACTAACACCAATACAGTCAAATG-AGATGAAAAGAGTTTGACCAGGTCTAATGCCAATATAGCC
* *
1939681 AAATGAGGGTA
128 AAATGATGGTG
* * * *** * **
1939692 AAAAGAGTTTGACCAGGTCCTAATGCCAATACAGCAAATAAGGGTGAAAAAAGTTTGACCAAGTC
1 AAAAGAGTTTGACCAGGTCCTAACGCTAATACAGCAAACAACAATGAAAAAAGTTTGAACAAGGA
* * * *
1939757 CTAACACCAATATAGTCAAATGATGATGAAAAGAGTTTAACCATGTTCTAATGCCAATACAGCCA
66 CTAACACCAATACAGTCAAATGA-GATGAAAAGAGTTTGACCA-GGTCTAATGCCAATATAGCCA
*
1939822 AATAATGGTG
129 AATGATGGTG
* * * * * * *
1939832 GAAAGAGTTTGACCAGGTCCTAACACTAATACAGTTAAACGACAATGTAAAGAGTTT-AACTAGG
1 AAAAGAGTTTGACCAGGTCCTAACGCTAATACAG-CAAACAACAATGAAAAAAGTTTGAACAAGG
* * * * * *
1939896 ACTAACGCCAATACAGCCAAAGGAGAGTAAAAAGAGTTTGACCAGGTCTAAACGCCAATATAGTC
65 ACTAACACCAATACAGTCAAATGAGA-TGAAAAGAGTTTGACCAGGTCT-AATGCCAATATAGCC
*
1939961 AAATGATGATG
128 AAATGATGGTG
* ** ** ***
1939972 AAAAAAGTTTGACTTGGTCCTAACGCTAATGTAGCCAAACAATGGTGAAAAAAGTTTGA
1 AAAAGAGTTTGACCAGGTCCTAACGCTAATACAG-CAAACAACAATGAAAAAAGTTTGA
1940031 CCAGGTTTTA
Statistics
Matches: 265, Mismatches: 66, Indels: 14
0.77 0.19 0.04
Matches are distributed among these distances:
138 19 0.07
139 75 0.28
140 156 0.59
141 15 0.06
ACGTcount: A:0.42, C:0.16, G:0.20, T:0.22
Consensus pattern (138 bp):
AAAAGAGTTTGACCAGGTCCTAACGCTAATACAGCAAACAACAATGAAAAAAGTTTGAACAAGGA
CTAACACCAATACAGTCAAATGAGATGAAAAGAGTTTGACCAGGTCTAATGCCAATATAGCCAAA
TGATGGTG
Found at i:1939970 original size:187 final size:187
Alignment explanation
Indices: 1939553--1940060 Score: 456
Period size: 187 Copynumber: 2.7 Consensus size: 187
1939543 GACAAGGGGA
** * ** * *
1939553 AAAAAAGTTTGACCAAGTCCTAATGCCAATATAGTGAAACAAAGATGAAAAAAGTTTGACCAT-G
1 AAAAAAGTTTGACCAAGTCCTAACACCAATATAGTCAAATGATGATGAAAAAAGTTT-AACATGG
* * * * * * * ** * *
1939617 ACC-AATGCCAATACAGTCAAATGAA-GATGAAAAGAGTTTGACCAGG-ACTAATGCCAATATAG
65 TCCTAACGCCAATACAGCCAAA-CAATGGTGAAAAAAGTTTGACCAGGTCCTAACACTAATACAG
** * *** ** * * * * *
1939679 CCAAATGAGGGTAAAAAGAGTTTGACCAGGTCCTAATGCCAATACAGCAAATAAGGGTG
129 TTAAACGACAATGTAAAGAGTTTAACCAGGTACTAACGCCAATACAGCAAAGAAGAGTG
*
1939738 AAAAAAGTTTGACCAAGTCCTAACACCAATATAGTCAAATGATGATGAAAAGAGTTTAACCAT-G
1 AAAAAAGTTTGACCAAGTCCTAACACCAATATAGTCAAATGATGATGAAAAAAGTTTAA-CATGG
* * * * *
1939802 TTCTAATGCCAATACAGCCAAATAATGGTGGAAAGAGTTTGACCAGGTCCTAACACTAATACAGT
65 TCCTAACGCCAATACAGCCAAACAATGGTGAAAAAAGTTTGACCAGGTCCTAACACTAATACAGT
* *
1939867 TAAACGACAATGTAAAGAGTTTAACTAGG-ACTAACGCCAATACAGCCAAAGGAGAGT-
130 TAAACGACAATGTAAAGAGTTTAACCAGGTACTAACGCCAATACAG-CAAAGAAGAGTG
* * * *
1939924 AAAAAGAGTTTGACCAGGT-CTAAACGCCAATATAGTCAAATGATGATGAAAAAAGTTTGACTTG
1 AAAAA-AGTTTGACCAAGTCCT-AACACCAATATAGTCAAATGATGATGAAAAAAGTTTAACATG
* ** ** **
