Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NTFQ01014785.1 Kokia drynarioides strain JFW-HI SEQ_129827, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 176203
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 380 characters in sequence are not A, C, G, or T
Found at i:809 original size:180 final size:180
Alignment explanation
Indices: 501--1335 Score: 1083
Period size: 180 Copynumber: 4.5 Consensus size: 180
491 ATACATTATC
* * * *
501 ACATCAAGTCTTCTATCTTGCTATGTTGTTTGACTATTACAAGAAT-AGGGCAACTCCATCTTCC
1 ACATCAAGTCTACTGTCTTGCTATGTTGTTTGACTATTACATGGATGA-GGCAACTCCATCTTCC
* *
565 GAGAAGAGGAAGAGTAGTTTTGTGATTGATGTTGGATTGTGTAAACCTGTTAGTGCTGTGGAAGC
65 GAGAAGAGGAAGAGTAGTTTCGTGATTGATGTTGGATTGTGTAAACCTGTTAGTGCTATGGAAGC
*
630 TAAGGTAAATCTTCATATGTTAAAGATGGTACCCTCAGATAATGAAAACTAT
130 TAAGGTAAATCTTCATATGTTAAAGATGGTACCC-CAGATGATGAAAACTAT
*
682 ACATCAAGTCTACTGTCTTGCTATGTTGTTTGACTATTGCATGGATGAGGCAACTCCATCTT-CG
1 ACATCAAGTCTACTGTCTTGCTATGTTGTTTGACTATTACATGGATGAGGCAACTCCATCTTCCG
* *
746 AGAAGAGGAAGAGTAGTTTCGTGATTGAAGTTGGATTGTGTAAACCTGTTTGTGCTATGGAAGC-
66 AGAAGAGGAAGAGTAGTTTCGTGATTGATGTTGGATTGTGTAAACCTGTTAGTGCTATGGAAGCT
810 AGAGGTAAATCTTCATATGTTAAAGATGGTACCCCCAGATGATGAAACCTATACATTAT
131 A-AGGTAAATCTTCATATGTTAAAGATGGTA-CCCCAGATGATG-AA---A-AC--TAT
* * * * *
869 CACATCAAGTCTAATGTCTTGCTATGTTGTTGGACTATTACATAGATGTA-GCAACTCTACCTTC
1 -ACATCAAGTCTACTGTCTTGCTATGTTGTTTGACTATTACATGGATG-AGGCAACTCCATCTTC
** * **
933 CGAGAAGAGGAAGAGTAGTTTCGTGATTGATGTTGGATAATGTAAACCTGTTACTGCTATAAAAG
64 CGAGAAGAGGAAGAGTAGTTTCGTGATTGATGTTGGATTGTGTAAACCTGTTAGTGCTATGGAAG
* * * * * * *
998 TTGAGGAAAATCTTCATATGTTAAAGATGATAACCCAAAATTATGAAAACTAT
129 CTAAGGTAAATCTTCATATGTTAAAGATGGT-ACCCCAGATGATGAAAACTAT
*
1051 ACATCAAGTCTAATGTCTTGCTATGTTGTTTGAC---TACATGGATGAGGCAACTCCATCTTCCG
1 ACATCAAGTCTACTGTCTTGCTATGTTGTTTGACTATTACATGGATGAGGCAACTCCATCTTCCG
* * *
1113 AGAAGAGGAAGAGTAGTTCCGTGATTGATGTTTGGATTTTGAAAACCTGTTAGTGCTATGGAAGC
66 AGAAGAGGAAGAGTAGTTTCGTGATTGATG-TTGGATTGTGTAAACCTGTTAGTGCTATGGAAGC
1178 TAAGGTAAATCTTCATATGTTAAAGATGGTACCCCTAGATGATGAAAACTAT
130 TAAGGTAAATCTTCATATGTTAAAGATGGTACCCC-AGATGATGAAAACTAT
* *
1230 ACATTATCACATCACGTCTTCTGCCTTGCTATGTTGTTTGACTATTACATGGATGA-GCAAACTC
1 AC---AT--CA--A-GTCTACTGTCTTGCTATGTTGTTTGACTATTACATGGATGAGGC-AACTC
*
1294 CATCTTCCAAGAAGAGGAAGAGTAGTTTCGTGATTGATGTTG
57 CATCTTCCGAGAAGAGGAAGAGTAGTTTCGTGATTGATGTTG
1336 TAGGATAAGG
Statistics
Matches: 571, Mismatches: 53, Indels: 52
0.84 0.08 0.08
Matches are distributed among these distances:
177 1 0.00
178 56 0.10
179 71 0.12
180 99 0.17
181 93 0.16
182 6 0.01
184 5 0.01
185 3 0.01
186 1 0.00
187 27 0.05
188 56 0.10
189 99 0.17
190 54 0.09
ACGTcount: A:0.30, C:0.15, G:0.22, T:0.32
Consensus pattern (180 bp):
ACATCAAGTCTACTGTCTTGCTATGTTGTTTGACTATTACATGGATGAGGCAACTCCATCTTCCG
AGAAGAGGAAGAGTAGTTTCGTGATTGATGTTGGATTGTGTAAACCTGTTAGTGCTATGGAAGCT
AAGGTAAATCTTCATATGTTAAAGATGGTACCCCAGATGATGAAAACTAT
Found at i:982 original size:189 final size:187
Alignment explanation
Indices: 479--1335 Score: 1140
Period size: 189 Copynumber: 4.6 Consensus size: 187
469 GGGTGGCAGA
* * *
479 ATGATGAAAACTATACATTATCACATCAAGTCTTCTATCTTGCTATGTTGTTTGACTATTACAAG
1 ATGATG-AAACTATACATTATCACATCAAGTCTACTGTCTTGCTATGTTGTTTGACTATTACATG
* * *
544 AATAGGGCAACTCCATCTTCCGAGAAGAGGAAGAGTAGTTTTGTGATTGATGTTGGATTGTGTAA
65 GAT-GAGCAACTCCATCTTCCGAGAAGAGGAAGAGTAGTTTCGTGATTGATGTTGGATTGTGTAA
* *
609 ACCTGTTAGTGCTGTGGAAGCTAAGGTAAATCTTCATATGTTAAAGATGGTACCCTCAG
129 ACCTGTTAGTGCTATGGAAGCTAAGGTAAATCTTCATATGTTAAAGATGGTACCCCCAG
* *
668 ATAATG-AA--A-AC--TAT-ACATCAAGTCTACTGTCTTGCTATGTTGTTTGACTATTGCATGG
1 ATGATGAAACTATACATTATCACATCAAGTCTACTGTCTTGCTATGTTGTTTGACTATTACATGG
*
726 ATGAGGCAACTCCATCTT-CGAGAAGAGGAAGAGTAGTTTCGTGATTGAAGTTGGATTGTGTAAA
66 ATGA-GCAACTCCATCTTCCGAGAAGAGGAAGAGTAGTTTCGTGATTGATGTTGGATTGTGTAAA
*
790 CCTGTTTGTGCTATGGAAGC-AGAGGTAAATCTTCATATGTTAAAGATGGTACCCCCAG
130 CCTGTTAGTGCTATGGAAGCTA-AGGTAAATCTTCATATGTTAAAGATGGTACCCCCAG
* * *
848 ATGATGAAACCTATACATTATCACATCAAGTCTAATGTCTTGCTATGTTGTTGGACTATTACATA
1 ATGATGAAA-CTATACATTATCACATCAAGTCTACTGTCTTGCTATGTTGTTTGACTATTACATG
* * **
913 GATGTAGCAACTCTACCTTCCGAGAAGAGGAAGAGTAGTTTCGTGATTGATGTTGGATAATGTAA
65 GATG-AGCAACTCCATCTTCCGAGAAGAGGAAGAGTAGTTTCGTGATTGATGTTGGATTGTGTAA
* ** * * * * * * *
978 ACCTGTTACTGCTATAAAAGTTGAGGAAAATCTTCATATGTTAAAGATGATAACCCAAA
129 ACCTGTTAGTGCTATGGAAGCTAAGGTAAATCTTCATATGTTAAAGATGGTACCCCCAG
* *
1037 ATTATG-AA--A-AC--TAT-ACATCAAGTCTAATGTCTTGCTATGTTGTTTGAC---TACATGG
1 ATGATGAAACTATACATTATCACATCAAGTCTACTGTCTTGCTATGTTGTTTGACTATTACATGG
* * *
1092 ATGAGGCAACTCCATCTTCCGAGAAGAGGAAGAGTAGTTCCGTGATTGATGTTTGGATTTTGAAA
66 ATGA-GCAACTCCATCTTCCGAGAAGAGGAAGAGTAGTTTCGTGATTGATG-TTGGATTGTGTAA
*
1157 ACCTGTTAGTGCTATGGAAGCTAAGGTAAATCTTCATATGTTAAAGATGGTACCCCTAG
129 ACCTGTTAGTGCTATGGAAGCTAAGGTAAATCTTCATATGTTAAAGATGGTACCCCCAG
* * *
1216 ATGATGAAAACTATACATTATCACATCACGTCTTCTGCCTTGCTATGTTGTTTGACTATTACATG
1 ATGATG-AAACTATACATTATCACATCAAGTCTACTGTCTTGCTATGTTGTTTGACTATTACATG
*
1281 GATGAGCAAACTCCATCTTCCAAGAAGAGGAAGAGTAGTTTCGTGATTGATGTTG
65 GATGAGC-AACTCCATCTTCCGAGAAGAGGAAGAGTAGTTTCGTGATTGATGTTG
1336 TAGGATAAGG
Statistics
Matches: 582, Mismatches: 59, Indels: 54
0.84 0.08 0.08
Matches are distributed among these distances:
177 1 0.00
178 52 0.09
179 65 0.11
180 103 0.18
181 91 0.16