1939988 GTCCTAACGCTAATGTAGCCAAACAATGGTGAAAAAAGTTTGACCAGGTTTTAATGCTAATACAG
64 GTCCTAACGCCAATACAGCCAAACAATGGTGAAAAAAGTTTGACCAGGTCCTAACACTAATACAG
1940053 TTAAACGA
129 TTAAACGA
1940061 AGAAAAACTT
Statistics
Matches: 264, Mismatches: 51, Indels: 14
0.80 0.16 0.04
Matches are distributed among these distances:
184 1 0.00
185 57 0.22
186 59 0.22
187 147 0.56
ACGTcount: A:0.42, C:0.16, G:0.19, T:0.22
Consensus pattern (187 bp):
AAAAAAGTTTGACCAAGTCCTAACACCAATATAGTCAAATGATGATGAAAAAAGTTTAACATGGT
CCTAACGCCAATACAGCCAAACAATGGTGAAAAAAGTTTGACCAGGTCCTAACACTAATACAGTT
AAACGACAATGTAAAGAGTTTAACCAGGTACTAACGCCAATACAGCAAAGAAGAGTG
Found at i:1940130 original size:30 final size:29
Alignment explanation
Indices: 1940048--1940146 Score: 108
Period size: 30 Copynumber: 3.3 Consensus size: 29
1940038 TTAATGCTAA
* * *
1940048 TACAGTTAAACGAAGAAAAACTTGATCGAA
1 TACAGTCAAACGAAG-AAAATTTGATCGAG
1940078 TACAGTCAAACGAGAGAAAATTTGATCGAG
1 TACAGTCAAACGA-AGAAAATTTGATCGAG
* * *
1940108 TACAGTCTAAGGAAGAAGAATTTGACCGAG
1 TACAGTCAAACGAAGAA-AATTTGATCGAG
*
1940138 TATAGTCAA
1 TACAGTCAA
1940147 GCAACGGCGA
Statistics
Matches: 59, Mismatches: 8, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
29 4 0.07
30 53 0.90
31 2 0.03
ACGTcount: A:0.44, C:0.13, G:0.21, T:0.21
Consensus pattern (29 bp):
TACAGTCAAACGAAGAAAATTTGATCGAG
Found at i:1941526 original size:9 final size:10
Alignment explanation
Indices: 1941511--1941554 Score: 51
Period size: 9 Copynumber: 4.8 Consensus size: 10
1941501 CTTGTTTTTA
1941511 TTTTCATTTC
1 TTTTCATTTC
1941521 -TTTCA-TTC
1 TTTTCATTTC
*
1941529 TTTTCTTTTC
1 TTTTCATTTC
1941539 TTTTC-TTT-
1 TTTTCATTTC
1941547 TTTTCATT
1 TTTTCATT
1941555 GTAGACACCT
Statistics
Matches: 30, Mismatches: 1, Indels: 7
0.79 0.03 0.18
Matches are distributed among these distances:
8 8 0.27
9 14 0.47
10 8 0.27
ACGTcount: A:0.07, C:0.18, G:0.00, T:0.75
Consensus pattern (10 bp):
TTTTCATTTC
Found at i:1942856 original size:13 final size:13
Alignment explanation
Indices: 1942838--1942863 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1942828 CAATTTTTTG
1942838 TGTATCGATACAT
1 TGTATCGATACAT
1942851 TGTATCGATACAT
1 TGTATCGATACAT
1942864 ACTTGCTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1943601 original size:16 final size:15
Alignment explanation
Indices: 1943576--1943605 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
1943566 ATCCTTTAGC
1943576 AAAAAAAAAAAACAA
1 AAAAAAAAAAAACAA
1943591 AAAACAAAAAAAACA
1 AAAA-AAAAAAAACA
1943606 CTATTCCATT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 4 0.29
16 10 0.71
ACGTcount: A:0.90, C:0.10, G:0.00, T:0.00
Consensus pattern (15 bp):
AAAAAAAAAAAACAA