182 6 0.01
183 1 0.00
184 7 0.01
185 4 0.01
186 3 0.01
187 35 0.06
188 56 0.10
189 105 0.18
190 53 0.09
ACGTcount: A:0.31, C:0.15, G:0.21, T:0.32
Consensus pattern (187 bp):
ATGATGAAACTATACATTATCACATCAAGTCTACTGTCTTGCTATGTTGTTTGACTATTACATGG
ATGAGCAACTCCATCTTCCGAGAAGAGGAAGAGTAGTTTCGTGATTGATGTTGGATTGTGTAAAC
CTGTTAGTGCTATGGAAGCTAAGGTAAATCTTCATATGTTAAAGATGGTACCCCCAG
Found at i:1309 original size:368 final size:366
Alignment explanation
Indices: 479--1335 Score: 1297
Period size: 369 Copynumber: 2.3 Consensus size: 366
469 GGGTGGCAGA
* *
479 ATGATGAAAACTATACATTATCACATCAAGTCTTCTATCTTGCTATGTTGTTTGACTATTACAAG
1 ATGATGAAAACTATACATTATCACATCAAGTCTTCTGTCTTGCTATGTTGTTTGACTATTACATG
* * * **
544 AATAGGGCAACTCCATCTTCCGAGAAGAGGAAGAGTAGTTTTGTGATTGATGTTGGATTGTGTAA
66 GAT-GAGCAACTCCATCTTCCGAGAAGAGGAAGAGTAGTTTCGTGATTGATGTTGGATAATGTAA
* * ** * * * *
609 ACCTGTTAGTGCTGTGGAAGCTAAGGTAAATCTTCATATGTTAAAGATGGTACCCTCAGATAATG
130 ACCTGTTACTGCTATAAAAGCTAAGGAAAATCTTCATATGTTAAAGATGATACCCTAAAATAATG
*
674 AAAACTATACATCAAGTCTACTGTCTTGCTATGTTGTTTGACTATTGCATGGATGAGGCAACTCC
195 AAAACTATACATCAAGTCTAATGTCTTGCTATGTTGTTTGACTA-T-CATGGATGAGGCAACTCC
* * *
739 ATCTTCGAGAAGAGGAAGAGTAGTTTCGTGATTGAAGTTGGATTGTGTAAACCTGTTTGTGCTAT
258 ATCTTCGAGAAGAGGAAGAGTAGTTCCGTGATTGAAGTTGGATTGTGAAAACCTGTTAGTGCTAT
804 GGAAGCAGAGGTAAATCTTCATATGTTAAAGATGGTACCCCCAG
323 GGAAGCAGAGGTAAATCTTCATATGTTAAAGATGGTACCCCCAG
* ** * *
848 ATGATGAAACCTATACATTATCACATCAAGTCTAATGTCTTGCTATGTTGTTGGACTATTACATA
1 ATGATGAAAACTATACATTATCACATCAAGTCTTCTGTCTTGCTATGTTGTTTGACTATTACATG
* *
913 GATGTAGCAACTCTACCTTCCGAGAAGAGGAAGAGTAGTTTCGTGATTGATGTTGGATAATGTAA
66 GATG-AGCAACTCCATCTTCCGAGAAGAGGAAGAGTAGTTTCGTGATTGATGTTGGATAATGTAA
* * *
978 ACCTGTTACTGCTATAAAAGTTGAGGAAAATCTTCATATGTTAAAGATGATAACCC-AAAATTAT
130 ACCTGTTACTGCTATAAAAGCTAAGGAAAATCTTCATATGTTAAAGATGAT-ACCCTAAAATAAT
1042 GAAAACTATACATCAAGTCTAATGTCTTGCTATGTTGTTTGACTA-CATGGATGAGGCAACTCCA
194 GAAAACTATACATCAAGTCTAATGTCTTGCTATGTTGTTTGACTATCATGGATGAGGCAACTCCA
* *
1106 TCTTCCGAGAAGAGGAAGAGTAGTTCCGTGATTGATGTTTGGATTTTGAAAACCTGTTAGTGCTA
259 TCTT-CGAGAAGAGGAAGAGTAGTTCCGTGATTGAAG-TTGGATTGTGAAAACCTGTTAGTGCTA
*
1171 TGGAAGCTA-AGGTAAATCTTCATATGTTAAAGATGGTACCCCTAG
322 TGGAAGC-AGAGGTAAATCTTCATATGTTAAAGATGGTACCCCCAG
* *
1216 ATGATGAAAACTATACATTATCACATCACGTCTTCTGCCTTGCTATGTTGTTTGACTATTACATG
1 ATGATGAAAACTATACATTATCACATCAAGTCTTCTGTCTTGCTATGTTGTTTGACTATTACATG
*
1281 GATGAGCAAACTCCATCTTCCAAGAAGAGGAAGAGTAGTTTCGTGATTGATGTTG
66 GATGAGC-AACTCCATCTTCCGAGAAGAGGAAGAGTAGTTTCGTGATTGATGTTG
1336 TAGGATAAGG
Statistics
Matches: 440, Mismatches: 42, Indels: 13
0.89 0.08 0.03
Matches are distributed among these distances:
366 23 0.05
367 33 0.08
368 173 0.39
369 207 0.47
370 4 0.01
ACGTcount: A:0.31, C:0.15, G:0.21, T:0.32
Consensus pattern (366 bp):
ATGATGAAAACTATACATTATCACATCAAGTCTTCTGTCTTGCTATGTTGTTTGACTATTACATG
GATGAGCAACTCCATCTTCCGAGAAGAGGAAGAGTAGTTTCGTGATTGATGTTGGATAATGTAAA
CCTGTTACTGCTATAAAAGCTAAGGAAAATCTTCATATGTTAAAGATGATACCCTAAAATAATGA
AAACTATACATCAAGTCTAATGTCTTGCTATGTTGTTTGACTATCATGGATGAGGCAACTCCATC
TTCGAGAAGAGGAAGAGTAGTTCCGTGATTGAAGTTGGATTGTGAAAACCTGTTAGTGCTATGGA
AGCAGAGGTAAATCTTCATATGTTAAAGATGGTACCCCCAG
Found at i:1393 original size:3 final size:3
Alignment explanation
Indices: 1387--1491 Score: 90
Period size: 3 Copynumber: 34.3 Consensus size: 3
1377 CAACAACAAC
* * *
1387 AAT AAT AAT AAT AAT AAT AAT AAT AAGG AA- AAT AAT AAC AAC AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AA-T AAT AAT AAT AAT AAT AAT
* * *
1432 AAAT AAT AAG AA- AATT AAT AAT AAAT AAT ACA- AAA AAT AAT AAT TAT
1 -AAT AAT AAT AAT AA-T AAT AAT -AAT AAT A-AT AAT AAT AAT AAT AAT
1479 AAT AAT AAT AAT A
1 AAT AAT AAT AAT A
1492 GTCATGTACT
Statistics
Matches: 87, Mismatches: 7, Indels: 16
0.79 0.06 0.15
Matches are distributed among these distances:
2 5 0.06
3 71 0.82
4 11 0.13
ACGTcount: A:0.68, C:0.03, G:0.03, T:0.27
Consensus pattern (3 bp):
AAT
Found at i:1455 original size:34 final size:33
Alignment explanation
Indices: 1417--1491 Score: 80
Period size: 34 Copynumber: 2.2 Consensus size: 33
1407 TAATAAGGAA
*
1417 AATAATAACAACAATAAATAATAA-GAAAATTAAT
1 AATAATAA-AACAAAAAATAATAATGAAAA-TAAT
* * *
1451 AATAAATAATACAAAAAATAATAATTATAATAAT
1 AAT-AATAAAACAAAAAATAATAATGAAAATAAT
1485 AATAATA
1 AATAATA
1492 GTCATGTACT
Statistics
Matches: 35, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
33 4 0.11
34 23 0.66
35 8 0.23
ACGTcount: A:0.68, C:0.04, G:0.01, T:0.27
Consensus pattern (33 bp):
AATAATAAAACAAAAAATAATAATGAAAATAAT
Found at i:1470 original size:19 final size:21
Alignment explanation
Indices: 1429--1486 Score: 62
Period size: 22 Copynumber: 2.6 Consensus size: 21
1419 TAATAACAAC
*
1429 AATAAATAATAAGAAAATTAAT
1 AATAAATAATAACAAAA-TAAT
*
1451 AATAAATAATACAAAAAATAAT
1 AATAAATAATA-ACAAAATAAT
1473 AATTATAATAATAA
1 AA-TA-AATAATAA
1487 TAATAGTCAT
Statistics
Matches: 32, Mismatches: 1, Indels: 5
0.84 0.03 0.13
Matches are distributed among these distances:
22 17 0.53
23 8 0.25
24 7 0.22
ACGTcount: A:0.69, C:0.02, G:0.02, T:0.28
Consensus pattern (21 bp):
AATAAATAATAACAAAATAAT
Found at i:1716 original size:105 final size:106
Alignment explanation
Indices: 1501--1770 Score: 454
Period size: 105 Copynumber: 2.6 Consensus size: 106
1491 AGTCATGTAC
* *
1501 TCGACCCTCGTCCTGCATCAAACGACATGTAATGCATATTTCACATACAGAAAAAAAAAATCATC
1 TCGACCCTCGTCCTGCATCAAACGACATGTAATGCATATTTCACATACAGAAGAAAATAATCATC
**
1566 TTGGCATTGATATCTGGCTGCAATTCCATATAGTCGCGTAT
66 TCAGCATTGATATCTGGCTGCAATTCCATATAGTCGCGTAT
*
1607 TCGACCCTCGTCCTGCATCAAACGACATGTAATGCATATTTCACATATAGAAGAAAATAA-CATC
1 TCGACCCTCGTCCTGCATCAAACGACATGTAATGCATATTTCACATACAGAAGAAAATAATCATC
*
1671 TCAGCATTGATATCTGGCTGCAATTCCATATAGTTGCGTAT
66 TCAGCATTGATATCTGGCTGCAATTCCATATAGTCGCGTAT
*
1712 TCGACCCTCGTCCTGCATCAATA-GACATGTCATGCATATTTCACATACAGAAGAAAATA
1 TCGACCCTCGTCCTGCATCAA-ACGACATGTAATGCATATTTCACATACAGAAGAAAATA
1771 TCAACACTAG
Statistics
Matches: 155, Mismatches: 8, Indels: 3
0.93 0.05 0.02
Matches are distributed among these distances:
105 97 0.63
106 58 0.37
ACGTcount: A:0.33, C:0.24, G:0.15, T:0.28
Consensus pattern (106 bp):
TCGACCCTCGTCCTGCATCAAACGACATGTAATGCATATTTCACATACAGAAGAAAATAATCATC
TCAGCATTGATATCTGGCTGCAATTCCATATAGTCGCGTAT
Found at i:4442 original size:189 final size:189
Alignment explanation
Indices: 3913--4774 Score: 1224
Period size: 181 Copynumber: 4.7 Consensus size: 189
3903 TGGCAGAATA
* * *
3913 ATGAAAACTATACATTATCACATCAAGTCTTCTATCTTGCTATGTTGTTTGACTATTACAAGGAT
1 ATGAAAACTATACATTATCACATCAAGTCTACTGTCTTGCTATGTTGTTTGACTATTACATGGAT
* * **
3978 -AGGGCAACTCCATCTTCCCAGAAGAGGAAGAGTAGTTCCGTGATTGATGTTGGATTGTGTAAAC
66 GA-GGCAACTCCATCTTCCGAGAAGAGGAAGAGTAGTTTCGTGATTGATGTTGGATAATGTAAAC
* *
4042 CTGTTAGTGCTGTGGAAGCTGAGGTAAATCTTCATATGTTAAAGATGGTACCCTCAGATG
130 CTGTTAGTGCTATGGAAGCTGAGGTAAATCTTCATATGTTAAAGATGGTACCCCCAGATG
* *
4102 ATG---A--A-A-ATTAT-ACATCAAGTCTACTGTCTTGCTATGTCGTTTGACTATTGCATGGAT
1 ATGAAAACTATACATTATCACATCAAGTCTACTGTCTTGCTATGTTGTTTGACTATTACATGGAT
* **
4159 GAGGCAACTCCATCTT-CGAGAAGAGGAAGAGTAGTTTCGTGATTGAAGTTGGATTGTGTAAACC
66 GAGGCAACTCCATCTTCCGAGAAGAGGAAGAGTAGTTTCGTGATTGATGTTGGATAATGTAAACC
*
4223 TGTTTGTGCTATGGAAGCTGAGGTAAATCTTCATATGTTAAAGATGGTACCCCCAGATG
131 TGTTAGTGCTATGGAAGCTGAGGTAAATCTTCATATGTTAAAGATGGTACCCCCAGATG
* * * *
4282 ATGAAAACTATACATTATCACATCAAGTCTAATGTCTTACTATGTTGTTGGACTATTACATAGAT
1 ATGAAAACTATACATTATCACATCAAGTCTACTGTCTTGCTATGTTGTTTGACTATTACATGGAT
*
4347 GTA-GCAACTCTATCTTCCGAGAAGAGGAAGAGTAGTTTCGTGATTGATGTTGGATAATGTAAAC
66 G-AGGCAACTCCATCTTCCGAGAAGAGGAAGAGTAGTTTCGTGATTGATGTTGGATAATGTAAAC
* ** * * *
4411 CTGTTACTGCTATAAAAGCTGAGGAAAATCTTCATATGTTAAAGATGATACCCCTAGATG
130 CTGTTAGTGCTATGGAAGCTGAGGTAAATCTTCATATGTTAAAGATGGTACCCCCAGATG
4471 ATGAAAACTATAC---AT---A--AAGTCTACTGTCTTGCTATGTTGTTTGACTATTACATGGAT
1 ATGAAAACTATACATTATCACATCAAGTCTACTGTCTTGCTATGTTGTTTGACTATTACATGGAT
* * *
4528 GAGGCAACTCCATCTTCCGAGAAGAGGAAGAGTAGTTCCGTGATTGATGTTTGAT-TTGGTAAAC
66 GAGGCAACTCCATCTTCCGAGAAGAGGAAGAGTAGTTTCGTGATTGATGTTGGATAAT-GTAAAC
* * *
4592 CTGTTAGTGCTATGGAATCTGAGGTAAATCTTCATATGTTAAAGACGGTACCCCCATATG
130 CTGTTAGTGCTATGGAAGCTGAGGTAAATCTTCATATGTTAAAGATGGTACCCCCAGATG
* * *
4652 ATGAAAACTATACATTATCACATCAACTCTTCTGCCTTGCTATGTTGTTTGACTATTACATGGAT
1 ATGAAAACTATACATTATCACATCAAGTCTACTGTCTTGCTATGTTGTTTGACTATTACATGGAT
* *
4717 GAGGCAACTCCATCTTCTGAAAAGAGGAAGAGTAGTTTCGTGATTGATGTTGGATAAT
66 GAGGCAACTCCATCTTCCGAGAAGAGGAAGAGTAGTTTCGTGATTGATGTTGGATAAT
4775 AAGGATAATA
Statistics
Matches: 598, Mismatches: 53, Indels: 43
0.86 0.08 0.06
Matches are distributed among these distances:
180 106 0.18
181 212 0.35
182 6 0.01
183 3 0.01
184 3 0.01
185 1 0.00
186 4 0.01
187 6 0.01
188 53 0.09
189 203 0.34
190 1 0.00
ACGTcount: A:0.30, C:0.16, G:0.22, T:0.33
Consensus pattern (189 bp):
ATGAAAACTATACATTATCACATCAAGTCTACTGTCTTGCTATGTTGTTTGACTATTACATGGAT
GAGGCAACTCCATCTTCCGAGAAGAGGAAGAGTAGTTTCGTGATTGATGTTGGATAATGTAAACC
TGTTAGTGCTATGGAAGCTGAGGTAAATCTTCATATGTTAAAGATGGTACCCCCAGATG
Found at i:4796 original size:3 final size:3
Alignment explanation
Indices: 4790--4909 Score: 86
Period size: 3 Copynumber: 39.3 Consensus size: 3
4780 TAATAAGGAA
* * * *
4790 AAT AAT AAA AAT AAT AAAT AAT AAT AAT AAGG AA- AAT AAT AAC AAC
1 AAT AAT AAT AAT AAT -AAT AAT AAT AAT AA-T AAT AAT AAT AAT AAT
* * *
4836 AGT AA- ATAT AAT AAT AA- ACAA AAT AAT AAT AAAT AAT AA- AGAA AAT
1 AAT AAT A-AT AAT AAT AAT A-AT AAT AAT AAT -AAT AAT AAT A-AT AAT
*
4882 AAT AAT TAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT A
4910 GTCTTGTACT
Statistics
Matches: 96, Mismatches: 11, Indels: 20
0.76 0.09 0.16
Matches are distributed among these distances:
2 5 0.05
3 80 0.83
4 11 0.11
ACGTcount: A:0.68, C:0.03, G:0.03, T:0.26
Consensus pattern (3 bp):
AAT
Found at i:4817 original size:34 final size:34
Alignment explanation
Indices: 4779--4907 Score: 145
Period size: 34 Copynumber: 3.8 Consensus size: 34
4769 GATAATAAGG
4779 ATAATAAGGAAAATAATAAAAATAATAAATAATA
1 ATAATAAGGAAAATAATAAAAATAATAAATAATA
* * *
4813 ATAATAAGGAAAATAATAACAACAGTAAAT-ATA
1 ATAATAAGGAAAATAATAAAAATAATAAATAATA
** *
4846 ATAATAAACAAAATAATAATAAATAATAAAGAA-A
1 ATAATAAGGAAAATAATAA-AAATAATAAATAATA
** * *
4880 ATAATAATTATAATAATAATAATAATAA
1 ATAATAAGGAAAATAATAAAAATAATAA
4908 TAGTCTTGTA
Statistics
Matches: 80, Mismatches: 13, Indels: 5
0.82 0.13 0.05
Matches are distributed among these distances:
33 28 0.35
34 51 0.64
35 1 0.01
ACGTcount: A:0.68, C:0.02, G:0.05, T:0.25
Consensus pattern (34 bp):
ATAATAAGGAAAATAATAAAAATAATAAATAATA
Found at i:6486 original size:291 final size:291
Alignment explanation
Indices: 5953--7291 Score: 1826