Found at i:1945405 original size:51 final size:52
Alignment explanation
Indices: 1945344--1945464 Score: 165
Period size: 51 Copynumber: 2.3 Consensus size: 52
1945334 AATTCTCCGC
* * * * *
1945344 AATCGAGGATATTCCCACTCCGATTTTATTTTCAAAACT-CTAATTT-TCTAT
1 AATCGGGGATACTCCAACTCCGATTTTATTTCCAAAAATACTAATTTCTC-AT
*
1945395 AATCGGGGATACTCCAACTCCGATTTTATTTCCAAAAATATTAATTTCTCAT
1 AATCGGGGATACTCCAACTCCGATTTTATTTCCAAAAATACTAATTTCTCAT
1945447 AATCGGGGATACTCCAAC
1 AATCGGGGATACTCCAAC
1945465 CCCGTTCTTT
Statistics
Matches: 62, Mismatches: 6, Indels: 3
0.87 0.08 0.04
Matches are distributed among these distances:
51 34 0.55
52 26 0.42
53 2 0.03
ACGTcount: A:0.31, C:0.22, G:0.11, T:0.36
Consensus pattern (52 bp):
AATCGGGGATACTCCAACTCCGATTTTATTTCCAAAAATACTAATTTCTCAT
Found at i:1945501 original size:80 final size:78
Alignment explanation
Indices: 1945400--1945684 Score: 344
Period size: 79 Copynumber: 3.6 Consensus size: 78
1945390 TCTATAATCG
1945400 GGGATACTCCAACTCCGATTTTATTTCCAAAAATATTAATTTCTCATAATCGGGGATACTCCAAC
1 GGGATACTCCAAC-CCGATTTTATTTCC-AAAATATTAATTTCTCATAATCGGGGATACTCCAAC
*
1945465 CCCGTTCTTTCCAGA
64 CCCGTTATTTCCAGA
* *
1945480 GGGATACTCCAACCCTGATTTTATTTCTAAAATATTAATTTCTCATAATCGGGGATACTCTAACC
1 GGGATACTCCAACCC-GATTTTATTTCCAAAATATTAATTTCTCATAATCGGGGATACTCCAACC
1945545 CCGTTATTTCC-GA
65 CCGTTATTTCCAGA
* * * * *
1945558 GGAGATACTCCAATCCCGATTTTATTTCC-TAATCATTGATTTTTCACAACCGGGGATACTCCAA
1 GG-GATACTCCAA-CCCGATTTTATTTCCAAAAT-ATTAATTTCTCATAATCGGGGATACTCCAA
*
1945622 CCCCGTTATTTTCA-A
63 CCCCGTTATTTCCAGA
* * *
1945637 GGGGACATTCCAACCCCG-TTATTATCTCCAAAATATTAAATTTCTCAT
1 -GGGATACTCCAA-CCCGATT-TTATTTCCAAAATATT-AATTTCTCAT
1945685 CGGGAAATAT
Statistics
Matches: 177, Mismatches: 19, Indels: 18
0.83 0.09 0.08
Matches are distributed among these distances:
78 9 0.05
79 129 0.73
80 39 0.22
ACGTcount: A:0.28, C:0.25, G:0.12, T:0.34
Consensus pattern (78 bp):
GGGATACTCCAACCCGATTTTATTTCCAAAATATTAATTTCTCATAATCGGGGATACTCCAACCC
CGTTATTTCCAGA
Found at i:1946704 original size:28 final size:29
Alignment explanation
Indices: 1946668--1946749 Score: 116
Period size: 28 Copynumber: 2.9 Consensus size: 29
1946658 ATTTTTCACA
* *
1946668 ATCGAGGATACTCCAACCTCATTATTTC-
1 ATCGGGGATACTCCAACCCCATTATTTCG
1946696 ATCGGGGATACTCCAACCCCATTATCTTCG
1 ATCGGGGATACTCCAACCCCATTAT-TTCG
1946726 A--GGGGATACTCCAACCCCATTATT
1 ATCGGGGATACTCCAACCCCATTATT
1946750 ATCTCCAAAA
Statistics
Matches: 50, Mismatches: 2, Indels: 5
0.88 0.04 0.09
Matches are distributed among these distances:
27 1 0.02
28 45 0.90
29 3 0.06
30 1 0.02
ACGTcount: A:0.27, C:0.30, G:0.15, T:0.28
Consensus pattern (29 bp):
ATCGGGGATACTCCAACCCCATTATTTCG