Period size: 291 Copynumber: 4.6 Consensus size: 291
5943 ACCACCAAAA
*
5953 GCCTAATATTTGCTACTATAATGAAAAAGAAACATTTTTGTGTTTACTGGAACTACCTTTCCTTG
1 GCCTAATATTTGCTACTATAATGAAAAAGAAACATTTTTGTGTTTACTGGAACTACCTTCCCTTG
** * *
6018 TGCTGCTGCTCGTTCATTTTCAAAGTTG-AAATGTCTTGAAGAACTCTTCGGTTCCTTCCATCAG
66 TGCTGCTGCTCGTTCATTGACAAAGTTGCCAATGTCTTGAAGAACTCTTCGGTTCCTTCCATCTG
* *
6082 CTAAT-ACATTTTTCTGA-TTCAA-TTCTCCTGAAAACAAAGAGAGTATAAAAATGGTTTGTCAA
131 CTATTGA-ATTTTTCT-ACTT-AACTTCTCCTGAAAACAAAGAAAGTATAAAAATGGTTTGTCAA
*
6144 CTTGCTTCCTTTGAGCTCCTTTAACAGCTTGTGCAACCAGAAAAGCCCCTTCGGTGATTGGTTTC
193 CTTGCTTCCTTTGAGCTCCTTTAACAGCTTGTGCAACCACAAAAGCCCCTTCGGTGATTGGTTTC
* ** *
6209 TACAAGCGAAATCCACCAAGAGCAATTAGTGCTT
258 TACAAGCAAAAAACACCAAGAGCAATTAGTGATT
* *
6243 GCCTAATATTTGCTACTACAATCAAAAAGAAACATTTTTGTGTTTACTGGAACTACCTTCCCTTG
1 GCCTAATATTTGCTACTATAATGAAAAAGAAACATTTTTGTGTTTACTGGAACTACCTTCCCTTG
* *
6308 TGCTGCTCCTCGTTCATTGACAATGTTGCCAATGTCTTGAAGAACTCTTCGGTTCCTTCCATCTG
66 TGCTGCTGCTCGTTCATTGACAAAGTTGCCAATGTCTTGAAGAACTCTTCGGTTCCTTCCATCTG
* * *
6373 CTATTGAATTTTTCTACATAACTTCTCCTGAAAACAAAGAAAGCATAAAAATGGTTTGTCAACTA
131 CTATTGAATTTTTCTACTTAACTTCTCCTGAAAACAAAGAAAGTATAAAAATGGTTTGTCAACTT
* * *
6438 GCTTCCTTTGGGCTCCTTTAACAGCTTGTACAACCACAACAA-CCCCTTCGGTGATTGTTTTCTA
196 GCTTCCTTTGAGCTCCTTTAACAGCTTGTGCAACCACAA-AAGCCCCTTCGGTGATTGGTTTCTA
* *
6502 CAAGCAAAAAACACCAAGAG-ATATTTGTGAAT
260 CAAGCAAAAAACACCAAGAGCA-ATTAGTGATT
*
6534 GCCTAATATTTGCTACTATAAT-AAAACAGAAACATTTTTGTGTTTACAGGAACTACCTTCCCTT
1 GCCTAATATTTGCTACTATAATGAAAA-AGAAACATTTTTGTGTTTACTGGAACTACCTTCCCTT
* *
6598 GTGCAGCTGCCCGTTCATTGACAAAGTTGCCAATGTCTTGAAGAACTCTTCGGTTCCTTCCATCT
65 GTGCTGCTGCTCGTTCATTGACAAAGTTGCCAATGTCTTGAAGAACTCTTCGGTTCCTTCCATCT
* * * * * *
6663 GCTATTGCATTTTTCTGCTTCACTTCTCCTGAAAACTAAGCAAGTACAAAAATGGTTTGTCAACT
130 GCTATTGAATTTTTCTACTTAACTTCTCCTGAAAACAAAGAAAGTATAAAAATGGTTTGTCAACT
* * * * * *
6728 TCCTTCTTTTGACCTCCTTTAACAGGTTGTGCAACCACAACAGCCCCTTTGGTGATTGGTTTCTA
195 TGCTTCCTTTGAGCTCCTTTAACAGCTTGTGCAACCACAAAAGCCCCTTCGGTGATTGGTTTCTA
* * * *
6793 CAAACAAAAAAAACCAAGAGCACTTAGTGATG
260 CAAGCAAAAAACACCAAGAGCAATTAGTGATT
* * *
6825 GCCTGATATTTGCTACTATAATGGAAAAGAAACATTTTTGCGTTTACTGGAACTACCTTCCCTTG
1 GCCTAATATTTGCTACTATAATGAAAAAGAAACATTTTTGTGTTTACTGGAACTACCTTCCCTTG
* * * * *
6890 TGCTGCTGCTCTTTCATTGAAAAAGTTGCCAATGTCTTGAAGAACACTTCGGTTCCGTCAATCTG
66 TGCTGCTGCTCGTTCATTGACAAAGTTGCCAATGTCTTGAAGAACTCTTCGGTTCCTTCCATCTG
* * *
6955 CTATTGCAA-TTTTCAGAATCAA-TTCTCCTGAAAACAAAGAAAGTATAAAAATGGTTTGTCAAC
131 CTATTG-AATTTTTC-TACTTAACTTCTCCTGAAAACAAAGAAAGTATAAAAATGGTTTGTCAAC
* * * * **
7018 TTGCTTCCTTTGGGCTACTTTAACAGCTTGTGCATCCTCAAAAGCCTTTTCGGTGATT-GTTTCT
194 TTGCTTCCTTTGAGCTCCTTTAACAGCTTGTGCAACCACAAAAGCCCCTTCGGTGATTGGTTTCT
*
7082 ACAAGCAAAAAACACAAAGAGCAATTAGTGATT
259 ACAAGCAAAAAACACCAAGAGCAATTAGTGATT
* * *
7115 GCCTAATA--T--TACTATAATGAAAAAAGAAACGTTTTTGTCTTTACTTGAACTACCTTCCCTT
1 GCCTAATATTTGCTACTATAATG-AAAAAGAAACATTTTTGTGTTTACTGGAACTACCTTCCCTT
* * * *
7176 GGGCTGCTGCTCGCTCATTGACAAAGTTG-CAATGTCTTGAAGAACTCTTCGCTTCCTTCTATCT
65 GTGCTGCTGCTCGTTCATTGACAAAGTTGCCAATGTCTTGAAGAACTCTTCGGTTCCTTCCATCT
* * * * *
7240 GCTATTGCATTTTTGTGCTTCACTTCTCCTGAAAACAAAAAAATGTATAAAA
130 GCTATTGAATTTTTCTACTTAACTTCTCCTGAAAACAAAGAAA-GTATAAAA
7292 TGTGTTAGAT
Statistics
Matches: 920, Mismatches: 113, Indels: 35
0.86 0.11 0.03
Matches are distributed among these distances:
285 3 0.00
286 71 0.08
287 69 0.08
288 1 0.00
290 136 0.15
291 630 0.68
292 10 0.01
ACGTcount: A:0.29, C:0.22, G:0.16, T:0.34
Consensus pattern (291 bp):
GCCTAATATTTGCTACTATAATGAAAAAGAAACATTTTTGTGTTTACTGGAACTACCTTCCCTTG
TGCTGCTGCTCGTTCATTGACAAAGTTGCCAATGTCTTGAAGAACTCTTCGGTTCCTTCCATCTG
CTATTGAATTTTTCTACTTAACTTCTCCTGAAAACAAAGAAAGTATAAAAATGGTTTGTCAACTT
GCTTCCTTTGAGCTCCTTTAACAGCTTGTGCAACCACAAAAGCCCCTTCGGTGATTGGTTTCTAC
AAGCAAAAAACACCAAGAGCAATTAGTGATT
Found at i:8974 original size:188 final size:189
Alignment explanation
Indices: 8429--9167 Score: 1057
Period size: 189 Copynumber: 3.9 Consensus size: 189
8419 ATGAAGTTCA
* * * * *
8429 TGCTGTGGAAGCTGAGGTAAATGTTCATATGTTAAACATGGTACCCCCAGGTAATGAAAACTATA
1 TGCTGTGGAAGCTGAGATAAATCTTCATATGTTAAAGATGGTACCCCCAGATGATGAAAACTATA
* *
8494 CATTATCACATCAAATCTTCTATCTTGCTATGTTGTTTGACTATTACATGGATGAGGCAACTCCA
66 CATTATCACATCAAGTCTTCTGTCTTGCTATGTTGTTTGACTATTACATGGATGAGGCAACTCCA
* *
8559 TCCTCCGAGAAGAGGATGAGTAGTTCCCTGAATGATGCTGGATTGTGTAAACCTGTTAG
131 TCCTCCGAGAAGAGGAAGAGTAGTTCCCTGAATGATGTTGGATTGTGTAAACCTGTTAG
** * * * * *
8618 TATTGTGTAAGCTGCGATAAATCTTCATATGTTAAAGATTGCACCCACAGATGATGAAAACTATA
1 TGCTGTGGAAGCTGAGATAAATCTTCATATGTTAAAGATGGTACCCCCAGATGATGAAAACTATA
* ** *
8683 CATTATCAAATCAAGTCTAATGTCTTGCTATGTTGTTTGACTATTACATGGATGAGGCTACTCCA
66 CATTATCACATCAAGTCTTCTGTCTTGCTATGTTGTTTGACTATTACATGGATGAGGCAACTCCA
8748 TCCTCCGAGAAGAGGAAGAGTAGTTCCCTGAATGATGTTGGATTGTGTAAACCTGTTAG
131 TCCTCCGAGAAGAGGAAGAGTAGTTCCCTGAATGATGTTGGATTGTGTAAACCTGTTAG
* * * *
8807 TGCTGTGTAAGCTGAAATAAATCTTCATATGTTAAAGATTGTACCCTCAGAT-ATGAAAACTATA
1 TGCTGTGGAAGCTGAGATAAATCTTCATATGTTAAAGATGGTACCCCCAGATGATGAAAACTATA
* *
8871 CATTATCACCTCAACTCTTCTGTCTTGCTATGTTGTTTGACTATTACATGGATGAGGCAACTCCA
66 CATTATCACATCAAGTCTTCTGTCTTGCTATGTTGTTTGACTATTACATGGATGAGGCAACTCCA
* * * * * * * *
8936 TCTTCCAAGAAGAGGAAGGGTACTTTCGTGATTGATGTTGGATTGTGTAAACCTGTTTG
131 TCCTCCGAGAAGAGGAAGAGTAGTTCCCTGAATGATGTTGGATTGTGTAAACCTGTTAG
* * *
8995 TGCTATGGAAGCTGAGGTAAATCTTCATATGTTAAAGATGGTACCCCCAAATGATGAAAACTATA
1 TGCTGTGGAAGCTGAGATAAATCTTCATATGTTAAAGATGGTACCCCCAGATGATGAAAACTATA
* * * *
9060 CATTATCACATCAAGTCTTCTGCCTTGGTCTGTTGTTTGACTATTACATGGATGAGGCAACTTCA
66 CATTATCACATCAAGTCTTCTGTCTTGCTATGTTGTTTGACTATTACATGGATGAGGCAACTCCA
* * * * *
9125 TCTTCCGAGAAGAGGAAGAGTAGTTTCGTGATTGTTGTTGGAT
131 TCCTCCGAGAAGAGGAAGAGTAGTTCCCTGAATGATGTTGGAT
9168 AATAAGAAAA
Statistics
Matches: 492, Mismatches: 57, Indels: 2
0.89 0.10 0.00
Matches are distributed among these distances:
188 167 0.34
189 325 0.66
ACGTcount: A:0.29, C:0.17, G:0.21, T:0.33
Consensus pattern (189 bp):
TGCTGTGGAAGCTGAGATAAATCTTCATATGTTAAAGATGGTACCCCCAGATGATGAAAACTATA
CATTATCACATCAAGTCTTCTGTCTTGCTATGTTGTTTGACTATTACATGGATGAGGCAACTCCA
TCCTCCGAGAAGAGGAAGAGTAGTTCCCTGAATGATGTTGGATTGTGTAAACCTGTTAG
Found at i:9559 original size:189 final size:189
Alignment explanation
Indices: 9224--9568 Score: 555
Period size: 189 Copynumber: 1.8 Consensus size: 189
9214 AACGAAAATA
* * * * *
9224 GTAAATCTTCATATGTTAAAGATGGTACCCTCAGATGATGAAAGCTATACATTATCACATCAAGT
1 GTAAATATTAATATGTTAAAGATGGAACCCTCAGATAATGAAAACTATACATTATCACATCAAGT
* * *
9289 CTTCTGTCTTGCCATGTTGTTTGACTATTACATGGATGAGGCAACTCCATCTTCCGAGAAGTGGA
66 CTTCTGGCTTGCCAAGTTGTTTGACTATTACATGGATGAGGCAACTCCATCTTCCGAGAAGAGGA
*
9354 AGAGTAGTTCCGTGATTGATGTTGGATTGTTTAAACCTGTTAGTGCAGTGGAAGCTGAG
131 AGAGAAGTTCCGTGATTGATGTTGGATTGTTTAAACCTGTTAGTGCAGTGGAAGCTGAG
* *
9413 GTAAATATTAATATGTTAAAGATGGAACCCTCAGATAATGAAAACTATACATTCTCGCATCAAGT
1 GTAAATATTAATATGTTAAAGATGGAACCCTCAGATAATGAAAACTATACATTATCACATCAAGT
** *
9478 CTTCTGGCTTGGTAAGTTGTTTGATTATTACATGGATGAGGCAACTCCATCTTCCGAGAAGAGGA
66 CTTCTGGCTTGCCAAGTTGTTTGACTATTACATGGATGAGGCAACTCCATCTTCCGAGAAGAGGA
*
9543 AGAGAAGTTTCGTGATTGATGTTGGA
131 AGAGAAGTTCCGTGATTGATGTTGGA
9569 AAATAAGGAA
Statistics
Matches: 141, Mismatches: 15, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
189 141 1.00
ACGTcount: A:0.30, C:0.15, G:0.23, T:0.32
Consensus pattern (189 bp):
GTAAATATTAATATGTTAAAGATGGAACCCTCAGATAATGAAAACTATACATTATCACATCAAGT
CTTCTGGCTTGCCAAGTTGTTTGACTATTACATGGATGAGGCAACTCCATCTTCCGAGAAGAGGA
AGAGAAGTTCCGTGATTGATGTTGGATTGTTTAAACCTGTTAGTGCAGTGGAAGCTGAG
Found at i:9613 original size:7 final size:8
Alignment explanation
Indices: 9597--9626 Score: 60
Period size: 8 Copynumber: 3.8 Consensus size: 8
9587 TAGTTAGGAT
9597 AAAATAAA
1 AAAATAAA
9605 AAAATAAA
1 AAAATAAA
9613 AAAATAAA
1 AAAATAAA
9621 AAAATA
1 AAAATA
9627 TAATAATAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 22 1.00
ACGTcount: A:0.87, C:0.00, G:0.00, T:0.13
Consensus pattern (8 bp):
AAAATAAA
Found at i:9632 original size:3 final size:3
Alignment explanation
Indices: 9626--9806 Score: 125
Period size: 3 Copynumber: 59.0 Consensus size: 3
9616 ATAAAAAAAT
** * * * * **
9626 ATA ATA ATA ATA ATA ATA ATA AGG AGA ACA ATA ATA GTT AGG ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* *
9674 ACA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATTA ATA ACGA A-A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A-TA ATA A-TA ATA
* * * * *
9720 ATA ATA ATAA ATA ATA AAA AGGA A-A ATA ATA ACA ACA GTAA ATA ATA
1 ATA ATA AT-A ATA ATA ATA A-TA ATA ATA ATA ATA ATA AT-A ATA ATA
* *
9767 ATAA ATA ATA A-A GAAA ATA ATA ATT ATA ATA ATA ATA ATA
1 AT-A ATA ATA ATA -ATA ATA ATA ATA ATA ATA ATA ATA ATA
9807 GTCGCATACT
Statistics
Matches: 144, Mismatches: 24, Indels: 20
0.77 0.13 0.11
Matches are distributed among these distances:
2 5 0.03
3 123 0.85
4 16 0.11
ACGTcount: A:0.65, C:0.03, G:0.06, T:0.27
Consensus pattern (3 bp):
ATA
Found at i:9634 original size:16 final size:15
Alignment explanation
Indices: 9595--9635 Score: 55
Period size: 16 Copynumber: 2.6 Consensus size: 15
9585 AATAGTTAGG
9595 ATAAAATAAAAAAAT
1 ATAAAATAAAAAAAT
*
9610 AAAAAAATAAAAAAAT
1 -ATAAAATAAAAAAAT
9626 ATAATAATAA
1 ATAA-AATAA
9636 TAATAATAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
15 3 0.14
16 19 0.86
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (15 bp):
ATAAAATAAAAAAAT
Found at i:9789 original size:41 final size:39
Alignment explanation
Indices: 9679--9790 Score: 129
Period size: 41 Copynumber: 2.8 Consensus size: 39
9669 TAATAACAAT
* *
9679 AATAATAAT-AATAATAATAATAATAATAATTAATAACGAA
1 AATAATAATAAATAATAA-AAAAATAATAA-TAACAACGAA
*
9719 AATAATAATAAATAATAAAAAGGAA-AATAATAACAACAGTA
1 AATAATAATAAATAATAAAAA--AATAATAATAACAAC-GAA
9760 AATAATAATAAATAATAAAGAAAATAATAAT
1 AATAATAATAAATAATAAA-AAAATAATAAT
9791 TATAATAATA
Statistics
Matches: 63, Mismatches: 3, Indels: 11
0.82 0.04 0.14
Matches are distributed among these distances:
40 19 0.30
41 40 0.63
42 4 0.06
ACGTcount: A:0.68, C:0.03, G:0.04, T:0.25
Consensus pattern (39 bp):
AATAATAATAAATAATAAAAAAATAATAATAACAACGAA
Found at i:11063 original size:290 final size:285
Alignment explanation
Indices: 10491--11063 Score: 722
Period size: 291 Copynumber: 2.0 Consensus size: 285
10481 AACTCTTCAA
* * * *
10491 TGATTGGTTTGTACAAGAAAAAAACACAAAGGGCAATCAGTGATCGCCTAATATTTGCTACTACA
1 TGATTGGTTTCTACAAGAAAAAAACACAAAGGGCAATCAGTCATCGCCTAATATTTGCGACCACA
* * * *
10556 ATTAAAACGAAAAATATTTGTGTTAACTACCTTCTCTTGTGCTGCTGCTCGTTCATTGACAATGT
66 ATGAAAAAGAAAAATATTTGTGTTAACTACCTTCTCTTGGGCTGCTGCTCGTTCATTGACAAAGT
* * *
10621 TGCCAATGTCCTGAAGAACCCTTCAGTTCTTTCCATCTGCTATTGCATTTTTATGCTTCACTTCT