Found at i:1947794 original size:28 final size:29
Alignment explanation
Indices: 1947758--1947839 Score: 116
Period size: 28 Copynumber: 2.9 Consensus size: 29
1947748 ATTTTTCACA
* *
1947758 ATCGAGGATACTCCAACCTCATTATTTC-
1 ATCGGGGATACTCCAACCCCATTATTTCG
1947786 ATCGGGGATACTCCAACCCCATTATCTTCG
1 ATCGGGGATACTCCAACCCCATTAT-TTCG
1947816 A--GGGGATACTCCAACCCCATTATT
1 ATCGGGGATACTCCAACCCCATTATT
1947840 ATCTCCAAAA
Statistics
Matches: 50, Mismatches: 2, Indels: 5
0.88 0.04 0.09
Matches are distributed among these distances:
27 1 0.02
28 45 0.90
29 3 0.06
30 1 0.02
ACGTcount: A:0.27, C:0.30, G:0.15, T:0.28
Consensus pattern (29 bp):
ATCGGGGATACTCCAACCCCATTATTTCG
Found at i:1948885 original size:28 final size:29
Alignment explanation
Indices: 1948849--1948930 Score: 116
Period size: 28 Copynumber: 2.9 Consensus size: 29
1948839 ATTTTTCACA
* *
1948849 ATCGAGGATACTCCAACCTCATTATTTC-
1 ATCGGGGATACTCCAACCCCATTATTTCG
1948877 ATCGGGGATACTCCAACCCCATTATCTTCG
1 ATCGGGGATACTCCAACCCCATTAT-TTCG
1948907 A--GGGGATACTCCAACCCCATTATT
1 ATCGGGGATACTCCAACCCCATTATT
1948931 ATCTCCAAAA
Statistics
Matches: 50, Mismatches: 2, Indels: 5
0.88 0.04 0.09
Matches are distributed among these distances:
27 1 0.02
28 45 0.90
29 3 0.06
30 1 0.02
ACGTcount: A:0.27, C:0.30, G:0.15, T:0.28
Consensus pattern (29 bp):
ATCGGGGATACTCCAACCCCATTATTTCG
Found at i:1955950 original size:24 final size:24
Alignment explanation
Indices: 1955914--1955973 Score: 68
Period size: 24 Copynumber: 2.5 Consensus size: 24
1955904 TTTGGTAAGA
* *
1955914 TTGATTTTCATTTA-ACTTGATAAT
1 TTGATTTTTATTTATA-TTAATAAT
1955938 TTGATTTTTATTTATATTAATAAT
1 TTGATTTTTATTTATATTAATAAT
* *
1955962 TTTACTTTTATT
1 TTGATTTTTATT
1955974 AATCGCTTGT
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
24 30 0.97
25 1 0.03
ACGTcount: A:0.28, C:0.05, G:0.05, T:0.62
Consensus pattern (24 bp):
TTGATTTTTATTTATATTAATAAT
Found at i:1962716 original size:14 final size:14
Alignment explanation
Indices: 1962697--1962738 Score: 59
Period size: 14 Copynumber: 3.0 Consensus size: 14
1962687 CATGGCAATT
*
1962697 GTAAAAAAAAAAAG
1 GTAAAAAAAAAAAA
1962711 GTAAAAAAAAAAAA
1 GTAAAAAAAAAAAA
1962725 G-AAAAAGAAAAAAA
1 GTAAAAA-AAAAAAA
1962739 AACAGAAAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
13 5 0.19
14 21 0.81
ACGTcount: A:0.83, C:0.00, G:0.12, T:0.05
Consensus pattern (14 bp):
GTAAAAAAAAAAAA
Found at i:1962719 original size:15 final size:13
Alignment explanation
Indices: 1962699--1962752 Score: 56
Period size: 14 Copynumber: 4.0 Consensus size: 13
1962689 TGGCAATTGT
*
1962699 AAAAAAAAAAAGG
1 AAAAAAAAAAAAG
1962712 TAAAAAAAAAAAAG
1 -AAAAAAAAAAAAG
1962726 AAAAAGAAAAAAA-
1 AAAAA-AAAAAAAG