131 TGCCAAAGTCCTGAAGAACCATTCAGTTCCTTCCATCTGCTATTGCATTTTTATGCTTCACTTCT
10686 CCTATAAACAAAGAAAGTATAAAAATGATTTGACAACTTGCTTCCTTTAGGCTCCTTTCACAGCT
196 CCTATAAACAAAGAAAGTATAAAAATGATTTGACAACTTGCTTCCTTTAGGCTCCTTTCACAGCT
10751 TGTGCAACCACAAAAACCCCTTCGG
261 TGTGCAACCACAAAAACCCCTTCGG
* * * * * *
10776 TGATTGGTTTCTACAAGCAAAAAACACAAAGTGCAATTAGTCATTGCCTAATATTTTCGACCATA
1 TGATTGGTTTCTACAAGAAAAAAACACAAAGGGCAATCAGTCATCGCCTAATATTTGCGACCACA
* * *
10841 ATGAAAAAGAAACATTTTTGTGTTTACTGCAACTACCTTCTCTTGGGCTGCTGGTC-TTCCATTG
66 ATGAAAAAGAAAAATATTTGTG--T--T--AACTACCTTCTCTTGGGCTGCTGCTCGTT-CATTG
* * ** * * * * *
10905 ACAAAGTTGCCAAAGTCTTGAAGTATTATTCGGTTCCTTCTATCTGCTGTTGCATTTTTCTGTTT
124 ACAAAGTTGCCAAAGTCCTGAAGAACCATTCAGTTCCTTCCATCTGCTATTGCATTTTTATGCTT
* * * *
10970 CACTTGTCCTGA-AAA-TAAGAAAGTATAAAAATGGTTTGTCAACTTGCTTCCTTT-GAGCTCCT
189 CACTTCTCCT-ATAAACAAAGAAAGTATAAAAATGATTTGACAACTTGCTTCCTTTAG-GCTCCT
* *
11032 TTCACAGCTTGTGCAACCACAACAGCCCCTTC
252 TTCACAGCTTGTGCAACCACAAAAACCCCTTC
11064 ANNNNNNNNN
Statistics
Matches: 244, Mismatches: 35, Indels: 13
0.84 0.12 0.04
Matches are distributed among these distances:
285 73 0.30
287 1 0.00
289 2 0.01
290 74 0.30
291 93 0.38
292 1 0.00
ACGTcount: A:0.29, C:0.22, G:0.15, T:0.34
Consensus pattern (285 bp):
TGATTGGTTTCTACAAGAAAAAAACACAAAGGGCAATCAGTCATCGCCTAATATTTGCGACCACA
ATGAAAAAGAAAAATATTTGTGTTAACTACCTTCTCTTGGGCTGCTGCTCGTTCATTGACAAAGT
TGCCAAAGTCCTGAAGAACCATTCAGTTCCTTCCATCTGCTATTGCATTTTTATGCTTCACTTCT
CCTATAAACAAAGAAAGTATAAAAATGATTTGACAACTTGCTTCCTTTAGGCTCCTTTCACAGCT
TGTGCAACCACAAAAACCCCTTCGG
Found at i:11273 original size:2 final size:2
Alignment explanation
Indices: 11266--11299 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
11256 NNNNNNNNNA
11266 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
11300 TCGAGGGAAG
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:14303 original size:3 final size:3
Alignment explanation
Indices: 14295--14321 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
14285 CGGTCATCCC
14295 CTT CTT CTT CTT CTT CTT CTT CTT CTT
1 CTT CTT CTT CTT CTT CTT CTT CTT CTT
14322 TCCTGGGTGA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (3 bp):
CTT
Found at i:16082 original size:5 final size:5
Alignment explanation
Indices: 16072--16106 Score: 70
Period size: 5 Copynumber: 7.0 Consensus size: 5
16062 TCCCTTTTGG
16072 GACCC GACCC GACCC GACCC GACCC GACCC GACCC
1 GACCC GACCC GACCC GACCC GACCC GACCC GACCC
16107 CTTTATTAGT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 30 1.00
ACGTcount: A:0.20, C:0.60, G:0.20, T:0.00
Consensus pattern (5 bp):
GACCC
Found at i:28205 original size:30 final size:29
Alignment explanation
Indices: 28159--28234 Score: 77
Period size: 30 Copynumber: 2.7 Consensus size: 29
28149 TAACGATGGT
* * *
28159 AAAAAT-AATATTTAAATT-TTTAAATATG
1 AAAAATAAATATCTAAATTATTGAAA-ATA
28187 AAAAATAAATATACTAAATTATTGAAAATA
1 AAAAATAAATAT-CTAAATTATTGAAAATA
*
28217 AAAAATAAAT-TTTAAATT
1 AAAAATAAATATCTAAATT
28235 TAAAAAATAT
Statistics
Matches: 41, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
28 12 0.29
29 6 0.15
30 18 0.44
31 5 0.12
ACGTcount: A:0.59, C:0.01, G:0.03, T:0.37
Consensus pattern (29 bp):
AAAAATAAATATCTAAATTATTGAAAATA
Found at i:37784 original size:116 final size:117
Alignment explanation
Indices: 37651--37885 Score: 418
Period size: 118 Copynumber: 2.0 Consensus size: 117
37641 AGATGTGAGT
*
37651 AAGAAATTTGATT-AGAGAGAGAGAGGATACTGACCATTATGAGGAAGAAGCACTAGAGGAGAAG
1 AAGAAATTTGATTAAGAGAGAGAGAGGATACTGACCACTATGAGGAAGAAGCACTAGAGGAGAAG
37715 TGGATTGGCAAGTACACACATAATCTTTCAACCAAGTGGGTGGCTTTGACAC
66 TGGATTGGCAAGTACACACATAATCTTTCAACCAAGTGGGTGGCTTTGACAC
* * *
37767 AAGAAATTTTATTAGAGAGAGAGAGAGGATACTGACCACTATGAGGAAGGAGCACTGGAGGAGAA
1 AAGAAATTTGATTA-AGAGAGAGAGAGGATACTGACCACTATGAGGAAGAAGCACTAGAGGAGAA
37832 GTGGATTGGCAAGTACACACATAATCTTTCAACCAAGTGGGTGGCTTTGACAC
65 GTGGATTGGCAAGTACACACATAATCTTTCAACCAAGTGGGTGGCTTTGACAC
37885 A
1 A
37886 CGAGTAAATT
Statistics
Matches: 113, Mismatches: 4, Indels: 2
0.95 0.03 0.02
Matches are distributed among these distances:
116 12 0.11
118 101 0.89
ACGTcount: A:0.37, C:0.14, G:0.28, T:0.21
Consensus pattern (117 bp):
AAGAAATTTGATTAAGAGAGAGAGAGGATACTGACCACTATGAGGAAGAAGCACTAGAGGAGAAG
TGGATTGGCAAGTACACACATAATCTTTCAACCAAGTGGGTGGCTTTGACAC
Found at i:39212 original size:25 final size:24
Alignment explanation
Indices: 39164--39217 Score: 63
Period size: 25 Copynumber: 2.2 Consensus size: 24
39154 TGGGAGATTC
** *
39164 TTATTTTATTTAATATTAATATAA
1 TTATTTTATTTAATAAAAACATAA
39188 TTATATTTATTTAATAAAAACATAA
1 TTAT-TTTATTTAATAAAAACATAA
*
39213 ATATT
1 TTATT
39218 AATATAAAAT
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
24 5 0.20
25 20 0.80
ACGTcount: A:0.46, C:0.02, G:0.00, T:0.52
Consensus pattern (24 bp):
TTATTTTATTTAATAAAAACATAA
Found at i:42274 original size:74 final size:74
Alignment explanation
Indices: 42153--42301 Score: 298
Period size: 74 Copynumber: 2.0 Consensus size: 74
42143 AATATGTGCA
42153 AAAGGATTTGTTTTCCTGAAGAGCCACATCAAAATTATTTCCTTGTTTTTCTTTGTCAATTGTAG
1 AAAGGATTTGTTTTCCTGAAGAGCCACATCAAAATTATTTCCTTGTTTTTCTTTGTCAATTGTAG
42218 TAAGAACCT
66 TAAGAACCT
42227 AAAGGATTTGTTTTCCTGAAGAGCCACATCAAAATTATTTCCTTGTTTTTCTTTGTCAATTGTAG
1 AAAGGATTTGTTTTCCTGAAGAGCCACATCAAAATTATTTCCTTGTTTTTCTTTGTCAATTGTAG