*
1962739 AACAGAAAAAAAAG
1 AA-AAAAAAAAAAG
1962753 TGAAGATTTG
Statistics
Matches: 35, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
13 14 0.40
14 21 0.60
ACGTcount: A:0.85, C:0.02, G:0.11, T:0.02
Consensus pattern (13 bp):
AAAAAAAAAAAAG
Found at i:1962729 original size:12 final size:12
Alignment explanation
Indices: 1962713--1962751 Score: 53
Period size: 12 Copynumber: 3.3 Consensus size: 12
1962703 AAAAAAAGGT
1962713 AAAAAAA-AAAA
1 AAAAAAAGAAAA
*
1962724 AGAAAAAGAAAA
1 AAAAAAAGAAAA
*
1962736 AAAAACAGAAAA
1 AAAAAAAGAAAA
1962748 AAAA
1 AAAA
1962752 GTGAAGATTT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
11 6 0.25
12 18 0.75
ACGTcount: A:0.90, C:0.03, G:0.08, T:0.00
Consensus pattern (12 bp):
AAAAAAAGAAAA
Found at i:1962735 original size:18 final size:18
Alignment explanation
Indices: 1962714--1962748 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
1962704 AAAAAAGGTA
1962714 AAAAAAAAAAAGAAAAAG
1 AAAAAAAAAAAGAAAAAG
*
1962732 AAAAAAAAACAGAAAAA
1 AAAAAAAAAAAGAAAAA
1962749 AAAGTGAAGA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.89, C:0.03, G:0.09, T:0.00
Consensus pattern (18 bp):
AAAAAAAAAAAGAAAAAG
Found at i:1964717 original size:24 final size:24
Alignment explanation
Indices: 1964671--1964720 Score: 66
Period size: 24 Copynumber: 2.1 Consensus size: 24
1964661 TTTGGTAAGA
*
1964671 TTGATTTTCATTTAACTTGATAAT
1 TTGATTTTCATTTAACTTAATAAT
*
1964695 TTGATTTTTATTTATA-TTAATAAT
1 TTGATTTTCATTTA-ACTTAATAAT
1964719 TT
1 TT
1964721 TACTTCTATT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
24 22 0.96
25 1 0.04
ACGTcount: A:0.30, C:0.04, G:0.06, T:0.60
Consensus pattern (24 bp):
TTGATTTTCATTTAACTTAATAAT
Found at i:1971612 original size:17 final size:17
Alignment explanation
Indices: 1971590--1971623 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
1971580 ATTCTTTTTT
1971590 CAAAAAAAAACAAAAAA
1 CAAAAAAAAACAAAAAA
*
1971607 CAAAAAACAACAAAAAA
1 CAAAAAAAAACAAAAAA
1971624 ATTAAAAAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.85, C:0.15, G:0.00, T:0.00
Consensus pattern (17 bp):
CAAAAAAAAACAAAAAA
Found at i:1972893 original size:55 final size:54
Alignment explanation
Indices: 1972606--1973376 Score: 810
Period size: 55 Copynumber: 13.4 Consensus size: 54
1972596 CTCCTTCCGC
* *
1972606 TTTTTAGTCCTCAAAGAGCAGGATGCCTTTTTCTTTTAAAGCCCACACAAGTTGGTGGCA
1 TTTTCAGTCCTCAAAGAGCAGGACGCC--TTTC----AAAGCCCACACAAGTTGGTGGCA
** * * * *
1972666 CCTTCAGTCCTCAAAAAGCAGGATGATTTTCTTTTCAAAACCCACACAAGTTGGTGGCA
1 TTTTCAGTCCTCAAAGAGCAGGACG-----CCTTTCAAAGCCCACACAAGTTGGTGGCA
1972725 TTTTCCAGTCCTCAAAGAGCAGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCA
1 TTTT-CAGTCCTCAAAGAGCAGGACGCC-TTTC----AAAGCCCACACAAGTTGGTGGCA
**
1972785 CCTTCAGTCCTCAAAGAGCAGGACGCATTCTCCTTTCAAAGCCCACACAAGTTGGTGGCA
1 TTTTCAGTCCTCAAAGAGCAGGACG------CCTTTCAAAGCCCACACAAGTTGGTGGCA
*
1972845 TTTTCCAGTCCTCAAAGAGCAGGATGCCTTTCAAAGCCCACACAAGTTGGTGGCA
1 TTTT-CAGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCA
*
1972900 TTTTCTAGTCCTCAAAGAGCAGGATGCTTTTTCTTTTCAAAGCCCACACAAGTTGGTGGCA
1 TTTTC-AGTCCTCAAAGAGCAGGACGC-----C-TTTCAAAGCCCACACAAGTTGGTGGCA
* * *
1972961 CCTTTCAGTCCCCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCA
1 -TTTTCAGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCA
* *
1973016 TTTTCCAGTCCTCAAAGAGCAGGACACCTCTT-AAAGCCCACACGAGTTGGTGGCA
1 TTTT-CAGTCCTCAAAGAGCAGGACGCCT-TTCAAAGCCCACACAAGTTGGTGGCA
* *
1973071 CCTTTCAGTCCTCAAAGAGCAGGATGCTTTTTCTTTTCAAAGCCCACACAAGTTGGTGGCA
1 -TTTTCAGTCCTCAAAGAGCAGGACGC-----C-TTTCAAAGCCCACACAAGTTGGTGGCA
* * *
1973132 CCTTTT-AGTCCCCAAAGAGTAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCA
1 --TTTTCAGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCA
* * *
1973187 TTTTCCAATCCTCAAAGAGCAGGACACCTCTT-AAAGCCTACACAAGTTGGTGGCA
1 TTTT-CAGTCCTCAAAGAGCAGGACGCCT-TTCAAAGCCCACACAAGTTGGTGGCA
* *
1973242 CCTTTCAGTCCTCAAAGAGCAAGACGCCTTTCAAAGCCCACACAAGTTGGTGGCA
1 -TTTTCAGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCA
* *
1973297 CCTTTCAGTCCTCAAAAGAGCAGGACGCCTTTCAAAGCCCACACGAGTTGGTGGCA
1 -TTTTCAGTCCTC-AAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCA
*
1973353 CTTTTTAGTCCTCAAAGAGCAGGA
1 -TTTTCAGTCCTCAAAGAGCAGGA
1973377 TACACTTTAT
Statistics
Matches: 622, Mismatches: 46, Indels: 91
0.82 0.06 0.12
Matches are distributed among these distances:
53 4 0.01
54 6 0.01
55 283 0.45
56 67 0.11
59 45 0.07
60 93 0.15
61 105 0.17
62 8 0.01
63 4 0.01
64 4 0.01
65 3 0.00
ACGTcount: A:0.27, C:0.27, G:0.20, T:0.25
Consensus pattern (54 bp):
TTTTCAGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCA
Found at i:1972970 original size:116 final size:111
Alignment explanation
Indices: 1972638--1973377 Score: 834
Period size: 116 Copynumber: 6.5 Consensus size: 111
1972628 ATGCCTTTTT
* * * *
1972638 CTTTTAAAGCCCACACAAGTTGGTGGCACCTTCAGTCCTCAAAAAGCAGGATGATTTTCTTTTCA
1 CTTTCAAAGCCCACACAAGTTGGTGGCACTTTCAGTCCTCAAAGAGCAGGATG---CTCTTTTCA
* *
1972703 AAACCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGACGC
63 AAGCCCACACAAGTTGGTGGCACTTTCCAGTCCTCAAAGAGCAGGACGC
* *
1972752 CTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCAGTCCTCAAAGAGCAGGACGCATTCTC
1 C-TTTC----AAAGCCCACACAAGTTGGTGGCACTTTCAGTCCTCAAAGAGCAGGATGC--TCT-
* *
1972817 CTTTCAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGATGC
58 -TTTCAAAGCCCACACAAGTTGGTGGCACTTTCCAGTCCTCAAAGAGCAGGACGC
*
1972872 CTTTCAAAGCCCACACAAGTTGGTGGCATTTTCTAGTCCTCAAAGAGCAGGATGCTTTTTCTTTT
1 CTTTCAAAGCCCACACAAGTTGGTGGCACTTTC-AGTCCTCAAAGAGCAGGATGC----TCTTTT
* *
1972937 CAAAGCCCACACAAGTTGGTGGCACCTTT-CAGTCCCCAAAGAGCAGGACAC
61 CAAAGCCCACACAAGTTGGTGGCA-CTTTCCAGTCCTCAAAGAGCAGGACGC
* ** *
1972988 CTTTCAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGACAC-CTCTT-AAA
1 CTTTCAAAGCCCACACAAGTTGGTGGCACTTT-CAGTCCTCAAAGAGCAGGATGCTCTTTTCAAA
* *
1973051 GCCCACACGAGTTGGTGGCACCTTT-CAGTCCTCAAAGAGCAGGATGC
65 GCCCACACAAGTTGGTGGCA-CTTTCCAGTCCTCAAAGAGCAGGACGC
* * * * *
1973098 TTTTTCTTTTCAAAGCCCACACAAGTTGGTGGCACCTTTTAGTCCCCAAAGAGTAGGA--CACCT
1 -----C-TTTCAAAGCCCACACAAGTTGGTGGCA-CTTTCAGTCCTCAAAGAGCAGGATGCTCTT
* * *
1973161 TTCAAAGCCCACACAAGTTGGTGGCATTTTCCAATCCTCAAAGAGCAGGACAC
59 TTCAAAGCCCACACAAGTTGGTGGCACTTTCCAGTCCTCAAAGAGCAGGACGC
* * *
1973214 CTCTT-AAAGCCTACACAAGTTGGTGGCACCTTTCAGTCCTCAAAGAGCAAGACGC-C-TTTCAA
1 CT-TTCAAAGCCCACACAAGTTGGTGGCA-CTTTCAGTCCTCAAAGAGCAGGATGCTCTTTTCAA
1973276 AGCCCACACAAGTTGGTGGCACCTTT-CAGTCCTCAAAAGAGCAGGACGC
64 AGCCCACACAAGTTGGTGGCA-CTTTCCAGTCCTC-AAAGAGCAGGACGC
* *
1973325 CTTTCAAAGCCCACACGAGTTGGTGGCACTTTTTAGTCCTCAAAGAGCAGGAT
1 CTTTCAAAGCCCACACAAGTTGGTGGCAC-TTTCAGTCCTCAAAGAGCAGGAT
1973378 ACACTTTATT
Statistics
Matches: 550, Mismatches: 45, Indels: 65
0.83 0.07 0.10
Matches are distributed among these distances:
110 126 0.23
111 67 0.12
112 1 0.00
114 2 0.00
115 36 0.07
116 201 0.37
117 7 0.01
118 7 0.01
119 50 0.09
120 53 0.10
ACGTcount: A:0.28, C:0.28, G:0.20, T:0.24
Consensus pattern (111 bp):
CTTTCAAAGCCCACACAAGTTGGTGGCACTTTCAGTCCTCAAAGAGCAGGATGCTCTTTTCAAAG
CCCACACAAGTTGGTGGCACTTTCCAGTCCTCAAAGAGCAGGACGC
Found at i:1973054 original size:171 final size:172
Alignment explanation
Indices: 1972638--1973376 Score: 1013
Period size: 171 Copynumber: 4.3 Consensus size: 172
1972628 ATGCCTTTTT
* ** * * * *
1972638 CTTTTAAAGCCCACACAAGTTGGTGGCACCTT-CAGTCCTCAAAAAGCAGGATGATTTTCTTTTC
1 CTTTCAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGA-CA---CCTCTTC
* * *
1972702 AAAACCCACACAAGTTGGTGGCA-TTTTCCAGTCCTCAAAGAGCAGGACGCCTTTTCTTTT-AAA
62 AAAGCCCACACAAGTTGGTGGCACCTTT-CAGTCCTCAAAGAGCAGGACGCTTTTTCTTTTCAAA
*
1972765 GCCCACACAAGTTGGTGGCACC-TTCAGTCCTCAAAGAGCAGGACGCATTCTC
126 GCCCACACAAGTTGGTGGCACCTTTCAGTCCCCAAAGAGCAGGA--CA----C
**
1972817 CTTTCAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGATGCCT-TTCAAAG
1 CTTTCAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGACACCTCTTCAAAG
* *
1972881 CCCACACAAGTTGGTGGCA-TTTTCTAGTCCTCAAAGAGCAGGATGCTTTTTCTTTTCAAAGCCC
66 CCCACACAAGTTGGTGGCACCTTTC-AGTCCTCAAAGAGCAGGACGCTTTTTCTTTTCAAAGCCC