42292 TAAGAACCT
66 TAAGAACCT
42301 A
1 A
42302 CCTGCCTGTG
Statistics
Matches: 75, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
74 75 1.00
ACGTcount: A:0.29, C:0.16, G:0.15, T:0.40
Consensus pattern (74 bp):
AAAGGATTTGTTTTCCTGAAGAGCCACATCAAAATTATTTCCTTGTTTTTCTTTGTCAATTGTAG
TAAGAACCT
Found at i:52017 original size:3 final size:3
Alignment explanation
Indices: 52009--52040 Score: 55
Period size: 3 Copynumber: 10.7 Consensus size: 3
51999 TTTGTTTTCC
*
52009 TCT TCT TCT TCT TCT TCT CCT TCT TCT TCT TC
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TC
52041 CTACCTTGTT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.00, C:0.38, G:0.00, T:0.62
Consensus pattern (3 bp):
TCT
Found at i:52254 original size:5 final size:5
Alignment explanation
Indices: 52250--52280 Score: 53
Period size: 5 Copynumber: 6.2 Consensus size: 5
52240 AATTTAATTT
*
52250 GATTT GATTC GATTC GATTC GATTC GATTC G
1 GATTC GATTC GATTC GATTC GATTC GATTC G
52281 GTTTCACAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
5 25 1.00
ACGTcount: A:0.19, C:0.16, G:0.23, T:0.42
Consensus pattern (5 bp):
GATTC
Found at i:52615 original size:2 final size:2
Alignment explanation
Indices: 52608--52656 Score: 98
Period size: 2 Copynumber: 24.5 Consensus size: 2
52598 GGGTATAGTG
52608 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
52650 TA TA TA T
1 TA TA TA T
52657 TTGTGACACT
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 47 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:59371 original size:16 final size:16
Alignment explanation
Indices: 59350--59380 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
59340 TACCAAAACA
*
59350 TACATATATAATTAGT
1 TACATATACAATTAGT
59366 TACATATACAATTAG
1 TACATATACAATTAG
59381 GCATTACCCT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.45, C:0.10, G:0.06, T:0.39
Consensus pattern (16 bp):
TACATATACAATTAGT
Found at i:86806 original size:25 final size:26
Alignment explanation
Indices: 86778--86830 Score: 74
Period size: 25 Copynumber: 2.1 Consensus size: 26
86768 AAATCAAATC
86778 ATAAAAAATAAAAG-AATCAAATTAA
1 ATAAAAAATAAAAGCAATCAAATTAA
* *
86803 AT-AAAAATTAAAGCATTCAAATTAA
1 ATAAAAAATAAAAGCAATCAAATTAA
86828 ATA
1 ATA
86831 TTAAAATTTA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
24 10 0.42
25 14 0.58
ACGTcount: A:0.66, C:0.06, G:0.04, T:0.25
Consensus pattern (26 bp):
ATAAAAAATAAAAGCAATCAAATTAA
Found at i:87133 original size:22 final size:21
Alignment explanation
Indices: 87106--87154 Score: 62
Period size: 22 Copynumber: 2.3 Consensus size: 21
87096 TTAATTAATT
87106 ATTTAAATACTATAGAGTAAAA
1 ATTTAAATACTATA-AGTAAAA
* * *
87128 ATTTAAATATTATAATTTAAA
1 ATTTAAATACTATAAGTAAAA
87149 ATTTAA
1 ATTTAA
87155 TCTTCATATA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
21 11 0.46
22 13 0.54
ACGTcount: A:0.53, C:0.02, G:0.04, T:0.41
Consensus pattern (21 bp):
ATTTAAATACTATAAGTAAAA
Found at i:100693 original size:7 final size:7
Alignment explanation
Indices: 100675--100711 Score: 58
Period size: 7 Copynumber: 5.3 Consensus size: 7
100665 TCTATTCCAA
100675 ATTTTATT
1 ATTTT-TT
100683 ATTTTTT
1 ATTTTTT
100690 ATTTTTT
1 ATTTTTT
100697 ATTTTTT
1 ATTTTTT
100704 -TTTTTT
1 ATTTTTT
100710 AT
1 AT
100712 CTTATTTGGA
Statistics
Matches: 28, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
6 6 0.21
7 17 0.61
8 5 0.18
ACGTcount: A:0.16, C:0.00, G:0.00, T:0.84
Consensus pattern (7 bp):
ATTTTTT
Found at i:100698 original size:17 final size:15
Alignment explanation
Indices: 100676--100709 Score: 50
Period size: 17 Copynumber: 2.1 Consensus size: 15
100666 CTATTCCAAA
100676 TTTTATTATTTTTTATT
1 TTTTATT-TTTTTT-TT
100693 TTTTATTTTTTTTTT
1 TTTTATTTTTTTTTT
100708 TT
1 TT
100710 ATCTTATTTG
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 4 0.24
16 6 0.35
17 7 0.41
ACGTcount: A:0.12, C:0.00, G:0.00, T:0.88
Consensus pattern (15 bp):
TTTTATTTTTTTTTT
Found at i:103136 original size:19 final size:20
Alignment explanation
Indices: 103114--103163 Score: 50
Period size: 18 Copynumber: 2.5 Consensus size: 20
103104 AGTAAACTTG
103114 TTATGTATTTTTAAATT-TA-
1 TTAT-TATTTTTAAATTATAT
**
103133 TTATTAAATTTAAATTATAT
1 TTATTATTTTTAAATTATAT
103153 TTATATATTTT
1 TTAT-TATTTT
103164 ATATACTGTC
Statistics
Matches: 24, Mismatches: 4, Indels: 4
0.75 0.12 0.12
Matches are distributed among these distances:
18 10 0.42
19 6 0.25
20 4 0.17
21 4 0.17
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.62
Consensus pattern (20 bp):
TTATTATTTTTAAATTATAT
Found at i:115209 original size:13 final size:13
Alignment explanation
Indices: 115182--115215 Score: 50
Period size: 13 Copynumber: 2.5 Consensus size: 13
115172 TATGTGTGTG
*
115182 AAATTATAAATTAT
1 AAATT-TAAAATAT
115196 AAATTTAAAATAT
1 AAATTTAAAATAT
115209 AAATTTA
1 AAATTTA
115216 TGTTTAAAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 14 0.74
14 5 0.26
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (13 bp):
AAATTTAAAATAT
Found at i:115241 original size:16 final size:17
Alignment explanation
Indices: 115220--115265 Score: 69
Period size: 16 Copynumber: 2.8 Consensus size: 17
115210 AATTTATGTT
*
115220 TAAAAATAATAAATA-A
1 TAAAAATATTAAATATA
115236 TAAAAAT-TTAAATATA
1 TAAAAATATTAAATATA
115252 TAAAAATATTAAAT
1 TAAAAATATTAAAT
115266 CAAAGTTTTA
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
15 6 0.22
16 15 0.56
17 6 0.22
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (17 bp):
TAAAAATATTAAATATA
Found at i:123985 original size:40 final size:41
Alignment explanation
Indices: 123930--124031 Score: 179
Period size: 41 Copynumber: 2.5 Consensus size: 41
123920 GCATGACATG
*
123930 TTAAGTTCTGTTTCCACGTTTAGAAAGG-AATATTACTAAA
1 TTAAGTTCTGTTTCCATGTTTAGAAAGGAAATATTACTAAA
*
123970 TTAAGTTTTGTTTCCATGTTTAGAAAGGAAATATTACTAAA
1 TTAAGTTCTGTTTCCATGTTTAGAAAGGAAATATTACTAAA
124011 TTAAGTTCTGTTTCCATGTTT
1 TTAAGTTCTGTTTCCATGTTT
124032 TTTTAGTTTT
Statistics
Matches: 58, Mismatches: 3, Indels: 1
0.94 0.05 0.02
Matches are distributed among these distances:
40 26 0.45
41 32 0.55
ACGTcount: A:0.31, C:0.11, G:0.15, T:0.43
Consensus pattern (41 bp):
TTAAGTTCTGTTTCCATGTTTAGAAAGGAAATATTACTAAA
Found at i:134061 original size:14 final size:15
Alignment explanation
Indices: 134044--134081 Score: 51
Period size: 14 Copynumber: 2.6 Consensus size: 15
134034 AAATGTTGGT
*
134044 GAAAAAAAATAAAG-
1 GAAAAAAAAGAAAGA
*
134058 GAAAGAAAAGAAAGA
1 GAAAAAAAAGAAAGA
134073 GAAAAAAAA
1 GAAAAAAAA
134082 AAGAATCCCG
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
14 12 0.60
15 8 0.40
ACGTcount: A:0.79, C:0.00, G:0.18, T:0.03
Consensus pattern (15 bp):
GAAAAAAAAGAAAGA
Found at i:141863 original size:2 final size:2
Alignment explanation
Indices: 141858--141886 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
141848 AAAACCCTTG
141858 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 A
141887 AATTTTGCTT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:146168 original size:21 final size:21
Alignment explanation
Indices: 146144--146184 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
146134 TGTATATGTG
*
146144 AAATATT-ATGTGTTTAATTAT
1 AAATATTGAT-TGTGTAATTAT
146165 AAATATTGATTGTGTAATTA
1 AAATATTGATTGTGTAATTA
146185 ATTGGTGACA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 16 0.89
22 2 0.11
ACGTcount: A:0.39, C:0.00, G:0.12, T:0.49
Consensus pattern (21 bp):
AAATATTGATTGTGTAATTAT
Found at i:146432 original size:26 final size:25
Alignment explanation
Indices: 146403--146463 Score: 70
Period size: 25 Copynumber: 2.4 Consensus size: 25
146393 GCTTCTATTA
146403 AGCACTGTGTGTGCCTACTGTCT-CCC
1 AGCACT-TGTGTG-CTACTGTCTCCCC
* * *
146429 AGCACTTATGTGCTTCTGTTTCCCC
1 AGCACTTGTGTGCTACTGTCTCCCC
146454 AGCACTTGTG
1 AGCACTTGTG
146464 CGTTTCTGTT
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
24 7 0.23
25 17 0.57
26 6 0.20
ACGTcount: A:0.13, C:0.31, G:0.21, T:0.34
Consensus pattern (25 bp):
AGCACTTGTGTGCTACTGTCTCCCC
Found at i:146470 original size:25 final size:25
Alignment explanation
Indices: 146426--146473 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
146416 CCTACTGTCT
*
146426 CCCAGCACTTATGTGCTTCTGTTTC
1 CCCAGCACTTATGCGCTTCTGTTTC
* *
146451 CCCAGCACTTGTGCGTTTCTGTT
1 CCCAGCACTTATGCGCTTCTGTT
146474 AAGTACTTCG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.10, C:0.31, G:0.19, T:0.40
Consensus pattern (25 bp):
CCCAGCACTTATGCGCTTCTGTTTC
Found at i:148529 original size:17 final size:17
Alignment explanation
Indices: 148504--148537 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
148494 AAGTTATGGA
*
148504 GGTTCTTCCACAGGATC
1 GGTTCTTCCACACGATC
*
148521 GGTTTTTCCACACGATC
1 GGTTCTTCCACACGATC
148538 TTGCTTGTAA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.18, C:0.29, G:0.21, T:0.32
Consensus pattern (17 bp):
GGTTCTTCCACACGATC
Found at i:151519 original size:13 final size:13
Alignment explanation
Indices: 151501--151525 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
151491 TATCTCTTTA
151501 GAATGTTGGGCTC
1 GAATGTTGGGCTC
151514 GAATGTTGGGCT
1 GAATGTTGGGCT
151526 ACGAGCGCCC
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:0.16, C:0.12, G:0.40, T:0.32
Consensus pattern (13 bp):
GAATGTTGGGCTC
Found at i:159201 original size:5 final size:5
Alignment explanation
Indices: 159191--159218 Score: 56
Period size: 5 Copynumber: 5.6 Consensus size: 5
159181 TGATTGAACT
159191 TTTGG TTTGG TTTGG TTTGG TTTGG TTT
1 TTTGG TTTGG TTTGG TTTGG TTTGG TTT
159219 TGGATTGTAG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.00, C:0.00, G:0.36, T:0.64
Consensus pattern (5 bp):
TTTGG
Found at i:163229 original size:20 final size:21
Alignment explanation
Indices: 163204--163245 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
163194 AAATTTTACT
*
163204 AATTTT-AAACTAAAAAATTA
1 AATTTTAAAAATAAAAAATTA
163224 AATTTTAAAAATAAAAAATTA
1 AATTTTAAAAATAAAAAATTA
163245 A
1 A
163246 TAAATACTAA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
20 6 0.30
21 14 0.70
ACGTcount: A:0.64, C:0.02, G:0.00, T:0.33
Consensus pattern (21 bp):
AATTTTAAAAATAAAAAATTA
Found at i:175032 original size:29 final size:29
Alignment explanation
Indices: 175000--175056 Score: 71
Period size: 29 Copynumber: 2.0 Consensus size: 29
174990 TTCATATAAA
* *
175000 AAATTACA-TCAAATTAAAATTCATGTATC
1 AAATTACACT-AAATAAAAAATCATGTATC
*
175029 AAATTATACTAAATAAAAAATCATGTAT
1 AAATTACACTAAATAAAAAATCATGTAT
175057 AATTTTGAGA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
29 23 0.96
30 1 0.04
ACGTcount: A:0.53, C:0.11, G:0.04, T:0.33
Consensus pattern (29 bp):
AAATTACACTAAATAAAAAATCATGTATC
Done.