1972945 ACACAAGTTGGTGGCACCTTTCAGTCCCCAAAGAGCAGGACAC
130 ACACAAGTTGGTGGCACCTTTCAGTCCCCAAAGAGCAGGACAC
1972988 CTTTCAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGACACCTCTT-AAAG
1 CTTTCAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGACACCTCTTCAAAG
* *
1973052 CCCACACGAGTTGGTGGCACCTTTCAGTCCTCAAAGAGCAGGATGCTTTTTCTTTTCAAAGCCCA
66 CCCACACAAGTTGGTGGCACCTTTCAGTCCTCAAAGAGCAGGACGCTTTTTCTTTTCAAAGCCCA
* *
1973117 CACAAGTTGGTGGCACCTTTTAGTCCCCAAAGAGTAGGACAC
131 CACAAGTTGGTGGCACCTTTCAGTCCCCAAAGAGCAGGACAC
*
1973159 CTTTCAAAGCCCACACAAGTTGGTGGCATTTTCCAATCCTCAAAGAGCAGGACACCTCTT-AAAG
1 CTTTCAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGACACCTCTTCAAAG
* *
1973223 CCTACACAAGTTGGTGGCACCTTTCAGTCCTCAAAGAGCAAGACGC-----C-TTTCAAAGCCCA
66 CCCACACAAGTTGGTGGCACCTTTCAGTCCTCAAAGAGCAGGACGCTTTTTCTTTTCAAAGCCCA
* *
1973282 CACAAGTTGGTGGCACCTTTCAGTCCTCAAAAGAGCAGGACGC
131 CACAAGTTGGTGGCACCTTTCAGTCC-CCAAAGAGCAGGACAC
* *
1973325 CTTTCAAAGCCCACACGAGTTGGTGGCACTTTT-TAGTCCTCAAAGAGCAGGA
1 CTTTCAAAGCCCACACAAGTTGGTGGCA-TTTTCCAGTCCTCAAAGAGCAGGA
1973377 TACACTTTAT
Statistics
Matches: 523, Mismatches: 29, Indels: 29
0.90 0.05 0.05
Matches are distributed among these distances:
165 37 0.07
166 58 0.11
167 4 0.01
171 263 0.50
172 6 0.01
174 1 0.00
175 60 0.11
176 27 0.05
177 20 0.04
179 29 0.06
180 18 0.03
ACGTcount: A:0.28, C:0.28, G:0.20, T:0.24
Consensus pattern (172 bp):
CTTTCAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGACACCTCTTCAAAG
CCCACACAAGTTGGTGGCACCTTTCAGTCCTCAAAGAGCAGGACGCTTTTTCTTTTCAAAGCCCA
CACAAGTTGGTGGCACCTTTCAGTCCCCAAAGAGCAGGACAC
Found at i:1974301 original size:13 final size:13
Alignment explanation
Indices: 1974283--1974308 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1974273 CATTATTCCA
1974283 TGTATCGATACAT
1 TGTATCGATACAT
1974296 TGTATCGATACAT
1 TGTATCGATACAT
1974309 GGATCTTTAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1976729 original size:51 final size:52
Alignment explanation
Indices: 1976673--1976796 Score: 162
Period size: 51 Copynumber: 2.4 Consensus size: 52
1976663 CAATTCTCCG
* * * *
1976673 TAATCGGGGATATTCCCACTCCGATTTTATTTTC-AAAACACTAA-TTTTCTA
1 TAATCGGGGATACTCCAACGCCGATTTTATTTCCAAAAACACTAATTTTTC-A
1976724 TAATCGGGGATACTCCAACGCCGATTTTATTTCCAAAAAAACACTAATTTTTCA
1 TAATCGGGGATACTCCAACGCCGATTTTATTTCC--AAAAACACTAATTTTTCA
*
1976778 CAATCGGGGATACTCCAAC
1 TAATCGGGGATACTCCAAC
1976797 CCCGTTAATC
Statistics
Matches: 64, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
51 30 0.47
54 29 0.45
55 5 0.08
ACGTcount: A:0.32, C:0.23, G:0.12, T:0.32
Consensus pattern (52 bp):
TAATCGGGGATACTCCAACGCCGATTTTATTTCCAAAAACACTAATTTTTCA
Done.